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1. The identification of the 3′terminus of the 70 S RNA of murine sarcoma virus (moloney) [1972]

  • Robin, Jacqueline, Larsen, Christian Jacques, Ravicovitch, Rodica Emanöil, Bazilier, Monique, Mauchauffe, Martine, and Boiron, Michel
  • FEBS Letters; October 1972, Vol. 27 Issue: 1 p58-62, 5p

2. Immunological Comparison of Muscle Actins from Mammal, Bird and Fish [1979]

  • Benyamin, Yves, Roger, Michel, Gabrion, Jacqueline, Robin, Yvonne, and Van Thoai, Nguyen
  • FEBS Letters; June 1979, Vol. 102 Issue: 1 p69-74, 6p

3. Shape Preferences for Simple Euclidian Forms in Three Age Groups [1989]

  • Silver, Annabelle, Combs, Allan, McConnellogue, Janet, Johnson, Robin, Pickering, John, and Hicks, Jacqueline
  • Perceptual & Motor Skills; April 1989, Vol. 68 Issue: 2 p522-522, 1p

4. Serum lipid response to dietary cholesterol in subjects fed a low-fat, high-fiber diet [1989]

  • Edington, Jacqueline D., Geekie, Moira, Carter, Robin, Benfield, Lisa, Ball, Madeleine, and Mann, Jim
  • American Journal of Clinical Nutrition. July 1989, Vol. 50 Issue 1, p58, 5 p.

5. On Winning Friends and Influencing People: Action Identification and Self-Presentation Success [1992]

  • Vallacher, Robin R., Wegner, Daniel M., McMahan, Susan C., Cotter, Jacqueline, and Larsen, Kathleen A.
  • Social Cognition; Fall 1992, Vol. 10 Issue: 3 p335-355, 21p
Abstract
This study tested the performance optimality hypothesis of action identification theory in the context of self-presentation. Optimal performance is said to occur when a personally easy action is identified in relatively high level terms (i.e., the action's goals and likely effects) or a personally difficult action is identified in relatively low level terms (i.e., the action's mechanical details). To test this idea with respect to self-presentation, subjects were asked to describe themselves to either a difficult-to-impress or an easy-to-impress stranger in advance of a get-acquainted conversation with him or her. Subjects were induced to think about the self-description task in either high level terms (e.g., demonstrating their personality) or low level terms (e.g., smiling when appropriate). Support for the optimality hypothesis was obtained in subjects' self-reports of their self-presentation effectiveness and in observers' evaluations of subjects. Discussion centered on the manifestation of self-presentation nonoptimality in the early stages of relationship formation.

6. Characteristics Relating to Ovarian Cancer Risk Collaborative Analysis of 12 U.S. Case-Control Studies. VI. Nonepithelial Cancers among Adults [1992]

  • Horn-Ross, Pamela L., Whittemore, Alice S., Harris, Robin, and Itnyre, Jacqueline
  • Epidemiology; November 1992, Vol. 3 Issue: 6 p490-495, 6p
Abstract
Nonepithelial ovarian cancers are rare, and little is known about their etiology. Of particular interest are the effects of oral contraceptive use and pregnancy, both of which are associated with large decreases in risk for epithelial ovarian cancer. We examined the risk factors for nonepithelial ovarian tumors by combining data from four case-control studies conducted in the United States. We compared personal characteristics of 38 germ cell cases and 45 stromal cases, respectively, with 1,142 and 2,617 general population controls. All subjects were over age 18 years. For germ cell tumors, there was a weak negative association with parity but no consistent pattern of decreasing risk with increasing parity. In contrast, relative to nulligravid women, gravid nulliparous women were at increased risk of developing a germ cell cancer odds ratio (OR) 4.8, 95 confidence interval (CI) 1.2-18.61. The use of oral contraceptives was also associated with elevated risk (OR 2.0,95 CI 0.77- 5.1); however, no clear trends in risk were observed. For stromal tumors, oral contraceptive use was associated with decreased risk (OR 0.37, 95 CI 0.16-0.83), whereas pregnancy was associated with a small elevation in risk. A trend of increasing risk with increasing age at first term pregnancy was observed, with an odds ratio of 3.6 (95 CI 1.0-12.5) for a first birth after age 29 years. Risk factors for nonepithelial ovarian cancers do not appear to parallel each other or those for epithelial ovarian cancer. (Epidemiology 1992;3490-495)

7. Characteristics Relating to Ovarian Cancer Risk: Collaborative Analysis of 12 US Case-Control Studies: I. Methods [1992]

  • Whittemore, Alice S., Harris, Robin, Itnyre, Jacqueline, Halpern, Jerry, and Group, the Collaborative Ovarian Cancer
  • American Journal of Epidemiology; November 1992, Vol. 136 Issue: 10 p1175-1175, 1p
Abstract
Data from 12 US case-control studies of ovarian cancer, conducted during the period 1956–1986 and representing some 3, 000 cases and 10,000 controls, were pooled and reanalyzed. Separate analyses were conducted for four subgroups of the pooled data: invasive epithelial ovarian cancers in white women; epithelial ovarian cancers of low malignant potential in white women, epithelial ovarian cancers in black women, and nonepithelial ovarian cancers. This paper gives a brief description of the participating studies and describes the methods used in the collaborative analysis. Am J Epidemiol1992; 136: 1175–83

8. Characteristics Relating to Ovarian Cancer Risk: Collaborative Analysis of 12 US Case -Control Studies: II. Invasive Epithelial Ovarian Cancers in White Women [1992]

  • Whittmore, Alice S., Harris, Robin, Itnyre, Jacqueline, and Group, the Collaborative Ovarian Cancer
  • American Journal of Epidemiology; November 1992, Vol. 136 Issue: 10 p1184-1184, 1p
Abstract
Data collected from 2,197 white ovarian cancer patients and 8,893 white controls in 12 US case-control studies conducted in the period 1956–1986 were used to evaluate the relation of invasive epithelial ovarian cancer to reproductive and menstrual characteristics, exogenous estrogen use, and prior pelvic surgeries. Clear trends of decreasing risk were evident with increasing number of pregnancies (regardless of outcome) and increasing duration of breast feeding and oral contraceptive use. Ovarian dysfunction leading to both infertility and malignancy is an unlikely explanation for these trends for several reasons: 1) The trends were evident even among the highly parous; 2) risk among nulliparous women did not vary by marital status or gravidity; and 3) risk among ever-married women showed little relation to length of longest pregnancy attempt or history of clinically diagnosed infertility. Risk was increased among women who had used fertility drugs and among women with long total duration of premenopausal sexual activity without birth control; these associations were particularly strong among the nulligravid. No consistent trends in risk were seen with age at menarche, age at menopause, or duration of estrogen replacement therapy. A history of tubal ligation or of hystereclomy with ovarian conservation was associated with reduced ovarian cancer risk. These observations suggest that pregnancy, breast feeding, and oral contraceptive use induce biological changes that protect against ovarian malignancy, that, at most, a small fraction of the excess ovarian cancer risk among nulliparous women is due to infertility, and that any increased risk associated with infertility may be due to the use of fertility drugs. Am J Epidemiol 1992; 136: 1184–1203

9. Characteristics Relating to Ovarian Cancer Risk: Collaborative Analysis of 12 US Case-Control Studies: III. Epithelial Tumors of Low Malignant Potential in White Women [1992]

  • Harris, Robin, Whittemore, Alice S., Itnyre, Jacqueline, and Group, the Collaborative Ovarian Cancer
  • American Journal of Epidemiology; November 1992, Vol. 136 Issue: 10 p1204-1204, 1p
Abstract
Epithelial ovarian neoplasms of low malignant potential, also called borderline ovarian tumors, have various features of malignancy, but they do not invade the ovarian stroma. Women with these tumors usually are younger when diagnosed and have better prognoses than do women with invasive tumors. There have been few epidemiologic studies of borderline tumors, and it is unclear whether there are etiologic differences between the two types of tumor behavior. Combined data from nine case-control studies, conducted from 1974 to 1986 and representing 327 white women with tumors of low malignant potential and 4, 144 white controls, were used to evaluate the relation between these tumors and personal characteristics related to invasive ovarian cancer. The risk profile for tumors of low malignant potential was found to be similar to that for invasive tumors, with two exceptions: Compared with that of invasive tumors, risk of borderline tumors was less clearly reduced among women who had used oral contraceptives and more clearly elevated among women with a history of Infertility. Am J Epidemiol 1992; 136: 1204–11

10. Characteristics Relating to ovarian Cancer Risk: Collaborative Analysis of 12 US case-Control Studies: IV. The Pathogenesis of Epithlial Ovarian Cancer [1992]

  • Whittemore, Alice S., Harris, Robin, ltnyre, Jacqueline, and Group, the Collaborative Ovarian Cancer
  • American Journal of Epidemiology; November 1992, Vol. 136 Issue: 10 p1212-1212, 1p
Abstract
Two hypotheses have been proposed to explain the reduced risk of epithelial ovarian cancer associated with pregnancy and oral contraceptive use. The first states that some sequelae of ovulation increase the likelihood of malignancy and that pregnancies and oral contraceptives protect by suppressing ovulation. The second hypothesis states that circulating levels of pituitary gonadotropins increase the risk of malignancy and that pregnancies and oral contraceptives protect by suppressing secretion of these hormones. The authors evaluate the two hypotheses in light of combined data from 12 United States case-oxitrol studies of epithelial ovarian cancer in white women conducted from 1956 to 1986. While a number of observations support both hypotheses, there are exceptions. Differential risk reduction associated with pregnancy and oral contraceptive use (pregnancy being the more effective in young women and the less effective in older women) conflicts with the first “ovulation” hypothesis, while reduced risk associated with breast feeding and absence of altered risk associated with estrogen replacement therapy conflicts with the second “gonadotropin” hypothesis. Several findings would not have been predicted by either hypothesis, e.g., only weak trends relate cancer risk to age at menarche, and, among older women, no clear trends relate risk to age at menopause. Odds ratio attenuation due to errors in reporting personal characteristics may be responsible for some of these inconsistencies. Multidisciplinary research is needed to clarify the etkrfogic roles of ovulation and gonadotropin stimulation, both of which may enhance carcinogenesis in the ovarian epithelium. Am J Epidemiol 1992: 136: 1212–20

11. Characteristics Relating to Ovarian Cancer Risk: Collaborative Analysis of Seven U.S. Case-Control Studies. Epithelial Ovarian Cancer in Black Women [1993]

  • John, Esther M., Whittemore, Alice S., Harris, Robin, Itnyre, Jacqueline, and Group, Collaborative Ovarian Cancer
  • JNCI Journal of the National Cancer Institute; January 1993, Vol. 85 Issue: 2 p142-142, 1p
Abstract
Background Previous epidemiologic studies of ovarian cancer have focused chiefly on White women, who have a higher incidence of ovarian cancer than Black women. No study has previously examined risk factors for ovarian cancer among Black women. Purpose This study was designed to evaluate the risk of epithelial ovarian cancer in Black women in relation to reproductive characteristics such as pregnancy, oral contraceptive use, and breast-feeding, and to determine whether differences in reproductive factors between Black and White women account for differences in ovarian cancer incidence. Methods Combining interview data from seven case-control studies, we compared reproductive characteristics of 110 Black case subjects with a diagnosis of epithelial ovarian cancer between 1971 and 1986 with characteristics of 251 Black population control subjects and 114 Black hospital control subjects. We also compared the prevalence of reproductive factors in 246 Black population control subjects and 4378 White population control subjects and estimated the fraction of Black-White differences in ovarian cancer incidence attributable to racial differences in prevalence of these characteristics. Results Decreased risks of epithelial ovarian cancer in Black women were associated with parity of four or higher (odds ratio [OR]=0.53; 95% confidence interval [CI]=0.25–1.1), breast-feeding for 6 months or longer (OR=0.85; 95% CI=0.36–2.0), and use of oral contraceptives for 6 years or longer (OR=0.62; 95% CI=0.24–1.6). A greater proportion of Black women (48%) than White women (27%) reported four or more term pregnancies, and Black women (62%) were more likely than White women (53%) to have breast-fed their children. Oral contraceptive use was more common among White women (59%) than Black women (51%). Conclusions Differences in the prevalence of other factors related to ovarian cancer risk or differences in genetic susceptibility must explain most of the Black-White differences in incidence of ovarian cancer. [J Natl Cancer Inst 85:142–147, 1993]

12. New barriers to ventricular invasion in paraglottic laryngeal cancer [1994]

  • Beitler, Jonathan J., Mahadevia, Panna S., Silver, Carl E., Wadler, Scott, Rubin, John S., Bello, Jacqueline A., Mitnick, Robin J., and Vikram, Bhadrasain
  • Cancer. May 15, 1994, Vol. 73 Issue 10, p2648, 5 p.

13. Developmental Expression of the Sea Urchin Egg Receptor for Sperm [1994]

  • Ohlendieck, Kay, Partin, Jacqueline S., Stears, Robin L., and Lennarz, William J.
  • Developmental Biology; September 1994, Vol. 165 Issue: 1 p53-62, 10p
Abstract
Little is known about the biochemical changes underlying the morphological differentiation of the sea urchin egg during oogenesis. Because of this and the essential role of gamete recognition in fertilization, we studied the developmental expression of the recently identified egg surface receptor for sperm during oogenesis. Consecutive stages of ovaries undergoing oogenesis over a 4-month time course were examined morphologically and assessed with respect to content of sperm receptor mRNA, as well as the content and subcellular distribution of the sperm receptor glycoprotein. Although in early oocyte stages neither mRNA encoding for the receptor nor receptor glycoprotein was detectable, at the last two stages of development the level of receptor mRNA accumulation increased dramatically. This finding correlated well with immunoblot analyses which established that sperm receptor protein was only detectable at the last two stages of egg maturation. Interestingly, immunocytochemistry showed that the formation of the receptor correlated temporally and spatially with the formation of cortical granules. In the earlier of these two stages of maturation, the receptor population identified by immunoblotting was found by immunocytochemistry to be restricted to the cortical granules and small vesicles in the cytoplasm. In contrast, at the last stage of egg maturation, sperm receptor was also detected at the surface of the oocyte, localized predominantly to the microvilli. Two receptor populations appear to exist, one in cortical granules and a second at the cell surface that may be formed via secretory vesicles. The late appearance of the receptor on the plasma membrane during oogenesis is consistent with its biological role in binding sperm to the mature egg cell surface.

14. The Use of Magnetic Resonance Angiography prior to Pharyngeal Flap Surgery in Patients with Velocardiofacial Syndrome [1996]

  • Mitnick, Robin J., Bello, Jacqueline A., GoldingKushner, Karen J., Argamaso, Ravelo V., and Shprintzen, Robert J.
  • Plastic and Reconstructive Surgery; April 1996, Vol. 97 Issue: 5 p908-919, 12p
Abstract
Twenty consecutive patients with velocardiofacial syndrome underwent magnetic resonance angiography MRA to determine if abnormalities of the neck arteries would contraindicate pharyngeal flap surgery. All 20 patients were found to have anomalies of the carotid arteries, vertebral arteries, or both. Anomalies included tortuous or kinked vertebral arteries, medially placed internal carotids, low carotid bifurcations, and tortuous or kinked internal carotids. The internal carotids were found to be almost directly under the mucous membrane of the pharynx in two patients. In these two patients, the arteries were close to the pharyngeal midline at the base of the first cervical vertebra and might easily be severed during the raising of a pharyngeal flap. Hypoplastic vertebral arteries also were found. One patient had an extra neck vessel. The anomalies of the internal carotids did not have a strong correlation with endoscopically observed pulsations in the posterior pharyngeal wall. It also was found that head position affected the location of the internal carotid arteries when they were located close to the pharyngeal mucous membrane. The information provided in the MRA studies allowed assessment of the arterial anomalies in relation to the flap donor site so that the patients in the sample who underwent pharyngeal flap surgery using a short superiorly based flap had no major bleeding complications. Plast. Reconstr. Surg. 97 908, 1996.

15. Internal medicine student clubs in U.S. medical schools [1996]

  • Albritton, T., Fincher, Ruth-Marie, Mutha, Sunita, Womeodu, Robin, Kirk, Lynne, Peterson, Jacqueline, and Carson, Jeffrey
  • Journal of General Internal Medicine; July 1996, Vol. 11 Issue: 7 p440-440, 1p

16. HIV Continuum of Care: Challenges in Management [1996]

  • Goldenberg, Robin I., Bell, Stefanie H., Wright, Jacqueline, Brodeur, Sharon E., Turjanica, Mary Ann, Beckman, Loretta, and Warker, Nancy
  • Home Health Care Management and Practice; October 1996, Vol. 8 Issue: 6 p1-10, 10p
Abstract
The human immunodeficiency virus (HIV) continuum of care within the Inova Health System (IHS) has three levels of management: individual case management, linkage management, and disease-state management. Individual case management takes place at each operating unit— physician's office, hospital, home health care setting, or hospice—and has a multidisciplinary team that addresses treatment, education, therapy, and counseling. Inova Home Health and Hospice of Northern Virginia developed a staging tool to objectively determine the appropriate level of care and to provide a seamless transition between home health care and hospice. Inova's HIV Services provides the disease management component, incorporating proactive and cost-effective management of patients through the disease life cycle and across all settings.

17. Uncertainties in field-line tracing in the magnetosphere. Part I: the axisymmetric part of the internal geomagnetic field [1997]

  • Willis, D. M., Singh, J. Robin, and Comer, Jacqueline
  • Annales Geophysicae; February 1997, Vol. 15 Issue: 2 p165-180, 16p
Abstract
The technique of tracing along magnetic field lines is widely used in magnetospheric physics to provide a “magnetic frame of reference” that facilitates both the planning of experiments and the interpretation of observations. The precision of any such magnetic frame of reference depends critically on the accurate representation of the various sources of magnetic field in the magnetosphere. In order to consider this important problem systematically, a study is initiated to estimate first the uncertainties in magnetic-field-line tracing in the magnetosphere that arise solely from the published (standard) errors in the specification of the geomagnetic field of internal origin. Because of the complexity in computing these uncertainties for the complete geomagnetic field of internal origin, attention is focused in this preliminary paper on the uncertainties in magnetic-field-line tracing that result from the standard errors in just the axisymmetric part of the internal geomagnetic field. An exact analytic equation exists for the magnetic field lines of an arbitrary linear combination of axisymmetric multipoles. This equation is used to derive numerical estimates of the uncertainties in magnetic-field-line tracing that are due to the published standard errors in the axisymmetric spherical harmonic coefficients (i.e. gn0 ± dgn0). Numerical results determined from the analytic equation are compared with computational results based on stepwise numerical integration along magnetic field lines. Excellent agreement is obtained between the analytical and computational methods in the axisymmetric case, which provides great confidence in the accuracy of the computer program used for stepwise numerical integration along magnetic field lines. This computer program is then used in the following paper to estimate the uncertainties in magnetic-field-line tracing in the magnetosphere that arise from the published standard errors in the full set of spherical harmonic coefficients, which define the complete (non-axisymmetric) geomagnetic field of internal origin. Numerical estimates of the uncertainties in magnetic-field-line tracing in the magnetosphere, calculated here for the axisymmetric part of the internal geomagnetic filed, should be regarded as “first approximations” in the sense that such estimates are only as accurate as the published standard errors in the set of axisymmetric spherical harmonic coefficients. However, all procedures developed in this preliminary paper can be applied to the derivation of more realistic estimates of the uncertainties in magnetic-field-line tracing in the magnetosphere, following further progress in the determination of more accurate standard errors in the spherical harmonic coefficients.

18. Ki-67 Antigen Staining as an Adjunct to Identifying Cervical Intraepithelial Neoplasia [1997]

  • Dunton, Charles J., van Hoeven, Karen H., Kovatich, Al J., Oliver, Robin E., Scacheri, Robert Q., Cater, Jacqueline R., and Carlson, John A.
  • Gynecologic Oncology; March 1997, Vol. 64 Issue: 3 p451-455, 5p
Abstract
The purpose of the work was to determine the feasibility and predictive value of Ki-67 immunostaining of cervical cytology and the detection of cervical dysplasia. Air-dried cervical smears were stained with MIB-1 antibody to identify the Ki-67 antigen. Nuclear decoration in abnormal squamous nuclei determined immunoreactivity. One hundred twenty-four nonpregnant patients underwent colposcopy and directed biopsies for abnormal cytology. Sensitivity (0.89), specificity (0.65), positive predictive value (0.60), and negative predictive value (0.91) were found for Ki-67 immunostaining in detection of high-grade cervical intraepithelial neoplasia (CIN) in 124 patients and positive Ki-67 staining was a significant predictor of high-grade CIN in both univariate (odds ratio 15.5 (95% CI 5.5–43.8) and multivariable (odds ratio 21.5 (95% CI 5.0–92.0) analysis. In 101 patients with ASCUS and LGSIL, Ki-67 immunostaining demonstrated the following in detection of high-grade CIN: sensitivity (0.96), specificity (0.67), positive predictive value (0.49), and negative predictive value (0.98). Ki-67 immunostaining of cervical cytology is a predictor of significant cervical pathology with high sensitivity and negative predictive value. Ki-67 immunostaining of cervical cytology may represent a new and cost-effective triage tool for patients with minor abnormalities on cytology.

19. The Efficacy and Effectiveness of Process Consultation in Improving Staff Morale and Absenteeism [1997]

  • Weir*, Robin, †, Stewart*, Larry, †, ‡, Browne*, Gina, †, §, ¶, Roberts*, Jacqueline, §, ¶, Gafni§, Amiram, ¶, Easton*, Sandra, †, ‡, and Seymour‡, Louise
  • Medical Care; April 1997, Vol. 35 Issue: 4 p334-353, 20p
Abstract
The purpose of this randomized controlled trial was to test the efficacy and effectiveness of process consultation consisting of a series of nurse manager-consultant problem-solving meetings for leadership development that would lead to their staff's improved morale, quality of care, and reduced absenteeism.

20. CD4-Independent Infection by HIV-2 (ROD/B): Use of the 7-Transmembrane Receptors CXCR-4, CCR-3, and V28 for Entry [1997]

  • Reeves, Jacqueline D., McKnight, ÁINE, Potempa, Sandra, Simmons, Graham, Gray, Patrick W., Power, Christine A., Wells, Timothy, Weiss, Robin A., and Talbot, Simon J.
  • Virology; April 1997, Vol. 231 Issue: 1 p130-134, 5p
Abstract
We have assayed a variety of 7tm chemokine receptors (CCR-2b, CCR-3, CCR-4, CCR-5, CXCR-1, CXCR-4) and two orphan 7tm receptors (V28 and EBI.1) for their ability to allow infection of CD4-negative feline kidney CCC cells by the HIV-2 strains ROD/A and ROD/B. We found that ROD/B was able to use CXCR-4 transiently expressed in CCC cells, and infection by ROD/A was enhanced 15-fold in the presence of sCD4. Feline CCC cells also became permissive to ROD/B and ROD/A entry when transiently transfected with the chemokine receptor CCR-3 or the orphan 7tm receptor V28, when cultured in the presence of sCD4. Entry of ROD/A into CCC cells expressing CCR-3 could be blocked by 800 ng/ml eotaxin, the natural ligand for CCR-3.

21. An evaluation of peer and professional trainers in a union-based occupational health and safety training program [1997]

  • Kurtz, Jacqueline R., Robins, Thomas G., and Schork, M. Anthony
  • Journal of Occupational and Environmental Medicine. July 1997, Vol. 39 Issue 7, p661, 11 p.

22. Reactivity of carbanions of Fischer-type carbene complexes with pyrylium salts. Synthesis of new γ-methylenepyran carbene complexes via an addition-oxidation-deprotonation process [1998]

  • Caro, Bertrand, Le Poul, Pascal, Robin-Le Guen, Françoise, Sénéchal-Tocquer, Marie-Claude, and Vaisserman, Jacqueline
  • Tetrahedron Letters; January 1998, Vol. 39 Issue: 7 p557-560, 4p
Abstract
The condensation reaction between γ-unsubstituted pyrylium salts and carbanions of Fischer-type carbene complexes allowed the synthesis of new γ-methylenepyran carbene complexes. 13C NMR data and single cristal X-ray analysis suggest a delocalisation of the oxygene lone pair of the heterocycle.

23. Randomised trial of isoniazid versus rifampicin and pyrazinamide for prevention of tuberculosis in HIV-1 infection [1998]

  • Halsey, Neal A, Coberly, Jacqueline S, Desormeaux, Julio, Losikoff, Phyllis, Atkinson, Joan, Moulton, Lawrence H, Contave, Mireil, Johnson, Michael, Davis, Homer, Geiter, Lawrence, Johnson, Erica, Huebner, Robin, Boulos, Reginald, and Chaisson, Richard E
  • The Lancet; March 1998, Vol. 351 Issue: 9105 p786-792, 7p

24. Latanoprost treatment for glaucoma: effects of treating for 1 year and of switching from timolol [1998]

  • Camras, Carl B., Wax, Martin B., Ritch, Robert, Weinreb, Robert, Robin, Alan L., Higginbotham, Eve J., Lustgarten, Jacqueline, Stewart, William C., Sherwood, Mark, Krupin, Theodore, Wilensky, Jacob, Cioffi, George A., Katz, L. Jay, Schumer, Robert A., Kaufman, Paul L., Minckler, Don, Zimmerman, Thom, and Stjernschantz, Johan
  • American Journal of Ophthalmology. Sept 1998, Vol. 126 Issue 3, p390, 10 p.

25. Enterocytic differentiation of the human Caco-2 cell line correlates with alterations in integrin signaling [1998]

  • Lévy, Peggy, Robin, Hélène, Kornprobst, Michel, Capeau, Jacqueline, and Cherqui, Gisèle
  • Journal of Cellular Physiology; December 1998, Vol. 177 Issue: 4 p618-627, 10p
Abstract
We previously reported that the enterocytic differentiation of human colonic Caco-2 cells correlated with down-regulation of fibronectin (FN) and laminin (LN), two extracellular matrix components interacting with cell surface integrin receptors. We now investigated whether Caco-2 cell differentiation was associated with alterations in integrin signaling with special interest in the expression and activity of focal adhesion kinase (FAK) and mitogen-activated protein (MAP) kinase. The differentiation of Caco-2 cells was associated with: 1) down-regulation of β1 integrin expression at the mRNA and protein levels; 2) increased FAK expression together with decreased FAK autophosphorylation; 3) decreased FAK's ability to associate with PI3-kinase and pp60c-src; and 4) increased MAP kinase expression along with decreased MAP activity. In addition, we show that FAK and MAP kinase belong to distinct integrin signaling pathways and that both pathways remain functional during Caco-2 cell differentiation since the coating of differentiating cells on FN and LN but not on polylysine increased the tyrosine phosphorylation of FAK and of its endogenous substrate paxillin, and stimulated MAP kinase activity. In conclusion, our results provide evidence that FAK and MAP kinase, two signaling molecules activated independently by β1 integrins in Caco-2 cells, undergo alterations of both expression and activity during the enterocytic differentiation of this cell line. J Cell Physiol 177:618627, 1998. © 1998 Wiley-Liss, Inc.

26. Insulin Antiapoptotic Signaling Involves Insulin Activation of the Nuclear Factor κB-dependent Survival Genes Encoding Tumor Necrosis Factor Receptor-associated Factor 2 and Manganese-superoxide Dismutase* [1999]

  • Bertrand, France, Desbois-Mouthon, Christèle, Cadoret, Axelle, Prunier, Céline, Robin, Hélène, Capeau, Jacqueline, Atfi, Azeddine, and Cherqui, Gisèle
  • Journal of Biological Chemistry; October 1999, Vol. 274 Issue: 43 p30596-30602, 7p
Abstract
We recently showed that the antiapoptotic function of insulin requires nuclear factor κB (NF-κB) activation (Bertrand, F., Atfi, A., Cadoret, A., L'Allemain, G., Robin, H., Lascols, O., Capeau, J., and Cherqui, G. (1998) J. Biol. Chem.273, 2931–2938). Here we sought to identify the NF-κB-dependent survival genes that are activated by insulin to mediate this function. Insulin increased the expression of tumor necrosis factor receptor-associated factor 2 (TRAF2) mRNA and protein in Chinese hamster ovary cells overexpressing insulin receptors (IRs). This effect required (i) IR activation since it was abrogated by IR mutation at tyrosines 1162 and 1163 and (ii) NF-κB activation since it was abolished by overexpression of dominant-negative IκB-α(A32/36) and mimicked by overexpression of the NF-κB c-Rel subunit. TRAF2 contributed to insulin protection against serum withdrawal-induced apoptosis since TRAF2 overexpression mimicked insulin protection, whereas overexpression of dominant-negative TRAF2-(87–501) reduced this process. Along with its protective effect, overexpressed TRAF2 increased basal and insulin-stimulated NF-κB activities. All effects were inhibited by IκB-α(A32/36), suggesting that an amplification loop involving TRAF2 activation of NF-κB is implicated in insulin antiapoptotic signaling. We also show that insulin increased manganese-superoxide dismutase (Mn-SOD) mRNA expression through NF-κB activation and that Mn-SOD contributed to insulin antiapoptotic signaling since expression of antisense Mn-SOD RNA decreased this process. This study provides the first evidence that insulin activates the NF-κB-dependent survival genes encoding TRAF2 and Mn-SOD and thereby clarifies the role of NF-κB in the antiapoptotic function of insulin.

27. Book reviews and notices [2000]

  • Trasi, Nitin, Clooney, Francis, Hibbets, Maria, Cronk, George, Hatcher, Brian, Rinehart, Robin, Prentiss, Karen, French, Hal, Clooney, Francis, Bellantoni, Lisa, Korom, Frank, Menzies, Robert, Bailly, Constantina, Flood, Gavin, Manring, Rebecca, Biernacki, Loriliai, Pennington, Brian, Grimes, John, MacPhail, Richard, Wallis, Glenn, Thatamanil, John, Grimes, John, Forsthoefel, Thomas, Cush, Denise, Saikia, Yasmin, Bracken, Joseph, Vail, Lise, Hirst, Jacqueline, Trapnell, Judson, Findly, Ellison, Waldau, Paul, Johnson, D., and Grimes, John
  • International Journal of Hindu Studies; April 2000, Vol. 4 Issue: 1 p61-107, 47p

28. Telangiectasia macularis eruptiva perstans and multiple myeloma [2000]

  • Bachmeyer, Claude, Guillemette, Jacqueline, Blum, Laurent, Turc, Yves, DhA[acute accent]te, Robin, Fermand, Jean-Paul, and Aractingi, Selim
  • Journal of the American Academy of Dermatology. Nov 2000, Vol. 43 Issue 5, p972, 3 p.

29. Linkage and association analysis of chromosome 19q13 in multiple sclerosis [2001]

  • Pericak-Vance, Margaret, Rimmler, Jacqueline, Martin, Eden, Haines, Jonathan, Garcia, Melissa, Oksenberg, Jorge, Barcellos, Lisa, Lincoln, Robin, Goodkin, Donald, and Hauser, Stephen
  • neurogenetics; 20011001, Vol. 3 Issue: 4 p195-201, 7p
Abstract
Abstract.: Multiple sclerosis (MS) is an autoimmune neurological disorder with a complex etiology. Sibling risk, twin, and adoption studies have demonstrated that genes play a vital role in susceptibility to MS. Numerous association and linkage studies have implicated the major histocompatibility complex (MHC) as one component of the genetic etiology, but additional loci remain to be identified. Genomic screens have suggested over 50 regions that might harbor these genes, but there has been little agreement between studies. The one region suggested by all four screens resides within chromosome 19q13. Allelic associations with several markers in this region have also been described. This region has now been examined in detail in an expanded dataset of MS families from the United States. Genetic linkage and association were tested with multiple markers in this region using both parametric and non-parametric analyses. Additional support for an MS susceptibility locus was observed, primarily in families with the MS-associated HLA-DR2 allele. While consistent, this effect appears to be modest with a maximum λS=1.47, probably representing no more than 10% of the overall genetic effect in MS.

30. Toxic equivalency factors for PAH and their applicability in shellfish pollution monitoring studies [2002]

  • Law, Robin J., Kelly, Carole, Baker, Kerry, Jones, Jacqueline, McIntosh, Alistair D., and Moffat, Colin F.
  • Journal of Environmental Monitoring; May 24, 2002, Vol. 4 Issue: 3 p383-388, 6p
Abstract
Fish and shellfish are exposed to a wide range of polycyclic aromatic hydrocarbons (PAH) following oil spills at sea, and can become contaminated as a result. Finfish have a more effective mixed-function oxidase enzyme system than shellfish, and are therefore able to metabolise and excrete PAH more effectively than the invertebrates. Thus, contamination by high-molecular weight PAH, including those with carcinogenic potential and so of concern with regard to human consumers, is therefore usually observed in shellfish, and particularly in bivalve molluscs. Oil spills are not the sole source of PAH, however, as parent compounds are also generated by a wide range of combustion processes. In this paper, consideration is given to monitoring data gathered following recent oil spills (both of crude oil and diesel fuel), alongside data from other studies. These include studies conducted around a former gasworks site and downstream of an aluminium smelter in the UK, and from mussel monitoring studies undertaken in the UK and the USA (including the Exxon Valdez oil spill and the National Status and Trends programme), and in other countries in Europe. For comparative purposes the PAH concentrations are summed and also expressed as benzo[a]pyrene equivalents, their relative concentrations being weighted in relation to the carcinogenic potential of individual PAH compounds using toxic equivalency factors (TEF). Our aim was to assess the utility of this approach in fishery resource monitoring and control following oil spills. Certainly this approach seems useful from the data assessed in this study, and the relative ranking of the various studies seems to reflect the relative degree of concern for human consumers due to the differing contamination sources. As a simple tool for control purposes it is equally applicable to PAH derived from oil spills, and from industrial and combustion sources.

31. Antithrombin ‘DREUX’ (Lys114Glu): A Variant with Complete Loss of Heparin Affinity [2002]

  • Mushunje, Alec, Zhou, Aiwu, Huntington, James A., Conard, Jacqueline, and Carrell, Robin W.
  • Thrombosis and Haemostasis; September 2002, Vol. 88 Issue: 3 p436-443, 8p

32. The wages of sin: will the Vice Fund lead down the road to perdition? [2002]

  • Blumenthal, Robin Goldwyn and Doherty, Jacqueline
  • Barron's. Oct 7, 2002, Vol. 82 Issue 40, p12, 1 p.

33. Health effects of World Trade Center site workers [2002]

  • Levin, Stephen, Herbert, Robin, Skloot, Gwen, Szeinuk, Jaime, Teirstein, Alvin, Fischler, David, Milek, Debra, Piligian, George, Wilk‐Rivard, Elizabeth, and Moline, Jacqueline
  • American Journal of Industrial Medicine; December 2002, Vol. 42 Issue: 6 p545-547, 3p

34. Evaluation of Urgotul plus K-Four compression for venous leg ulcers [2004]

  • Smith, Jacqueline, Hill, Jayne, Barrett, Simon, Hayes, Wendy, Kirby, Pamela, Walsh, Sally, Gittins, Eleri, Whitehurst, Fran, and Cooper, Robin
  • British Journal of Nursing; March 2004, Vol. 13 Issue: Supplement 1 pS20-S28, 9p
Abstract
In this non-comparative clinical evaluation, 36 subjects with venous leg ulcers, 85% of which were indolent or deteriorating, were treated with Urgotul® lipidocolloid wound dressing and the K-Four® multilayer compression bandaging system for 12 weeks or to healing — whichever occurred first. Results show that Urgotul® was an ideal dressing in combination with K-Four®, being easy to apply (98.7%) and remove (98.1%), and largely pain-free (95.6%) and non-adherent (99.7%). In a patient group of ‘hard-to-heal’ ulcers, 50% of the ulcers healed within the treatment period. Ulcers not healed after 12 weeks achieved almost 50% area reduction on average. The treatment combination proved safe, with only one of seven adverse events reported being probably related to the products used. This study supports the use of a combination of Urgotul® dressing and K-Four® compression to provide a ‘matched’ treatment for venous leg ulcers.

35. Characteristics of people living with HIV who use community-based services in Ontario, Canada: Implications for service providers [2005]

  • Williams, Peter, Narciso, Lea, Browne, Gina, Roberts, Jacqueline, Weir, Robin, and Gafni, Amiram
  • Journal of the Association of Nurses in AIDS Care. July-August 2005, Vol. 16 Issue 4, p50, 14 p.

36. A Case of "Ifufunyane" A Xhosa Culture-Bound Syndrome [2005]

  • NIEHAUS, DANA J. H., STEIN, DAN J., KOEN, LIEZL, LOCHNER, CHRISTINE, MULLER, JACQUELINE E., MBANGA, N. IRENE, EMSLEY, ROBIN A., and GORMAN, JACK M.
  • Journal of Psychiatric Practice; November 2005, Vol. 11 Issue: 6 p411-413, 3p

37. Community-Associated Methicillin-Resistant Staphylococcus aureusEpidemic Clone USA300 in Isolates from Florida and Washington [2006]

  • Roberts, Jill C., Krueger, Robin L., Peak, K. Kealy, Veguilla, William, Cannons, Andrew C., Amuso, Philip T., and Cattani, Jacqueline
  • Journal of Clinical Microbiology; January 2006, Vol. 44 Issue: 1 p225-226, 2p
Abstract
ABSTRACTWe examined 299 methicillin-resistant, community-associated Staphylococcus aureusisolates from Florida and Washington State for the presence of the USA300 epidemic clone. Pulsed-field gel electrophoresis demonstrated the epidemic clone in 43% of our S. aureusstrains and in isolates from both states. The majority of the USA300 isolates (88%) were from wound infections.

38. Lessons Learned Combining N-of-1 Trials to Assess Fibromyalgia Therapies [2006]

  • ZUCKER, DEBORAH, RUTHAZER, ROBIN, SCHMID, CHRISTOPHER, FEUER, JACQUELINE, FISCHER, PETER, KIEVAL, RAPHAEL, MOGAVERO, NICOLA, RAPOPORT, RONALD, SELKER, HARRY, STOTSKY, SHARON, WINSTON, EILEEN, and GOLDENBERG, DON
  • Journal of Rheumatology; October 2006, Vol. 33 Issue: 10 p2069-2077, 9p
Abstract
OBJECTIVE: Applying population research to individual treatment requires understanding the connections between patient-specific characteristics, population-based studies, and treatment responses. Conducting practice-based research using individual-focused (N-of-1) trials may aid this process. We combined N-of-1 trials to compare fibromyalgia therapies and to assess the feasibility and outcomes of this approach for practice-based effectiveness research. METHODS: Community- and center-based rheumatologists enrolled patients with fibromyalgia syndrome in randomized, double-blind, multi-crossover, N-of-1 trials comparing amitriptyline and the combination amitriptyline and fluoxetine. Fibromyalgia Impact Questionnaire outcomes were used for the individuals' treatment and combined across patients for sample-based analyses. Outcomes were compared with results from more standard trial designs. RESULTS: Eight rheumatologists enrolled 58 patients in N-of-1 trials. Most physicians and patients had not previously participated in clinical trials. Using several analytic methods, the pooled results showed a better outcome score (mean difference: –6.1 ± 2.0 to –8.0 ± 3.7 points) in patients taking combination therapy. These population results are similar to published outcomes from a more traditional crossover trial. Neither practice type nor patient characteristics were significantly associated with the observed treatment-effect variation. Most participants, irrespective of selected treatment, felt their individual N-of-1 trials were helpful. CONCLUSION: Implementation of the combined N-of-1 methodology is feasible in rheumatology practices and results confirm greater fibromyalgia improvement with combination therapy. This research approach broadens participation, although our trials' specifics likely influenced enrollment eligibility. In addition to individual benefits, combining N-of-1 trial data provides population research benefits. This patient-focused approach should be further explored to bridge research and practice.

39. Reducing Fall Risk for Frail Older Home-Care Clients Using a Multifactorial and Interdisciplinary Team Approach [2007]

  • Markle-Reid, Maureen, Henderson, Sandra, Hecimovich, Catherine, Baxter, Pamela, Anderson, Malcolm, Browne, Gina, Weir, Robin, Gafni, Amiram, and Roberts, Jacqueline
  • Journal of Patient Safety; September 2007, Vol. 3 Issue: 3 p149-157, 9p
Abstract
This article describes the background and design of a study that is currently in progress. The objective of the study is to evaluate the 6-month effects and costs of a multifactorial and interdisciplinary team approach to fall prevention compared with usual home care for frail older people at risk for falls. The barriers and facilitators to implementing an interdisciplinary team approach in home care will also be discussed.

40. Additional EFNB1mutations in craniofrontonasal syndromeThis article is a US Government work and, as such, is in the public domain in the United States of America.How to cite this article: Wallis D, Lacbawan F, Jain M, Der Kaloustian VM, Steiner CE, Moeschler JB, Losken HW, Kaitila II, Cantrell S, Proud VK, Carey JC, Day DW, Lev D, Teebi AS, Robinson LK, Hoyme HE, AlTorki N, SiegelBartelt J, Mulliken JB, Robin NH, Saavedra D, Zackai EH, Muenke M. 2008. Additional EFNB1mutations in craniofrontonasal syndrome. Am J Med Genet Part A 146A:2008–2012. [2008]

  • Wallis, Deeann, Lacbawan, Felicitas, Jain, Mahim, Der Kaloustian, Vazken M., Steiner, Carlos E., Moeschler, John B., Losken, H. Wolfgang, Kaitila, Ilkka I., Cantrell, Stephen, Proud, Virginia K., Carey, John C., Day, Donald W., Lev, Dorit, Teebi, Ahmad S., Robinson, Luther K., Hoyme, H. Eugene, AlTorki, Nadia, SiegelBartelt, Jacqueline, Mulliken, John B., Robin, Nathaniel H., Saavedra, Dolores, Zackai, Elaine H., and Muenke, Maximilian
  • American Journal of Medical Genetics. Part A; August 2008, Vol. 146 Issue: 15 p2008-2012, 5p
Abstract
No Abstract.

41. Ovarian status in healthy postmenopausal women [2008]

  • Healy, David L., Bell, Robin, Robertson, David M., Jobling, Tom, Oehler, Martin K., Edwards, Andrew, Shekleton, Paul, Oldham, Jacqueline, Piessens, Sofie, Teoh, Mark, Mamers, Pamela, Taylor, Nancy, and Walker, Frances
  • Menopause; December 2008, Vol. 15 Issue: 6 p1109-1114, 6p
Abstract
There are currently no programs to assess ovarian health in postmenopausal women. The aim of this study was to describe the ovaries in healthy women at least 5 years after menopause by questionnaire, transvaginal ultrasonography, and blood ovarian cancer markers.

42. Longitudinal assessment of spirometry in the World Trade Center Medical Monitoring Program [2009]

  • Skloot, Gwen S., Schechter, Clyde B., Herbert, Robin, Moline, Jacqueline M., Levin, Stephen M., Crowley, Laura E., Luft, Benjamin J., Udasin, Iris G., and Enright, Paul L.
  • Chest. Feb 2009, Vol. 135 Issue 2, p492, 7 p.

43. Does the presence of burrowing seabirds increase local invertebrate abundance? [2009]

  • Gardner-Gee, Robin and Beggs, Jacqueline R.
  • New Zealand Entomologist; February 2009, Vol. 32 Issue: 1 p41-47, 7p
Abstract
International studies have shown that the marine nutrients introduced by seabirds can increase the abundance of terrestrial invertebrates, but to date there have been few studies on this aspect of invertebrate ecology in New Zealand. This paper reports on a study conducted on Motuora Island (Hauraki Gulf), a modifi ed island that retains a remnant breeding population of grey-faced petrels (Pterodroma macroptera gouldi). The aim of the study was to assess whether petrels have positive localised impacts on the abundance of ground invertebrates in general and on beetles in particular. Pitfall trapping was carried out at sites with seabird burrows and at sites without burrows. Invertebrates were sorted into broad taxonomic groups while beetles were sorted to species level. Beetle species were also extracted from burrow litter. The results indicate that petrels on Motuora do not have a large consistent effect on the overall abundance or biomass of ground invertebrates. However two beetle species were found to be more abundant in areas with burrows than in areas without burrows; Mesocolonsp. (Coleoptera: Leiodidae) and Eupinessp. (Coleoptera: Staphylinidae). Several other nidicolous beetle species were found in litter from grey-faced petrel burrows. Results suggest a number of beetle species utilize resources provided by seabirds, but further research is required to determine if seabirds have wider impacts on local invertebrate abundance.

44. Multiple myeloma in World Trade Center responders: a case series [2009]

  • Moline, Jacqueline M., Herbert, Robin, Crowley, Laura, Troy, Kevin, Hodgman, Erica, Shukla, Gauri, Udasin, Iris, Luft, Benjamin, Wallenstein, Sylvan, Landrigan, Philip, and Savitz, David A.
  • Journal of Occupational and Environmental Medicine. August 2009, Vol. 51 Issue 8, p896, 7 p.

45. Use of a Nisin-Producing Starter Culture of Lactococcus lactissubsp. lactisTo Improve Traditional Fish Fermentation in Senegal [2009]

  • Diop, Michel Bakar, Dubois-Dauphin, Robin, Destain, Jacqueline, Tine, Emmanuel, and Thonart, Philippe
  • Journal of Food Protection; September 2009, Vol. 72 Issue: 9 p1930-1934, 5p
Abstract
Lactococcus lactissubsp. lactisstrain CWBI B1410, which produces various antibacterial compounds including organic acids and nisin, was used as a starter culture to improve the traditional Senegalese fish fermentation in which fish are mostly transformed to guedj by spontaneous fermentation for 24 to 48 h at ambient temperatures near 30°C followed by salting (with NaCl) and sun drying. Assays were performed on lean fish (Podamasys jubelini) and fat fish (Arius heudelotii) purchased at a local market. The total viable microbial counts in raw fillets of P. jubeliniand A. heudelotiiwere 5.78 and 5.39 log CFU/g, respectively. Populations of enteric bacteria (which can include pathogenic bacteria) in P. jubeliniand A. heudelotiiwere 4.08 and 4.12 log CFU/g, respectively. Spontaneous fermentation of raw fillets at 30°C led to the proliferation of enteric bacteria to 9 log CFU/g after 24 h in fermented P. jubeliniand A. heudelotiifillets with pH values of 6.83 and 7.50, respectively. When raw fish fillets were supplemented with glucose (1%, wt/wt) and inoculated with Lactococcus lactis(107CFU/g), the pH decreased to about 4.60 after 10 h at 30°C, and nisin activity was detected in juice from the fillets. Traditionally fermented fillets of P. jubeliniand A. heudelotiicontained enteric bacteria at higher levels of 4 and 2 log CFU/g, respectively, than did fillets of the same fish supplemented with glucose and fermented with the starter culture. These data suggest that this new fish fermentation strategy combined with salting and drying can be used to enhance the safety of guedj.

46. THE PREVALENCE OF ASTHMA AMONG 20193 WORLD TRADE CENTER RESPONDERS [2009]

  • Kim, Hyun, Herbert, Robin, Moline, Jacqueline, Markowitz, Steven, Udasin, Iris, Crowley, Laura, and Enright, Paul
  • Chest; October 2009, Vol. 136 Issue: 4, Number 4 Supplement 1 p25S-25S, 1p

47. Ovarian status in healthy postmenopausal women [2009]

  • Bell, Robin J., Healy, David L., Robertson, David M., Jobling, Tom, Oehler, Martin K., Edwards, Andrew, Shekleton, Paul, Oldham, Jacqueline, Piessens, Sofie, Teoh, Mark, Mamers, Pamela, Taylor, Nancy, and Walker, Frances
  • Menopause; November 2009, Vol. 16 Issue: 6 p1149-1155, 7p
Abstract
We have previously reported on the point prevalence of ovarian lesions detected by transvaginal ultrasound (TVU) in 515 asymptomatic women at least 5 years postmenopause. The aims of this study were to report, in the same women, on the repeatability of visualization of the ovaries (TVU) and the natural history of ovarian lesions seen at baseline but not treated surgically and to assess whether any women developed new ovarian abnormalities 12 months later.

48. Base-Pair Resolution of Somatic and Germline-Derived Genome Rearrangement Breakpoints in Follicular Lymphoma. [2009]

  • Mungall, Andrew J., Chu, Andy, Chiu, Readman, Corbett, Richard, Field, Matthew A., Jackman, Shaun D., Mungall, Karen L., Wong, Kim, Boyle, Merrill, Carlsen, Rebecca, Chan, Susanna Y., Coope, Robin J.N., Hirst, Carrie A., Hirst, Martin, Johnson, Nathalie, Krzywinski, Martin, Lee, Darlene, Lin, Jasmine BingXue, Moore, Richard, Severson, Tesa, Simpson, Jared T., Steidl, Christian, Zeng, Thomas, Zhao, Yongjun, Birol, Inanc, Holt, Robert A., Jones, Steven J., Gascoyne, Randy D., Horsman, Douglas E., Connors, Joseph M., Schein, Jacqueline E., and Marra, Marco A.
  • Blood; November 2009, Vol. 114 Issue: 22 p439-439, 1p
Abstract
Abstract 439

49. World Trade Center multiple myeloma: police responders only? [2009]

  • Miller, Albert, Moline, Jacqueline M., Herbert, Robin, Crowley, Laura, Troy, Kevin, Hodgman, Erica, Shukla, Gauri, Udasin, Iris, Luft, Benjamin, and Wallenstein, Sylvan
  • Journal of Occupational and Environmental Medicine. Dec 2009, Vol. 51 Issue 12, p1357, 2 p.

50. Separating the mechanism-based and off-target actions of cholesteryl ester transfer protein inhibitors with CETP gene polymorphisms [2010]

  • Sofat, Reecha, Hingorani, Aroon D., Smeeth, Liam, Humphries, Steve E., Talmud, Philippa J., Cooper, Jackie, Shah, Tina, Sandhu, Manjinder S., Ricketts, Sally L., Boekholdt, S. Matthijs, Wareham, Nicholas, Khaw, Kay Tee, Kumari, Meena, Kivimaki, Mika, Marmot, Michael, Asselbergs, Folkert W., van der Harst, Pim, Dullaart, Robin P.F., Navis, Gerjan, van Veldhuisen, Dirk J., Van Gilst, Wiek H., Thompson, John F., McCaskie, Pamela, Palmer, Lyle J., Arca, Marcello, Quagliarini, Fabiana, Gaudio, Carlo, Cambien, Francois, Nicaud, Viviane, Poirer, Odette, Gudnason, Vilmundur, Isaacs, Aaron, Witteman, Jacqueline C.M., Duijn, Cornelia M. van, Pencina, Michael, Vasan, Ramachandran S., D'Agostino, Ralph B., Paulweber, Bernhard, Sorli, Jose V., Goto, Akimoto, Yokoyama, Shinji, Okumura, Kenji, Horne, Benjamin D., Packard, Chris, Freeman, Dilys, Ford, Ian, Sattar, Naveed, McCormack, Valerie, Lawlor, Debbie A., Ebrahim, Shah, Smith, George Davey, Kastelein, John J.P., Deanfield, John, and Casas, Juan P.
  • Circulation. Jan 5, 2010, Vol. 121 Issue 1, 52-62

51. A Cross-Sectional Study of the Prevalence, Correlates, and Costs of Falls in Older Home Care Clients ?At Risk? for Falling* [2010]

  • Markle-Reid, Maureen, Browne, Gina, Gafni, Amiram, Roberts, Jacqueline, Weir, Robin, Thabane, Lehana, Miles, Melody, Vaitonis, Vida, Hecimovich, Catherine, Baxter, Pamela, and Henderson, Sandra
  • Canadian Journal on Aging; March 2010, Vol. 29 Issue: 1 p119-137, 19p
Abstract
R?SUM?Cette ?tude a examin? la pr?valence pendant 6 mois, ? l?aide des services de soutien ? domicile, des facteurs de risque et des co?ts de chutes de personnes ?g?es qui sont ? risque de chute. Des 109 participants, 70,6 pour cent ont indiqu? une chute dans les six mois pr?c?dents et 27,5 pour cent ont ?prouv? plusieurs chutes. Bien qu?il n?y avait aucune diff?rence statistiquement significative dans n?importe quel facteur de risque li? ? la chute parmi ceux qui sont tomb?s (1+ chutes) et ceux qui ne sont pas tomb?s (0 chutes), ceux qui sont tomb?s ont montr?s des tendances de plus en plus ?videntes de fonctionnement r?duit sur le plan physique, social et psychologique. Dans le co?t total par personne d?utilisation des services de sant? au cours des 6 derniers mois, il n?y avait aucune diff?rence statistiquement significative entre ceux qui sont tomb?s et ceux qui ne sont pas tomb?s; toutefois, il y avait des diff?rences significatives entre les groupes dans certains types de services de sant?. L?analyse multivariable a r?v?l? la pr?sence de cinq facteurs de risques de chutes: troubles neurologiques (p. ex., diminution cognitive, maladie de Parkinson), l??ge ?85 ans, risques environnementaux, glissade ou tr?buchant pr?c?dente et d?ficience visuelle.

52. The Effects and Costs of a Multifactorial and Interdisciplinary Team Approach to Falls Prevention for Older Home Care Clients ?At Risk? for Falling: A Randomized Controlled Trial* [2010]

  • Markle-Reid, Maureen, Browne, Gina, Gafni, Amiram, Roberts, Jacqueline, Weir, Robin, Thabane, Lehana, Miles, Melody, Vaitonis, Vida, Hecimovich, Catherine, Baxter, Pamela, and Henderson, Sandra
  • Canadian Journal on Aging; March 2010, Vol. 29 Issue: 1 p139-161, 23p
Abstract
R?SUM?Cette ?tude a d?termin? les effets et les co?ts d?une approche d??quipe multifactoriel et interdisciplinaire ? la pr?vention des chutes. Essai contr?l? al?atoire de 109 adultes plus ?g?s qui sont ? risque de chutes. Ce fut une strat?gie de pr?vention multifactoriel fond?e sur des donn?es probantes de 6 mois, impliquant une ?quipe interdisciplinaire. Le r?sultat principal a ?t? le nombre des chutes suivi pendant 6 mois. ? 6 mois, il n?y a aucune diff?rence dans le nombre moyen de chutes entre groupes. Des analyses des sous-groupes ont montr?s que l?intervention r?duit efficacement les chutes chez les hommes (75?84 ans) qui ont peur de tomber ou une histoire n?gative de chutes. Le nombre de glissades et de tr?buch?s a ?t? consid?rablement r?duit, et la sant? ?motionnelle a montr? une am?lioration plus importante dans le fonctionnement li? ? la sant? ?motionnelle dans le groupe d?intervention. La qualit? de vie a ?t? am?lior?e, glissades et tr?buch?s ont ?t? r?duits, comme l??taient les chutes chez les hommes qui avaient peur de tomber ou une histoire de chutes n?gative.

53. Genetic variation at the Phospholipid Transfer Protein locus affects its activity and high-density lipoprotein size and is a novel marker of cardiovascular disease susceptibility [2010]

  • Vergeer, Menno, Boekholdt, S. Matthijs, Sandhu, Manjinder S., Ricketts, Sally L., Wareham, Nicholas J., Brown, Morris J., de Faire, Ulf, Leander, Karin, Gigante, Bruna, Kavousi, Maryam, Hofman, Albert, Uitterlinden, Andre G., van Duijn, Cornelia M., Witteman, Jacqueline C.M., Jukema, J. Wouter, Schadt, Eric E., van der Schoot, Ellen, Kastelein, John J.P., Khaw, Kay-Tee, Dullaart, Robin P.F., van Tol, Arie, Trip, Mieke D., and Dallinga-Thie, Geesje M.
  • Circulation. August 3, 2010, Vol. 122 Issue 5, 470-477

54. Capillary Blood Draws in the NICU [2011]

  • Phillips, Charles, Clifton-Koeppel, Robin, Sills, Jack, Lomax, Jacqueline M., Rapini, Molly, Huffman, Matt L., and Modanlou, Houchang D.
  • Neonatal Network; 2011, Vol. 30 Issue: 3 p175-179, 5p
Abstract
ABSTRACTPurpose:(1) To determine the rate of damaged and discarded capillary blood draws in the NICU; (2) to compare the rate of damaged and discarded samples between traditional capillary blood draws and the Innovac Quick-Draw device; (3) to determine whether in-service training for nurses on capillary blood draws decreased the rate of damaged and discarded blood samples.Design:During Phase I of the study, the rate of capillary blood draws by the traditional method was determined. At the completion of Phase I, the manufacturer provided in-service training to senior nurses in the NICU with the use of the Innovac Quick-Draw device. Additional in-service training was also provided for the traditional capil-lary blood draw technique. Within a month of in-service training, an openly randomized study (Phase II) was carried out comparing traditional versus Innovac device capillary blood draws.Sample:All infants admitted to the NICU between June 2008 and June 2009 were eligible to be in the study. There were no exclusion criteria based on weight, gestational age, or gender because the sampling method was the only variable being assessed. Phase I lasted two months, whereas Phase II lasted approximately four months.Main Outcome Variable:Occurrence of damaged capillary samples with the Innovac device versus the traditional method.Results:In Phase I, the rate of damaged and discarded samples was 10 percent (28/278). In Phase II, the rate of damaged and discarded samples for traditional and Innovac device was 7.2 percent and 10 percent, respectively. Comparisons between traditional and Innovac for different type of samples were as follows: complete blood count, 11.0 percent (12/104) vs. 13.4 percent (14/104); serum electrolytes, 6.4 percent (6/94) vs. 9.5 percent (9/95); C-reactive protein, 5.7 percent (4/70) vs. 8.0 percent (5/62); and liver panel, 5.3 percent (7/131) vs. 8.3 percent (9/108). There were no statistically significant differences of damaged and discarded samples for the overall or individual sample type comparisons.

55. Persistence of multiple illnesses in World Trade Center rescue and recovery workers: a cohort study [2011]

  • Wisnivesky, Juan P, Teitelbaum, Susan L, Todd, Andrew C, Boffetta, Paolo, Crane, Michael, Crowley, Laura, de la Hoz, Rafael E, Dellenbaugh, Cornelia, Harrison, Denise, Herbert, Robin, Kim, Hyun, Jeon, Yunho, Kaplan, Julia, Katz, Craig, Levin, Stephen, Luft, Ben, Markowitz, Steven, Moline, Jacqueline M, Ozbay, Fatih, Pietrzak, Robert H, Shapiro, Moshe, Sharma, Vansh, Skloot, Gwen, Southwick, Steven, Stevenson, Lori A, Udasin, Iris, Wallenstein, Sylvan, and Landrigan, Philip J
  • The Lancet; September 2011, Vol. 378 Issue: 9794 p888-897, 10p
Abstract
More than 50 000 people participated in the rescue and recovery work that followed the Sept 11, 2001 (9/11) attacks on the World Trade Center (WTC). Multiple health problems in these workers were reported in the early years after the disaster. We report incidence and prevalence rates of physical and mental health disorders during the 9 years since the attacks, examine their associations with occupational exposures, and quantify physical and mental health comorbidities.

56. Work-Related Injuries and Illnesses Reported by World Trade Center Response Workers and Volunteers [2011]

  • Perritt, Kara R., Herbert, Robin, Levin, Stephen M., and Moline, Jacqueline
  • Prehospital and Disaster Medicine; December 2011, Vol. 26 Issue: 6 p401-407, 7p
Abstract
AbstractIntroduction:In 2002, the Mount Sinai Center for Occupational and Environmental Medicine, with support from the National Institute for Occupational Safety and Health (NIOSH), began coordinating the World Trade Center (WTC) Worker and Volunteer Medical Screening Program (MSP) to monitor the health of qualified WTC responders. Enrolled participants were offered a clinical examination; interviewed to collect medical, mental health, and exposure information; and requested to complete a self-administered medical questionnaire. The objective of this study was to better understand work-related injuries and illnesses sustained on-site by WTC responders.Methods:A descriptive analysis of select data from the MSP self-administered medical questionnaire was conducted. Data collected July 2002 through April 2004 from MSP participants enrolled at the Mount Sinai clinic were reviewed using univariate statistical techniques.Results:Records from 7,810 participants were analyzed, with most participants associated with either the construction industry (n = 2,623, 34%) or law enforcement (n = 2,036, 26%). Approximately a third of the participants (n = 2,486, 32%) reported at least one injury or illness requiring medical treatment that was sustained during WTC work/volunteer activities. Of the total 4,768 injuries/illnesses reported by these participants, respiratory complaints were most common (n = 1,350, 28%), followed by traumatic injuries excluding eye injuries (n = 961, 20%), eye injuries/ailments (n = 709, 15%), chest pain (n = 375, 8%), headaches (n = 359, 8%), skin conditions (n = 178, 4%), and digestive system conditions (n = 163, 3%). Participants reported that 36% of injuries/illnesses were treated off-site and 29% were treated on-site, with the remaining not specifying treatment location. Off-site treatment was prevalent for respiratory complaints, psychological stress, and chest pain. On-site treatment was predominate for eye injuries/ailments and traumatic injuries excluding eye injuries.Conclusion:Study results underscore the need for rapid deployment of personal protective equipment for disaster responders and medical care stations mobilized near disaster worksites. Additionally, the results, many of which are comparable to findings from previous WTC studies where data were collected in real-time, indicate that a screening program such as the MSP may be effective in retrospectively providing general information on disaster responder demographics and work-related injuries and illnesses.

57. Thesis Abstracts [2012]

  • Adamson, Mike, Deverson, Katherine, Dibden, Julie, Forde, Kieran, Hamacher, Duane W., Joannes-Boyau, Renaud, Ralph, Jordan, Stannard, Georgia, Stone, Robert M., Thomas, David C., Tumney, Jacqueline N., Twaddle, Robin, and Wilcox, Morgan Kae
  • Australian archaeology. 75(1):128-133

58. Inhibition of autophagy impairs tumor cell invasion in an organotypic model [2012]

  • Macintosh, Robin L., Timpson, Paul, Thorburn, Jacqueline, Anderson, Kurt I., Thorburn, Andrew, and Ryan, Kevin M.
  • Cell cycle. 11(10):2022-2029

59. Barriers to Cognitive Behavioral Therapy Homework Completion Scale–Depression Version: Development and Psychometric Evaluation [2012]

  • Callan, Judith A., Dunbar-Jacob, Jacqueline, Sereika, Susan M., Stone, Clement, Fasiczka, Amy, Jarrett, Robin B., and Thase, Michael E.
  • International journal of cognitive therapy. 5(2):219-235

60. Total Synthesis of Homogeneous Antifreeze Glycopeptides and Glycoproteins [2012]

  • Wilkinson, Brendan L., Stone, Robin S., Capicciotti, Chantelle J., Thaysen‐Andersen, Morten, Matthews, Jacqueline M., Packer, Nicolle H., Ben, Robert N., and Payne, Richard J.
  • Angewandte Chemie. International Edition; April 2012, Vol. 51 Issue: 15 p3606-3610, 5p
Abstract
Don't freeze!A native chemical ligation–desulfurization strategy has been employed for the convergent synthesis of a library of defined antifreeze glycopeptides and glycoproteins (AFGPs) ranging in size from 1.2 to 19.5 kDa (see picture). These AFGPs possessed the secondary structure of a polyproline type II helix and exhibited significant ice recrystallization inhibition and thermal hysteresis activity.

61. Perceived Benefits of a Transplant Surgery Experience to General Surgery Residency Training [2012]

  • Schwartz, Jason J., Thiesset, Heather F., Bohn, Jacqueline A., Sloat, Benjamin, Carricaburu, Martin, Hatch, Jenny, Sorensen, John B., Kim, Robin D., Vargo, Daniel, and Fryer, Jonathan P.
  • Journal of Surgical Education; May 2012, Vol. 69 Issue: 3 p371-384, 14p
Abstract
The benefit of a solid-organ transplant experience during general surgical training has been questioned recently. In 2008, in response to an American Board of Surgery (ABS) directive, a survey was conducted by the Association of Program Directors in Surgery (APDS) in coordination with the American Society of Transplant Surgeons (ASTS) to determine the perceived value of a transplant surgery rotation to program directors and residents. With the aim of providing additional insight, we conducted a separate study, independent of the ABS and ASTS, to ascertain resident perceptions regarding the specific skill sets that they acquire during their transplant surgery rotations and their applicability to other surgical subspecialties.

62. Global and regional mortality from 235 causes of death for 20 age groups in 1990 and 2010: a systematic analysis for the Global Burden of Disease Study 2010 [2012]

  • Lozano, Rafael, Naghavi, Mohsen, Foreman, Kyle, Lim, Stephen, Shibuya, Kenji, Aboyans, Victor, Abraham, Jerry, Adair, Timothy, Aggarwal, Rakesh, Ahn, Stephanie Y, AlMazroa, Mohammad A, Alvarado, Miriam, Anderson, H Ross, Anderson, Laurie M, Andrews, Kathryn G, Atkinson, Charles, Baddour, Larry M, Barker-Collo, Suzanne, Bartels, David H, Bell, Michelle L, Benjamin, Emelia J, Bennett, Derrick, Bhalla, Kavi, Bikbov, Boris, Abdulhak, Aref Bin, Birbeck, Gretchen, Blyth, Fiona, Bolliger, Ian, Boufous, Soufiane, Bucello, Chiara, Burch, Michael, Burney, Peter, Carapetis, Jonathan, Chen, Honglei, Chou, David, Chugh, Sumeet S, Coffeng, Luc E, Colan, Steven D, Colquhoun, Samantha, Colson, K Ellicott, Condon, John, Connor, Myles D, Cooper, Leslie T, Corriere, Matthew, Cortinovis, Monica, de Vaccaro, Karen Courville, Couser, William, Cowie, Benjamin C, Criqui, Michael H, Cross, Marita, Dabhadkar, Kaustubh C, Dahodwala, Nabila, De Leo, Diego, Degenhardt, Louisa, Delossantos, Allyne, Denenberg, Julie, Des Jarlais, Don C, Dharmaratne, Samath D, Dorsey, E Ray, Driscoll, Tim, Duber, Herbert, Ebel, Beth, Erwin, Patricia J, Espindola, Patricia, Ezzati, Majid, Feigin, Valery, Flaxman, Abraham D, Forouzanfar, Mohammad H, Fowkes, Francis Gerry R, Franklin, Richard, Fransen, Marlene, Freeman, Michael K, Gabriel, Sherine E, Gakidou, Emmanuela, Gaspari, Flavio, Gillum, Richard F, Gonzalez-Medina, Diego, Halasa, Yara A, Haring, Diana, Harrison, James E, Havmoeller, Rasmus, Hay, Roderick J, Hoen, Bruno, Hotez, Peter J, Hoy, Damian, Jacobsen, Kathryn H, James, Spencer L, Jasrasaria, Rashmi, Jayaraman, Sudha, Johns, Nicole, Karthikeyan, Ganesan, Kassebaum, Nicholas, Keren, Andre, Khoo, Jon-Paul, Knowlton, Lisa Marie, Kobusingye, Olive, Koranteng, Adofo, Krishnamurthi, Rita, Lipnick, Michael, Lipshultz, Steven E, Ohno, Summer Lockett, Mabweijano, Jacqueline, MacIntyre, Michael F, Mallinger, Leslie, March, Lyn, Marks, Guy B, Marks, Robin, Matsumori, Akira, Matzopoulos, Richard, Mayosi, Bongani M, McAnulty, John H, McDermott, Mary M, McGrath, John, Memish, Ziad A, Mensah, George A, Merriman, Tony R, Michaud, Catherine, Miller, Matthew, Miller, Ted R, Mock, Charles, Mocumbi, Ana Olga, Mokdad, Ali A, Moran, Andrew, Mulholland, Kim, Nair, M Nathan, Naldi, Luigi, Narayan, K M Venkat, Nasseri, Kiumarss, Norman, Paul, O'Donnell, Martin, Omer, Saad B, Ortblad, Katrina, Osborne, Richard, Ozgediz, Doruk, Pahari, Bishnu, Pandian, Jeyaraj Durai, Rivero, Andrea Panozo, Padilla, Rogelio Perez, Perez-Ruiz, Fernando, Perico, Norberto, Phillips, David, Pierce, Kelsey, Pope, C Arden, Porrini, Esteban, Pourmalek, Farshad, Raju, Murugesan, Ranganathan, Dharani, Rehm, Jürgen T, Rein, David B, Remuzzi, Guiseppe, Rivara, Frederick P, Roberts, Thomas, De León, Felipe Rodriguez, Rosenfeld, Lisa C, Rushton, Lesley, Sacco, Ralph L, Salomon, Joshua A, Sampson, Uchechukwu, Sanman, Ella, Schwebel, David C, Segui-Gomez, Maria, Shepard, Donald S, Singh, David, Singleton, Jessica, Sliwa, Karen, Smith, Emma, Steer, Andrew, Taylor, Jennifer A, Thomas, Bernadette, Tleyjeh, Imad M, Towbin, Jeffrey A, Truelsen, Thomas, Undurraga, Eduardo A, Venketasubramanian, N, Vijayakumar, Lakshmi, Vos, Theo, Wagner, Gregory R, Wang, Mengru, Wang, Wenzhi, Watt, Kerrianne, Weinstock, Martin A, Weintraub, Robert, Wilkinson, James D, Woolf, Anthony D, Wulf, Sarah, Yeh, Pon-Hsiu, Yip, Paul, Zabetian, Azadeh, Zheng, Zhi-Jie, Lopez, Alan D, and Murray, Christopher JL
  • The Lancet; December-January 2012, Vol. 380 Issue: 9859 p2095-2128, 34p
Abstract
Reliable and timely information on the leading causes of death in populations, and how these are changing, is a crucial input into health policy debates. In the Global Burden of Diseases, Injuries, and Risk Factors Study 2010 (GBD 2010), we aimed to estimate annual deaths for the world and 21 regions between 1980 and 2010 for 235 causes, with uncertainty intervals (UIs), separately by age and sex.

63. Years lived with disability (YLDs) for 1160 sequelae of 289 diseases and injuries 1990–2010: a systematic analysis for the Global Burden of Disease Study 2010 [2012]

  • Vos, Theo, Flaxman, Abraham D, Naghavi, Mohsen, Lozano, Rafael, Michaud, Catherine, Ezzati, Majid, Shibuya, Kenji, Salomon, Joshua A, Abdalla, Safa, Aboyans, Victor, Abraham, Jerry, Ackerman, Ilana, Aggarwal, Rakesh, Ahn, Stephanie Y, Ali, Mohammed K, AlMazroa, Mohammad A, Alvarado, Miriam, Anderson, H Ross, Anderson, Laurie M, Andrews, Kathryn G, Atkinson, Charles, Baddour, Larry M, Bahalim, Adil N, Barker-Collo, Suzanne, Barrero, Lope H, Bartels, David H, Basáñez, Maria-Gloria, Baxter, Amanda, Bell, Michelle L, Benjamin, Emelia J, Bennett, Derrick, Bernabé, Eduardo, Bhalla, Kavi, Bhandari, Bishal, Bikbov, Boris, Abdulhak, Aref Bin, Birbeck, Gretchen, Black, James A, Blencowe, Hannah, Blore, Jed D, Blyth, Fiona, Bolliger, Ian, Bonaventure, Audrey, Boufous, Soufiane, Bourne, Rupert, Boussinesq, Michel, Braithwaite, Tasanee, Brayne, Carol, Bridgett, Lisa, Brooker, Simon, Brooks, Peter, Brugha, Traolach S, Bryan-Hancock, Claire, Bucello, Chiara, Buchbinder, Rachelle, Buckle, Geoffrey, Budke, Christine M, Burch, Michael, Burney, Peter, Burstein, Roy, Calabria, Bianca, Campbell, Benjamin, Canter, Charles E, Carabin, Hélène, Carapetis, Jonathan, Carmona, Loreto, Cella, Claudia, Charlson, Fiona, Chen, Honglei, Cheng, Andrew Tai-Ann, Chou, David, Chugh, Sumeet S, Coffeng, Luc E, Colan, Steven D, Colquhoun, Samantha, Colson, K Ellicott, Condon, John, Connor, Myles D, Cooper, Leslie T, Corriere, Matthew, Cortinovis, Monica, de Vaccaro, Karen Courville, Couser, William, Cowie, Benjamin C, Criqui, Michael H, Cross, Marita, Dabhadkar, Kaustubh C, Dahiya, Manu, Dahodwala, Nabila, Damsere-Derry, James, Danaei, Goodarz, Davis, Adrian, De Leo, Diego, Degenhardt, Louisa, Dellavalle, Robert, Delossantos, Allyne, Denenberg, Julie, Derrett, Sarah, Des Jarlais, Don C, Dharmaratne, Samath D, Dherani, Mukesh, Diaz-Torne, Cesar, Dolk, Helen, Dorsey, E Ray, Driscoll, Tim, Duber, Herbert, Ebel, Beth, Edmond, Karen, Elbaz, Alexis, Ali, Suad Eltahir, Erskine, Holly, Erwin, Patricia J, Espindola, Patricia, Ewoigbokhan, Stalin E, Farzadfar, Farshad, Feigin, Valery, Felson, David T, Ferrari, Alize, Ferri, Cleusa P, Fèvre, Eric M, Finucane, Mariel M, Flaxman, Seth, Flood, Louise, Foreman, Kyle, Forouzanfar, Mohammad H, Fowkes, Francis Gerry R, Franklin, Richard, Fransen, Marlene, Freeman, Michael K, Gabbe, Belinda J, Gabriel, Sherine E, Gakidou, Emmanuela, Ganatra, Hammad A, Garcia, Bianca, Gaspari, Flavio, Gillum, Richard F, Gmel, Gerhard, Gosselin, Richard, Grainger, Rebecca, Groeger, Justina, Guillemin, Francis, Gunnell, David, Gupta, Ramyani, Haagsma, Juanita, Hagan, Holly, Halasa, Yara A, Hall, Wayne, Haring, Diana, Haro, Josep Maria, Harrison, James E, Havmoeller, Rasmus, Hay, Roderick J, Higashi, Hideki, Hill, Catherine, Hoen, Bruno, Hoffman, Howard, Hotez, Peter J, Hoy, Damian, Huang, John J, Ibeanusi, Sydney E, Jacobsen, Kathryn H, James, Spencer L, Jarvis, Deborah, Jasrasaria, Rashmi, Jayaraman, Sudha, Johns, Nicole, Jonas, Jost B, Karthikeyan, Ganesan, Kassebaum, Nicholas, Kawakami, Norito, Keren, Andre, Khoo, Jon-Paul, King, Charles H, Knowlton, Lisa Marie, Kobusingye, Olive, Koranteng, Adofo, Krishnamurthi, Rita, Lalloo, Ratilal, Laslett, Laura L, Lathlean, Tim, Leasher, Janet L, Lee, Yong Yi, Leigh, James, Lim, Stephen S, Limb, Elizabeth, Lin, John Kent, Lipnick, Michael, Lipshultz, Steven E, Liu, Wei, Loane, Maria, Ohno, Summer Lockett, Lyons, Ronan, Ma, Jixiang, Mabweijano, Jacqueline, MacIntyre, Michael F, Malekzadeh, Reza, Mallinger, Leslie, Manivannan, Sivabalan, Marcenes, Wagner, March, Lyn, Margolis, David J, Marks, Guy B, Marks, Robin, Matsumori, Akira, Matzopoulos, Richard, Mayosi, Bongani M, McAnulty, John H, McDermott, Mary M, McGill, Neil, McGrath, John, Medina-Mora, Maria Elena, Meltzer, Michele, Memish, Ziad A, Mensah, George A, Merriman, Tony R, Meyer, Ana-Claire, Miglioli, Valeria, Miller, Matthew, Miller, Ted R, Mitchell, Philip B, Mocumbi, Ana Olga, Moffitt, Terrie E, Mokdad, Ali A, Monasta, Lorenzo, Montico, Marcella, Moradi-Lakeh, Maziar, Moran, Andrew, Morawska, Lidia, Mori, Rintaro, Murdoch, Michele E, Mwaniki, Michael K, Naidoo, Kovin, Nair, M Nathan, Naldi, Luigi, Narayan, KM Venkat, Nelson, Paul K, Nelson, Robert G, Nevitt, Michael C, Newton, Charles R, Nolte, Sandra, Norman, Paul, Norman, Rosana, O'Donnell, Martin, O'Hanlon, Simon, Olives, Casey, Omer, Saad B, Ortblad, Katrina, Osborne, Richard, Ozgediz, Doruk, Page, Andrew, Pahari, Bishnu, Pandian, Jeyaraj Durai, Rivero, Andrea Panozo, Patten, Scott B, Pearce, Neil, Padilla, Rogelio Perez, Perez-Ruiz, Fernando, Perico, Norberto, Pesudovs, Konrad, Phillips, David, Phillips, Michael R, Pierce, Kelsey, Pion, Sébastien, Polanczyk, Guilherme V, Polinder, Suzanne, Pope, C Arden, Popova, Svetlana, Porrini, Esteban, Pourmalek, Farshad, Prince, Martin, Pullan, Rachel L, Ramaiah, Kapa D, Ranganathan, Dharani, Razavi, Homie, Regan, Mathilda, Rehm, Jürgen T, Rein, David B, Remuzzi, Guiseppe, Richardson, Kathryn, Rivara, Frederick P, Roberts, Thomas, Robinson, Carolyn, De Leòn, Felipe Rodriguez, Ronfani, Luca, Room, Robin, Rosenfeld, Lisa C, Rushton, Lesley, Sacco, Ralph L, Saha, Sukanta, Sampson, Uchechukwu, Sanchez-Riera, Lidia, Sanman, Ella, Schwebel, David C, Scott, James Graham, Segui-Gomez, Maria, Shahraz, Saeid, Shepard, Donald S, Shin, Hwashin, Shivakoti, Rupak, Silberberg, Donald, Singh, David, Singh, Gitanjali M, Singh, Jasvinder A, Singleton, Jessica, Sleet, David A, Sliwa, Karen, Smith, Emma, Smith, Jennifer L, Stapelberg, Nicolas JC, Steer, Andrew, Steiner, Timothy, Stolk, Wilma A, Stovner, Lars Jacob, Sudfeld, Christopher, Syed, Sana, Tamburlini, Giorgio, Tavakkoli, Mohammad, Taylor, Hugh R, Taylor, Jennifer A, Taylor, William J, Thomas, Bernadette, Thomson, W Murray, Thurston, George D, Tleyjeh, Imad M, Tonelli, Marcello, Towbin, Jeffrey A, Truelsen, Thomas, Tsilimbaris, Miltiadis K, Ubeda, Clotilde, Undurraga, Eduardo A, van der Werf, Marieke J, van Os, Jim, Vavilala, Monica S, Venketasubramanian, N, Wang, Mengru, Wang, Wenzhi, Watt, Kerrianne, Weatherall, David J, Weinstock, Martin A, Weintraub, Robert, Weisskopf, Marc G, Weissman, Myrna M, White, Richard A, Whiteford, Harvey, Wiersma, Steven T, Wilkinson, James D, Williams, Hywel C, Williams, Sean RM, Witt, Emma, Wolfe, Frederick, Woolf, Anthony D, Wulf, Sarah, Yeh, Pon-Hsiu, Zaidi, Anita KM, Zheng, Zhi-Jie, Zonies, David, Lopez, Alan D, and Murray, Christopher JL
  • The Lancet; December-January 2012, Vol. 380 Issue: 9859 p2163-2196, 34p
Abstract
Non-fatal health outcomes from diseases and injuries are a crucial consideration in the promotion and monitoring of individual and population health. The Global Burden of Disease (GBD) studies done in 1990 and 2000 have been the only studies to quantify non-fatal health outcomes across an exhaustive set of disorders at the global and regional level. Neither effort quantified uncertainty in prevalence or years lived with disability (YLDs).

64. Disability-adjusted life years (DALYs) for 291 diseases and injuries in 21 regions, 1990–2010: a systematic analysis for the Global Burden of Disease Study 2010 [2012]

  • Murray, Christopher J L, Vos, Theo, Lozano, Rafael, Naghavi, Mohsen, Flaxman, Abraham D, Michaud, Catherine, Ezzati, Majid, Shibuya, Kenji, Salomon, Joshua A, Abdalla, Safa, Aboyans, Victor, Abraham, Jerry, Ackerman, Ilana, Aggarwal, Rakesh, Ahn, Stephanie Y, Ali, Mohammed K, AlMazroa, Mohammad A, Alvarado, Miriam, Anderson, H Ross, Anderson, Laurie M, Andrews, Kathryn G, Atkinson, Charles, Baddour, Larry M, Bahalim, Adil N, Barker-Collo, Suzanne, Barrero, Lope H, Bartels, David H, Basáñez, Maria-Gloria, Baxter, Amanda, Bell, Michelle L, Benjamin, Emelia J, Bennett, Derrick, Bernabé, Eduardo, Bhalla, Kavi, Bhandari, Bishal, Bikbov, Boris, Abdulhak, Aref Bin, Birbeck, Gretchen, Black, James A, Blencowe, Hannah, Blore, Jed D, Blyth, Fiona, Bolliger, Ian, Bonaventure, Audrey, Boufous, Soufiane, Bourne, Rupert, Boussinesq, Michel, Braithwaite, Tasanee, Brayne, Carol, Bridgett, Lisa, Brooker, Simon, Brooks, Peter, Brugha, Traolach S, Bryan-Hancock, Claire, Bucello, Chiara, Buchbinder, Rachelle, Buckle, Geoffrey, Budke, Christine M, Burch, Michael, Burney, Peter, Burstein, Roy, Calabria, Bianca, Campbell, Benjamin, Canter, Charles E, Carabin, Hélène, Carapetis, Jonathan, Carmona, Loreto, Cella, Claudia, Charlson, Fiona, Chen, Honglei, Cheng, Andrew Tai-Ann, Chou, David, Chugh, Sumeet S, Coffeng, Luc E, Colan, Steven D, Colquhoun, Samantha, Colson, K Ellicott, Condon, John, Connor, Myles D, Cooper, Leslie T, Corriere, Matthew, Cortinovis, Monica, de Vaccaro, Karen Courville, Couser, William, Cowie, Benjamin C, Criqui, Michael H, Cross, Marita, Dabhadkar, Kaustubh C, Dahiya, Manu, Dahodwala, Nabila, Damsere-Derry, James, Danaei, Goodarz, Davis, Adrian, Leo, Diego De, Degenhardt, Louisa, Dellavalle, Robert, Delossantos, Allyne, Denenberg, Julie, Derrett, Sarah, Des Jarlais, Don C, Dharmaratne, Samath D, Dherani, Mukesh, Diaz-Torne, Cesar, Dolk, Helen, Dorsey, E Ray, Driscoll, Tim, Duber, Herbert, Ebel, Beth, Edmond, Karen, Elbaz, Alexis, Ali, Suad Eltahir, Erskine, Holly, Erwin, Patricia J, Espindola, Patricia, Ewoigbokhan, Stalin E, Farzadfar, Farshad, Feigin, Valery, Felson, David T, Ferrari, Alize, Ferri, Cleusa P, Fèvre, Eric M, Finucane, Mariel M, Flaxman, Seth, Flood, Louise, Foreman, Kyle, Forouzanfar, Mohammad H, Fowkes, Francis Gerry R, Fransen, Marlene, Freeman, Michael K, Gabbe, Belinda J, Gabriel, Sherine E, Gakidou, Emmanuela, Ganatra, Hammad A, Garcia, Bianca, Gaspari, Flavio, Gillum, Richard F, Gmel, Gerhard, Gonzalez-Medina, Diego, Gosselin, Richard, Grainger, Rebecca, Grant, Bridget, Groeger, Justina, Guillemin, Francis, Gunnell, David, Gupta, Ramyani, Haagsma, Juanita, Hagan, Holly, Halasa, Yara A, Hall, Wayne, Haring, Diana, Haro, Josep Maria, Harrison, James E, Havmoeller, Rasmus, Hay, Roderick J, Higashi, Hideki, Hill, Catherine, Hoen, Bruno, Hoffman, Howard, Hotez, Peter J, Hoy, Damian, Huang, John J, Ibeanusi, Sydney E, Jacobsen, Kathryn H, James, Spencer L, Jarvis, Deborah, Jasrasaria, Rashmi, Jayaraman, Sudha, Johns, Nicole, Jonas, Jost B, Karthikeyan, Ganesan, Kassebaum, Nicholas, Kawakami, Norito, Keren, Andre, Khoo, Jon-Paul, King, Charles H, Knowlton, Lisa Marie, Kobusingye, Olive, Koranteng, Adofo, Krishnamurthi, Rita, Laden, Francine, Lalloo, Ratilal, Laslett, Laura L, Lathlean, Tim, Leasher, Janet L, Lee, Yong Yi, Leigh, James, Levinson, Daphna, Lim, Stephen S, Limb, Elizabeth, Lin, John Kent, Lipnick, Michael, Lipshultz, Steven E, Liu, Wei, Loane, Maria, Ohno, Summer Lockett, Lyons, Ronan, Mabweijano, Jacqueline, MacIntyre, Michael F, Malekzadeh, Reza, Mallinger, Leslie, Manivannan, Sivabalan, Marcenes, Wagner, March, Lyn, Margolis, David J, Marks, Guy B, Marks, Robin, Matsumori, Akira, Matzopoulos, Richard, Mayosi, Bongani M, McAnulty, John H, McDermott, Mary M, McGill, Neil, McGrath, John, Medina-Mora, Maria Elena, Meltzer, Michele, Memish, Ziad A, Mensah, George A, Merriman, Tony R, Meyer, Ana-Claire, Miglioli, Valeria, Miller, Matthew, Miller, Ted R, Mitchell, Philip B, Mock, Charles, Mocumbi, Ana Olga, Moffitt, Terrie E, Mokdad, Ali A, Monasta, Lorenzo, Montico, Marcella, Moradi-Lakeh, Maziar, Moran, Andrew, Morawska, Lidia, Mori, Rintaro, Murdoch, Michele E, Mwaniki, Michael K, Naidoo, Kovin, Nair, M Nathan, Naldi, Luigi, Narayan, K M Venkat, Nelson, Paul K, Nelson, Robert G, Nevitt, Michael C, Newton, Charles R, Nolte, Sandra, Norman, Paul, Norman, Rosana, O'Donnell, Martin, O'Hanlon, Simon, Olives, Casey, Omer, Saad B, Ortblad, Katrina, Osborne, Richard, Ozgediz, Doruk, Page, Andrew, Pahari, Bishnu, Pandian, Jeyaraj Durai, Rivero, Andrea Panozo, Patten, Scott B, Pearce, Neil, Padilla, Rogelio Perez, Perez-Ruiz, Fernando, Perico, Norberto, Pesudovs, Konrad, Phillips, David, Phillips, Michael R, Pierce, Kelsey, Pion, Sébastien, Polanczyk, Guilherme V, Polinder, Suzanne, Pope, C Arden, Popova, Svetlana, Porrini, Esteban, Pourmalek, Farshad, Prince, Martin, Pullan, Rachel L, Ramaiah, Kapa D, Ranganathan, Dharani, Razavi, Homie, Regan, Mathilda, Rehm, Jürgen T, Rein, David B, Remuzzi, Guiseppe, Richardson, Kathryn, Rivara, Frederick P, Roberts, Thomas, Robinson, Carolyn, De Leòn, Felipe Rodriguez, Ronfani, Luca, Room, Robin, Rosenfeld, Lisa C, Rushton, Lesley, Sacco, Ralph L, Saha, Sukanta, Sampson, Uchechukwu, Sanchez-Riera, Lidia, Sanman, Ella, Schwebel, David C, Scott, James Graham, Segui-Gomez, Maria, Shahraz, Saeid, Shepard, Donald S, Shin, Hwashin, Shivakoti, Rupak, Silberberg, Donald, Singh, David, Singh, Gitanjali M, Singh, Jasvinder A, Singleton, Jessica, Sleet, David A, Sliwa, Karen, Smith, Emma, Smith, Jennifer L, Stapelberg, Nicolas JC, Steer, Andrew, Steiner, Timothy, Stolk, Wilma A, Stovner, Lars Jacob, Sudfeld, Christopher, Syed, Sana, Tamburlini, Giorgio, Tavakkoli, Mohammad, Taylor, Hugh R, Taylor, Jennifer A, Taylor, William J, Thomas, Bernadette, Thomson, W Murray, Thurston, George D, Tleyjeh, Imad M, Tonelli, Marcello, Towbin, Jeffrey A, Truelsen, Thomas, Tsilimbaris, Miltiadis K, Ubeda, Clotilde, Undurraga, Eduardo A, van der Werf, Marieke J, van Os, Jim, Vavilala, Monica S, Venketasubramanian, N, Wang, Mengru, Wang, Wenzhi, Watt, Kerrianne, Weatherall, David J, Weinstock, Martin A, Weintraub, Robert, Weisskopf, Marc G, Weissman, Myrna M, White, Richard A, Whiteford, Harvey, Wiebe, Natasha, Wiersma, Steven T, Wilkinson, James D, Williams, Hywel C, Williams, Sean RM, Witt, Emma, Wolfe, Frederick, Woolf, Anthony D, Wulf, Sarah, Yeh, Pon-Hsiu, Zaidi, Anita KM, Zheng, Zhi-Jie, Zonies, David, and Lopez, Alan D
  • The Lancet; December-January 2012, Vol. 380 Issue: 9859 p2197-2223, 27p
Abstract
Measuring disease and injury burden in populations requires a composite metric that captures both premature mortality and the prevalence and severity of ill-health. The 1990 Global Burden of Disease study proposed disability-adjusted life years (DALYs) to measure disease burden. No comprehensive update of disease burden worldwide incorporating a systematic reassessment of disease and injury-specific epidemiology has been done since the 1990 study. We aimed to calculate disease burden worldwide and for 21 regions for 1990, 2005, and 2010 with methods to enable meaningful comparisons over time.

65. Pulseless electric activity: definition, causes, mechanisms, management, and research priorities for the next decade: report from a National Heart, Lung, and Blood Institute Workshop [2013]

  • Myerburg, Robert J., Halperin, Henry, Egan, Debra A., Boineau, Robin, Chugh, Sumeet S., Gillis, Anne M., Goldhaber, Joshua I., Lathrop, David A., Liu, Peter, Niemann, James T., Ornato, Joseph P., Sopko, George, Van Eyk, Jennifer E., Walcott, Gregory P., Weisfeldt, Myron L., Wright, Jacqueline D., and Zipes, Douglas P.
  • Circulation. Dec 3, 2013, Vol. 128 Issue 23, 2532-2541

66. Geospatial and contextual approaches to energy balance and health [2015]

  • Berrigan, David, Hipp, J. Aaron, Hurvitz, Philip M., James, Peter, Jankowska, Marta M., Kerr, Jacqueline, Laden, Francine, Leonard, Tammy, McKinnon, Robin A., Powell-Wiley, Tiffany M., Tarlov, Elizabeth, and Zenk, Shannon N.
  • Annals of GIS. 21(2):157-168

67. Vaccination attitudes and mobile readiness: A survey of expectant and new mothers [2015]

  • Atkinson, Katherine M, Ducharme, Robin, Westeinde, Jacqueline, Wilson, Sarah E, Deeks, Shelley L, Pascali, Dante, and Wilson, Kumanan
  • Human vaccines & immunotherapeutics. 11(4):1039-1045

68. Using mobile technologies for immunization: Predictors of uptake of a pan-Canadian immunization app (ImmunizeCA) [2015]

  • Atkinson, Katherine M., Westeinde, Jacqueline, Hawken, Steven, Ducharme, Robin, Barnhardt, Kim, and Wilson, Kumanan
  • Paediatrics & child health. 20(7):351-352

69. Dissecting the Mechanism of Type VI Secretion System Effector Delivery by Fluorescence Cross-Correlation Microscopy [2015]

  • Corbitt, Jacqueline, LeRoux, Michele, Kirkpatrick, Robin, Mougous, Joseph, and Wiggins, Paul A.
  • Biophysical Journal; January 2015, Vol. 108 Issue: 2, Number 2 Supplement 1 p600a-600a, 1p

70. Use of the Site-Specific Retargeting Jump-In Platform Cell Line to Support Biologic Drug Discovery [2015]

  • Butler, Robin, Hornigold, David, Huang, Ling, Huntington, Catherine, London, Tim, Dillon, Janette, Tigue, Natalie J., Rossi, Alessandra, Naylor, Jacqueline, and Wilkinson, Trevor
  • SLAS Discovery: Advancing Life Sciences R&D; April 2015, Vol. 20 Issue: 4 p528-535, 8p
Abstract
Biologics represent a fast-growing class of therapeutics in the pharmaceutical sector. Discovery of therapeutic antibodies and characterization of peptides can necessitate high expression of the target gene requiring the generation of clonal stably transfected cell lines. Traditional challenges of stable cell line transfection include gene silencing and cell-to-cell variability. Our inability to control these can present challenges in lead isolation. Recent progress in site-specific targeting of transgene to specific genomic loci has transformed the ability to generate stably transfected mammalian cell lines. In this article, we describe how the use of the Jump-In platform (Life Technologies, Carlsbad, CA) has been applied to drug discovery projects. It can easily and rapidly generate homogeneous high-expressing cell pools with a high degree of reproducibility. Their use in cell-based screening to identify specific binders, identify binding to relevant species variants, or detect functionally relevant therapeutic antibodies is central in driving drug discovery.

71. Severe Thrombocytopenia in Adults with Severe Acute Respiratory Distress Syndrome: Impact of Extracorporeal Membrane Oxygenation Use [2016]

  • Dzierba, Amy L., Roberts, Russel, Muir, Justin, Alhammad, Abdullah, Schumaker, Greg, Clark, Jacqueline, Ruthazer, Robin, and Devlin, John W.
  • ASAIO journal. 62(6):710-714

72. Can mobile technologies improve on-time vaccination? A study piloting maternal use of ImmunizeCA, a Pan-Canadian immunization app [2016]

  • Atkinson, Katherine M., Westeinde, Jacqueline, Ducharme, Robin, Wilson, Sarah E., Deeks, Shelley L., Crowcroft, Natasha, Hawken, Steven, and Wilson, Kumanan
  • Human vaccines & immunotherapeutics. 12(10):2654-2661

73. Weight Status in the First 2 Years of Life and Neurodevelopmental Impairment in Extremely Low Gestational Age Newborns [2016]

  • Belfort, Mandy B., Kuban, Karl C.K., O'Shea, T. Michael, Allred, Elizabeth N., Ehrenkranz, Richard A., Engelke, Stephen C., Leviton, Alan, Lee, Kathleen, McGovern, Anne, Gambardella, Jill, Ursprung, Susan, Kristen Ecklund, Ruth Blomquist, Bassan, Haim, Butler, Samantha, Duplessis, Adre, Hahn, Cecil, Limperopoulos, Catherine, Khwaja, Omar, Soul, Janet S., Shah, Bhavesh, Christianson, Karen, Hampf, Frederick, Gilmore, Herbert, McQuiston, Susan, Martin, Camilia R., Hallisey, Colleen, Hurley, Caitlin, Creixell, Miren, Share, Jane, Van Marter, Linda J., Durfee, Sara, Insoft, Robert M., Wilson, Jennifer G., Pimental, Maureen, Westra, Sjirk J., Krishnamoorthy, Kalpathy, Cole, Cynthia, Fiascone, John M., Madden, Janet, Nylen, Ellen, Furey, Anne, McCauley, Roy, Church, Paige T., Keller, Cecelia, Miller, Karen J., Bednarek, Francis, Naples, Mary, Powers, Beth, Wellman, Jacqueline, Adair, Robin, Bream, Richard, Miller, Alice, Scheiner, Albert, Stine, Christy, Ehrenkranz, Richard, Williams, Joanne, Romano, Elaine, Miller, Cindy, Close, Nancy, Gordon, Debbie, Harold, Teresa, Specter, Barbara, Allred, Deborah, Dillard, Robert, Goldstein, Don, Hiatt, Deborah, Hounshell, Gail, Waldrep, Ellen, Washburn, Lisa, Welch, Cherrie D., Moseley, Sherry, Pare, Linda, Smart, Donna, Wilson, Joan, Adler, Ira, Buckwald, Sharon, Helms, Rebecca, Kerkering, Kathyrn, MacGilvray, Scott S., Resnik, Peter, Bose, Carl, Bose, Gennie, Fordham, Lynn A., Bostic, Lisa, Marshall, Diane, Milowic, Kristi, Wereszczak, Janice, Poortenga, Mariel, Sutton, Dinah, Betz, Bradford W., Bezinque, Steven L., Junewick, Joseph, Burdo-Hartman, Wendy, Fagerman, Lynn, Lohr, Kim, Pastyrnak, Steve, Solomon, Carolyn, Cavenagh, Ellen, Caine, Victoria J., Olomu, Nicholas, Price, Joan, Paneth, Nigel, Karna, Padmani, Lenski, Madeleine, Schreiber, Michael D., Yoon, Grace, Feinstein, Kate, Caldarelli, Leslie, O'Connor, Sunila E., Msall, Michael, Plesha-Troyke, Susan, Batton, Daniel, Kring, Beth, Brooklier, Karen, Oca, Melisa J., and Solomon, Katherine M.
  • Journal of Pediatrics. Jan, 2016, Vol. 168, p30.

74. Risk, coping and PTSD symptom trajectories in World Trade Center responders [2016]

  • Feder, Adriana, Mota, Natalie, Salim, Ryan, Rodriguez, Janice, Singh, Ritika, Schaffer, Jamie, Schechter, Clyde B., Cancelmo, Leo M., Bromet, Evelyn J., Katz, Craig L., Reissman, Dori B., Ozbay, Fatih, Kotov, Roman, Crane, Michael, Harrison, Denise J., Herbert, Robin, Levin, Stephen M., Luft, Benjamin J., Moline, Jacqueline M., Stellman, Jeanne M., Udasin, Iris G., Landrigan, Philip J., Zvolensky, Michael J., Yehuda, Rachel, Southwick, Steven M., and Pietrzak, Robert H.
  • Journal of psychiatric research. 82:68-79

75. Latent typologies of posttraumatic stress disorder in World Trade Center responders [2016]

  • Horn, Sarah R., Pietrzak, Robert H., Schechter, Clyde, Bromet, Evelyn J., Katz, Craig L., Reissman, Dori B., Kotov, Roman, Crane, Michael, Harrison, Denise J., Herbert, Robin, Luft, Benjamin J., Moline, Jacqueline M., Stellman, Jeanne M., Udasin, Iris G., Landrigan, Philip J., Zvolensky, Michael J., Southwick, Steven M., and Feder, Adriana
  • Journal of psychiatric research. 83:151-159

76. Carbene-Catalyzed Dynamic Kinetic Resolution of Carboxylic Esters [2016]

  • Chen, Xingkuan, Fong, Jacqueline Zi Mei, Xu, Jianfeng, Mou, Chengli, Lu, Yunpeng, Yang, Song, Song, Bao-An, and Chi, Yonggui Robin
  • Journal of the American Chemical Society. 138(23):7212-7215

77. Galactic cosmic ray simulation at the NASA Space Radiation Laboratory [2016]

  • Norbury, John W., Schimmerling, Walter, Slaba, Tony C., Azzam, Edouard I., Badavi, Francis F., Baiocco, Giorgio, Benton, Eric, Bindi, Veronica, Blakely, Eleanor A., Blattnig, Steve R., Boothman, David A., Borak, Thomas B., Britten, Richard A., Curtis, Stan, Dingfelder, Michael, Durante, Marco, Dynan, William S., Eisch, Amelia J., Robin Elgart, S., Goodhead, Dudley T., Guida, Peter M., Heilbronn, Lawrence H., Hellweg, Christine E., Huff, Janice L., Kronenberg, Amy, La Tessa, Chiara, Lowenstein, Derek I., Miller, Jack, Morita, Takashi, Narici, Livio, Nelson, Gregory A., Norman, Ryan B., Ottolenghi, Andrea, Patel, Zarana S., Reitz, Guenther, Rusek, Adam, Schreurs, Ann-Sofie, Scott-Carnell, Lisa A., Semones, Edward, Shay, Jerry W., Shurshakov, Vyacheslav A., Sihver, Lembit, Simonsen, Lisa C., Story, Michael D., Turker, Mitchell S., Uchihori, Yukio, Williams, Jacqueline, and Zeitlin, Cary J.
  • Life Sciences in Space Research; February 2016, Vol. 8 Issue: 1 p38-51, 14p
Abstract
Most accelerator-based space radiation experiments have been performed with single ion beams at fixed energies. However, the space radiation environment consists of a wide variety of ion species with a continuous range of energies. Due to recent developments in beam switching technology implemented at the NASA Space Radiation Laboratory (NSRL) at Brookhaven National Laboratory (BNL), it is now possible to rapidly switch ion species and energies, allowing for the possibility to more realistically simulate the actual radiation environment found in space. The present paper discusses a variety of issues related to implementation of galactic cosmic ray (GCR) simulation at NSRL, especially for experiments in radiobiology. Advantages and disadvantages of different approaches to developing a GCR simulator are presented. In addition, issues common to both GCR simulation and single beam experiments are compared to issues unique to GCR simulation studies. A set of conclusions is presented as well as a discussion of the technical implementation of GCR simulation.

78. Personal Burden of Isotretinoin Therapy and Willingness to Pay for Electronic Follow-up Visits [2016]

  • Mori, Westley S., Houston, Neil, Moreau, Jacqueline F., Prevost, Noel, Gehris, Robin P., Ferris, Laura Korb, and Patton, Timothy J.
  • JAMA Dermatology; March 2016, Vol. 152 Issue: 3 p338-340, 3p

79. Efficacy of Low-Dose Buspirone for Restricted and Repetitive Behavior in Young Children with Autism Spectrum Disorder: A Randomized Trial [2016]

  • Chugani, Diane C., Chugani, Harry T., Wiznitzer, Max, Parikh, Sumit, Evans, Patricia A., Hansen, Robin L., Nass, Ruth, Janisse, James J., Dixon-Thomas, Pamela, Behen, Michael, Rothermel, Robert, Parker, Jacqueline S., Kumar, Ajay, Muzik, Otto, Edwards, David J., Hirtz, Deborah, Jiang, Huiyuan, Sivaswamy, Lalitha, Steinhilber, Ginger, Kennedy, Kristin, Pawlik, Kathy, Roeder, Ruth, Malian, Monica, Turner, Hailey, Hanna, Amira, Katusin, Jamie, Supula, Deanna, Halverson, Stacey, Guy, William, Gjolaj, Nore, Mangner, Thomas, Chakraborty, Pulak, Wigeluk, Angela, Patterson, Gregory, Mosqueda, Andrew, Burkett, Melissa, DeBoard, Anna, Cornett, Jane, Lee, Mei-li, Lu, Xin, Germain, Catherine, Majkowski, Marianne, French, Beth, Stolinski, Amy, Naguib, Suzi, Wolfe-Christensen, Courtney, Taylor, Sara, Ameli, Jamal, McQueeney, Julie Kemp, Rubinlicht, Michelle, Gorka, Bethany, Zacharski, Erin, Blumer, Jeffrey L., Maxwell, Kathleen, Tasi, Catherine, Toltzis, Philip, Kalic, Jolee, Morus, Dianne, Paulett, Jany, Rosolowski, Bonnie, Banchy, Michael, Westlake, Kathryn, Calabro, Barbara, Tacket, Carol, Adkins, Ina, Buchheit, Kenneth, Hepper, Kathryn, Speicher, David, Bergant, Susan, Haky, Jennifer, Frohnapfel, Mary Beth, Schaefer, Cindy, Browning, Allison, Bauer, Roberta, Embacher, Rebecca, Knapp, Julie, Levy, Stephanie, Davies, Diane, Lach, Donna, Petrich, John, Kreischer, Sharon, Blubaugh, Patty, Morris, Mary Ann, Garver, Carolyn, Andersen, Mariam, Greene, Meredith, Richards, Amanda, Rocha, Maria, Merryman, Ruth, Golla, Sailaja, Lorenzen, Alan, Sherrod, Julie Long, Perryman, Paulette, Lorduy, Kara, Angkustsiri, Kathleen, Plumer, Lauren Back, Siy Leigh, Mary Jacena, Bacalman, Susan C., Roa, Dorcas Liriano, Govindappa, Kushma, Mahajan, Gayatri, Bickel, Erika, Brule, Norman, Hare, Emma, Sarwary, Nadir, Cargill, Dominique, Lee, Joyce, Hom, Smiley, Steindorf, Dennis, Pietrykowski, Mandy, Root, Kindra, Coffey, Sarah, Hanzel, Elise Phelps, Santana, Adriana, Ramirez, Clara, Berci, Stefanie, Gabriel, Nielsen, Hirsch, Glenn, Roberts, Elizabeth, Zwilling, Amanda, Gellatly, Resham, Levy, Dana, Lee, Sandi, Rodman, Jennifer, Oberfield, Nora, Friedland, Susan, Lord, Catherine, Kozloff, Rene, Crouse, Celeste, Millen, Stephanie, CoAaAaAeA mbre, Alex, McCarter, Kelly L., and Posey, David
  • Journal of Pediatrics. March, 2016, Vol. 170, p45.

80. The 5As Team Program: Improving patient-centered obesity assessment and management in primary care [2017]

  • Campbell-Scherer, Denise L., Luig, Thea, Asselin, Jodie, Anderson, Robin, Fielding, Sheri, Heatherington, Melanie, Borrowitz, Michelle, Torti, Jacqueline, Cave, Andrew, Johnson, Jeffrey A., and Sharma, Arya M.
  • Canadian journal of diabetes. 41(5):S54-S54

81. Hypothyroidism [2017]

  • Chaker, Layal, Bianco, Antonio C, Jonklaas, Jacqueline, and Peeters, Robin P
  • Lancet. 390(10101):1550-1562

82. A parallel group randomised open blinded evaluation of Acceptance and Commitment Therapy for depression after psychosis: Pilot trial outcomes (ADAPT) [2017]

  • Gumley, Andrew, White, Ross, Briggs, Andy, Ford, Ian, Barry, Sarah, Stewart, Corinna, Beedie, Sara, McTaggart, Jacqueline, Clarke, Caoimhe, MacLeod, Rachel, Lidstone, Emma, Riveros, Bruno Salgado, Young, Robin, and McLeod, Hamish
  • Schizophrenia research. 183:143-150

83. Integrative Genomic Analysis of Cholangiocarcinoma Identifies Distinct IDH-Mutant Molecular Profiles [2017]

  • Farshidfar, Farshad, Zheng, Siyuan, Gingras, Marie-Claude, Newton, Yulia, Shih, Juliann, Robertson, A. Gordon, Hinoue, Toshinori, Hoadley, Katherine A., Gibb, Ewan A., Roszik, Jason, Covington, Kyle R., Wu, Chia-Chin, Shinbrot, Eve, Stransky, Nicolas, Hegde, Apurva, Yang, Ju Dong, Reznik, Ed, Sadeghi, Sara, Pedamallu, Chandra Sekhar, Ojesina, Akinyemi I., Hess, Julian M., Auman, J. Todd, Rhie, Suhn K., Bowlby, Reanne, Borad, Mitesh J., Akbani, Rehan, Allotey, Loretta K., Ally, Adrian, Alvaro, Domenico, Andersen, Jesper B., Appelbaum, Elizabeth L., Arora, Arshi, Auman, J. Todd, Balasundaram, Miruna, Balu, Saianand, Bardeesy, Nabeel, Bathe, Oliver F., Baylin, Stephen B., Beroukhim, Rameen, Berrios, Mario, Bodenheimer, Tom, Boice, Lori, Bootwalla, Moiz S., Borad, Mitesh J., Bowen, Jay, Bowlby, Reanne, Bragazzi, Maria Consiglia, Brooks, Denise, Cardinale, Vincenzo, Carlsen, Rebecca, Carpino, Guido, Carvalho, Andre L., Chaiteerakij, Roongruedee, Chandan, Vishal C., Cherniack, Andrew D., Chin, Lynda, Cho, Juok, Choe, Gina, Chuah, Eric, Chudamani, Sudha, Cibulskis, Carrie, Cordes, Matthew G., Covington, Kyle R., Crain, Daniel, Curley, Erin, De Rose, Agostino Maria, Defreitas, Timothy, Demchok, John A., Deshpande, Vikram, Dhalla, Noreen, Ding, Li, Evason, Kimberley, Farshidfar, Farshad, Felau, Ina, Ferguson, Martin L., Foo, Wai Chin, Franchitto, Antonio, Frazer, Scott, Fronick, Catrina C., Fulton, Lucinda A., Fulton, Robert S., Gabriel, Stacey B., Gardner, Johanna, Gastier-Foster, Julie M., Gaudio, Eugenio, Gehlenborg, Nils, Genovese, Giannicola, Gerken, Mark, Getz, Gad, Giama, Nasra H., Gibbs, Richard A., Gingras, Marie-Claude, Giuliante, Felice, Grazi, Gian Luca, Hayes, D. Neil, Hegde, Apurva M., Heiman, David I., Hess, Julian M., Hinoue, Toshinori, Hoadley, Katherine A., Holbrook, Andrea, Holt, Robert A., Hoyle, Alan P., Huang, Mei, Hutter, Carolyn M., Jefferys, Stuart R., Jones, Steven J.M., Jones, Corbin D., Kasaian, Katayoon, Kelley, Robin K., Kim, Jaegil, Kleiner, David E., Kocher, Jean-Pierre A., Kwong, Lawrence N., Lai, Phillip H., Laird, Peter W., Lawrence, Michael S., Leraas, Kristen M., Lichtenberg, Tara M., Lin, Pei, Liu, Wenbin, Liu, Jia, Lolla, Laxmi, Lu, Yiling, Ma, Yussanne, Mallery, David, Mardis, Elaine R., Marra, Marco A., Matsushita, Marcus M., Mayo, Michael, McLellan, Michael D., McRee, Autumn J., Meier, Sam, Meng, Shaowu, Meyerson, Matthew, Mieczkowski, Piotr A., Miller, Christopher A., Mills, Gordon B., Moore, Richard A., Morris, Scott, Mose, Lisle E., Moser, Catherine D., Mounajjed, Taofic, Mungall, Andrew J., Mungall, Karen, Murray, Bradley A., Naresh, Rashi, Newton, Yulia, Noble, Michael S., O’Brien, Daniel R., Ojesina, Akinyemi I., Parker, Joel S., Patel, Tushar C., Paulauskis, Joseph, Pedamallu, Chandra Sekhar, Penny, Robert, Perou, Charles M., Perou, Amy H., Pihl, Todd, Radenbaugh, Amie J., Ramirez, Nilsa C., Rathmell, W. Kimryn, Reznik, Ed, Rhie, Suhn K., Roach, Jeffrey, Roberts, Lewis R., Robertson, A. Gordon, Sadeghi, Sara, Saksena, Gordon, Sander, Chris, Schein, Jacqueline E., Schmidt, Heather K., Schumacher, Steven E., Shelton, Candace, Shelton, Troy, Shen, Ronglai, Sheth, Margi, Shi, Yan, Shih, Juliann, Shinbrot, Eve, Shroff, Rachna, Simons, Janae V., Sipahimalani, Payal, Skelly, Tara, Sofia, Heidi J., Soloway, Matthew G., Stoppler, Hubert, Stransky, Nicolas, Stuart, Josh, Sun, Qiang, Tam, Angela, Tan, Donghui, Tarnuzzer, Roy, Thiessen, Nina, Thorne, Leigh B., Torbenson, Michael S., Van Den Berg, David J., Veluvolu, Umadevi, Verhaak, Roel G.W., Voet, Doug, Wan, Yunhu, Wang, Zhining, Weinstein, John N., Weisenberger, Daniel J., Wheeler, David A., Wilson, Richard K., Wise, Lisa, Wong, Tina, Wu, Chia-Chin, Wu, Ye, Xi, Liu, Yang, Ju Dong, Yang, Liming, Zenklusen, Jean C., Zhang, Hailei, Zhang, Jiashan (Julia), Zheng, Siyuan, Zmuda, Erik, Zhu, Andrew X., Stuart, Josh M., Sander, Chris, Akbani, Rehan, Cherniack, Andrew D., Deshpande, Vikram, Mounajjed, Taofic, Foo, Wai Chin, Torbenson, Michael S., Kleiner, David E., Laird, Peter W., Wheeler, David A., McRee, Autumn J., Bathe, Oliver F., Andersen, Jesper B., Bardeesy, Nabeel, Roberts, Lewis R., and Kwong, Lawrence N.
  • Cell Reports; March 2017, Vol. 18 Issue: 11 p2780-2794, 15p
Abstract
Cholangiocarcinoma (CCA) is an aggressive malignancy of the bile ducts, with poor prognosis and limited treatment options. Here, we describe the integrated analysis of somatic mutations, RNA expression, copy number, and DNA methylation by The Cancer Genome Atlas of a set of predominantly intrahepatic CCA cases and propose a molecular classification scheme. We identified an IDHmutant-enriched subtype with distinct molecular features including low expression of chromatin modifiers, elevated expression of mitochondrial genes, and increased mitochondrial DNA copy number. Leveraging the multi-platform data, we observed that ARID1A exhibited DNA hypermethylation and decreased expression in the IDHmutant subtype. More broadly, we found that IDHmutations are associated with an expanded histological spectrum of liver tumors with molecular features that stratify with CCA. Our studies reveal insights into the molecular pathogenesis and heterogeneity of cholangiocarcinoma and provide classification information of potential therapeutic significance.

84. MUC1-mediated induction of myeloid-derived suppressor cells in patients with acute myeloid leukemia [2017]

  • Pyzer, Athalia Rachel, Stroopinsky, Dina, Rajabi, Hasan, Washington, Abigail, Tagde, Ashujit, Coll, Maxwell, Fung, Jacqueline, Bryant, Mary Paty, Cole, Leandra, Palmer, Kristen, Somaiya, Poorvi, Karp Leaf, Rebecca, Nahas, Myrna, Apel, Arie, Jain, Salvia, McMasters, Malgorzata, Mendez, Lourdes, Levine, James, Joyce, Robin, Arnason, Jon, Pandolfi, Pier Paolo, Kufe, Donald, Rosenblatt, Jacalyn, and Avigan, David
  • Blood; March 2017, Vol. 129 Issue: 13 p1791-1801, 11p
Abstract
Myeloid-derived suppressor cells (MDSCs) play a critical role in promoting immune tolerance and disease growth. The mechanism by which tumor cells evoke the expansion of MDSCs in acute myeloid leukemia (AML) has not been well described. We have demonstrated that patients with AML exhibit increased presence of MDSCs in their peripheral blood, in comparison with normal controls. Cytogenetic studies demonstrated that MDSCs in patients with AML may be derived from leukemic or apparently normal progenitors. Engraftment of C57BL/6 mice with TIB-49 AML led to an expansion of CD11b+Gr1+MDSCs in bone marrow and spleen. Coculture of the AML cell lines MOLM-4, THP-1 or primary AML cells with donor peripheral blood mononuclear cells elicited a cell contact–dependent expansion of MDSCs. MDSCs were suppressive of autologous T-cell responses as evidenced by reduced T-cell proliferation and a switch from a Th1 to a Th2 phenotype. We hypothesized that the expansion of MDSCs in AML is accomplished by tumor-derived extracellular vesicles (EVs). Using tracking studies, we demonstrated that AML EVs are taken-up myeloid progenitor cells, resulting in the selective proliferation of MDSCs in comparison with functionally competent antigen-presenting cells. The MUC1 oncoprotein was subsequently identified as the critical driver of EV-mediated MDSC expansion. MUC1 induces increased expression of c-myc in EVs that induces proliferation in the target MDSC population via downstream effects on cell cycle proteins. Moreover, we demonstrate that the microRNA miR34a acts as the regulatory mechanism by which MUC1 drives c-myc expression in AML cells and EVs.

85. Seek, test, treat: substance-using women in the HIV treatment cascade in South Africa [2017]

  • Wechsberg, Wendee, Horst, Charles, Ndirangu, Jacqueline, Doherty, Irene, Kline, Tracy, Browne, Felicia, Belus, Jennifer, Nance, Robin, and Zule, William
  • Addiction Science & Clinical Practice; December 2017, Vol. 12 Issue: 1 p1-11, 11p
Abstract
Women in South Africa who use alcohol and other drugs face multiple barriers to HIV care. These barriers make it difficult for women to progress through each step in the HIV treatment cascade from diagnosis to treatment initiation and adherence. This paper examines correlates of HIV status, newly diagnosed HIV status, and use of antiretroviral therapy (ART). Outreach workers recruited sexually active Black African women who used substances in Pretoria as part of a U.S. National Institutes of Health-funded geographically clustered randomized trial examining the effect of an intervention to reduce alcohol and drug use as well as sexual risk behaviors. To address the question of interest in the current investigation, cross-sectional baseline data were used. At study enrollment, all participants (N = 641) completed an interview, and underwent rapid HIV testing and biological drug screening. Those who tested positive for HIV and were eligible for ART were asked about their barriers to initiating or adhering to ART. Bivariate and multivariable logistic regression analyses were conducted to determine correlates of HIV status, newly diagnosed HIV, and ART use. At enrollment, 55% of participants tested positive for HIV, and 36% of these women were newly diagnosed. In multivariable analyses of the entire sample, women who had completed 10th grade were less likely to be living with HIV (OR 0.69; CI 0.48, 0.99) and those from the inner city were more likely to be living with HIV (OR 1.83; CI 1.26, 2.67). Among HIV-positive participants, women were less likely to be newly diagnosed if they had ever been in substance abuse treatment (OR 0.15; CI 0.03, 0.69) or used a condom at last sex (OR 0.58; CI 0.34, 0.98) and more likely to be newly diagnosed if they were physically assaulted in the past year (OR 1.97; CI 1.01, 3.84). Among women eligible for ART, fewer were likely to be on treatment (by self-report) if they had a positive urine test for opiates or cocaine (OR 0.27; CI 0.09, 0.80). These results, although cross-sectional, provide some guidance for provincial authorities to address barriers to HIV care for sexually active, substance-using vulnerable women in Pretoria. Targeting the inner city with prevention campaigns, expanding and improving substance abuse treatment programs, linking clients with simultaneous HIV testing and treatment, and targeting women who have experienced sexual assault and violence may help the government achieve the UNAIDS 90-90-90 treatment target. Clinical Trials.gov NCT01497405 registered on December 1, 2011.

86. Phase I/Ib Trial of the MUC1 Inhibitor GO-203-2C Alone and in Combination with Decitabine for Acute Myeloid Leukemia [2017]

  • Liegel, Jessica, Rosenblatt, Jacalyn, Stone, Richard M., McMasters, Malgorzata, Levine, James D., Nahas, Myrna, Joyce, Robin M., Jain, Salvia, DeAngelo, Daniel J., Garcia, Jacqueline S., Bazemore, Josie, Galinsky, Ilene, Neuberg, Donna S., Werner, Lillian, Logan, Emma, Mikami, Kaleb, Bryant, Mary Paty, Allen, Victoria, Stroopinsky, Dina, Cole, Leandra, Washington, Abigail J., Ephraim, Adam, and Avigan, David E.
  • Blood; December 2017, Vol. 130 Issue: 1, Number 1 Supplement 1 p2659-2659, 1p
Abstract
MUC1, an oncogenic protein aberrantly expressed on AML and leukemic stem cells, supports critical aspects of the malignant phenotype including resistance to apoptosis, cell proliferation and autonomous self renewal. GO-203-2C is a novel cell-penetrating peptide that blocks homodimerization of the MUC1-C subunit required for nuclear translocation and downstream signaling. In murine AML models, treatment with GO-203-2C resulted in specific eradication of myeloid leukemia. GO-203-2C is synergistic with hypomethylating agents in pre-clinical models of AML. Based on these findings, we are conducting a phase I/Ib study of GO-203-2C alone and in combination with decitabine in patients with AML.

87. Pharmacogenetic analysis of OATP1B1 variants in relation to the pharmacokinetics of Grazoprevir and the efficacy of Zepatier (Elbasvir and Grazoprevir) in HCV infected subjects from previously conducted clinical studies [2018]

  • Guo, Zifang, Caro, Luzelena, Robertson, Michael N., Mccrea, Jacqueline, Hoover, Patricia, Wudarski, Christen, Maiuri, Kristina, Wang, Ying-Hong, Mogg, Robin, Mehrotra, Devan, Blanchard, Rebecca, and Shaw, Peter M.
  • Drug Metabolism and Pharmacokinetics; January 2018, Vol. 33 Issue: 1, Number 1 Supplement 1 pS85-S85, 1p

88. Breakfast food health and acute exercise: Effects on state body image [2018]

  • Hayes, Jacqueline F., Giles, Grace E., Mahoney, Caroline R., and Kanarek, Robin B.
  • Eating behaviors. 30:22-27

89. Decline in atmospheric sulphur deposition and changes in climate are the major drivers of long-term change in grassland plant communities in Scotland [2018]

  • Mitchell, Ruth J., Hewison, Richard L., Fielding, Debbie A., Fisher, Julia M., Gilbert, Diana J., Hurskainen, Sonja, Pakeman, Robin J., Potts, Jacqueline M., and Riach, David
  • Environmental pollution. 235:956-964

90. Keeping the faith in integration and primary care [2018]

  • Miller, Robin, Cumming, Jacqueline, and Lewis, Richard Q.
  • Journal of integrated care. 26(3):170-174

91. Hypothyroidism and hypertension: fact or myth? – Authors' reply [2018]

  • Chaker, Layal, Bianco, Antonio C, Jonklaas, Jacqueline, and Peeters, Robin P
  • lancet. 391(10115):30-30

92. Cellular immunotherapy on primary multiple myeloma expanded in a 3D bone marrow niche model [2018]

  • Braham, Maaike V. J., Minnema, Monique C., Aarts, Tineke, Sebestyen, Zsolt, Straetemans, Trudy, Vyborova, Anna, Kuball, Jurgen, Öner, F. Cumhur, Robin, Catherine, and Alblas, Jacqueline
  • Oncoimmunology. 7(6)

93. MR Imaging Features of Retinoblastoma: Association with Gene Expression Profiles [2018]

  • Jansen, Robin W., de Jong, Marcus C., Kooi, Irsan E., Sirin, Selma, Göricke, Sophia, Brisse, Hervé J., Maeder, Philippe, Galluzzi, Paolo, van der Valk, Paul, and Cloos, Jacqueline
  • Radiology. 288(2):506-515

94. Individual Differences in Transportation Into Narrative Drama [2018]

  • Thompson, Jacqueline M., Teasdale, Ben, Duncan, Sophie, van Emde Boas, Evert, Budelmann, Felix, Maguire, Laurie, and Dunbar, Robin I. M.
  • Review of general psychology. 22(2):210-219

95. Using Teacher Ratings to Investigate Developmental Regression as a Potential Indicator of School-Age Symptoms in Students with Autism Spectrum Disorder [2018]

  • Mire, Sarah S., Anderson, Jacqueline R., Manis, Jamie K., Hughes, K. R., Raff, Natalie S., and Goin-Kochel, Robin P.
  • School mental health. 10(1):77-90

96. The effect of probiotics and zinc supplementation on the immune response to oral rotavirus vaccine: A randomized, factorial design, placebo-controlled study among Indian infants [2018]

  • Lazarus, Robin P., John, Jacob, Shanmugasundaram, E., Rajan, Anand K., Thiagarajan, S., Giri, Sidhartha, Babji, Sudhir, Sarkar, Rajiv, Kaliappan, P. Saravankumar, Venugopal, Srinivasan, Praharaj, Ira, Raman, Uma, Paranjpe, Meghana, Grassly, Nicholas C., Parker, Edward P.K., Parashar, Umesh D., Tate, Jacqueline E., Fleming, Jessica A., Steele, A. Duncan, Muliyil, Jayaprakash, Abraham, Asha M., and Kang, Gagandeep
  • Vaccine. 36(2):273-279

97. Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas [2018]

  • Way, Gregory P., Sanchez-Vega, Francisco, La, Konnor, Armenia, Joshua, Chatila, Walid K., Luna, Augustin, Sander, Chris, Cherniack, Andrew D., Mina, Marco, Ciriello, Giovanni, Schultz, Nikolaus, Caesar-Johnson, Samantha J., Demchok, John A., Felau, Ina, Kasapi, Melpomeni, Ferguson, Martin L., Hutter, Carolyn M., Sofia, Heidi J., Tarnuzzer, Roy, Wang, Zhining, Yang, Liming, Zenklusen, Jean C., Zhang, Jiashan (Julia), Chudamani, Sudha, Liu, Jia, Lolla, Laxmi, Naresh, Rashi, Pihl, Todd, Sun, Qiang, Wan, Yunhu, Wu, Ye, Cho, Juok, DeFreitas, Timothy, Frazer, Scott, Gehlenborg, Nils, Getz, Gad, Heiman, David I., Kim, Jaegil, Lawrence, Michael S., Lin, Pei, Meier, Sam, Noble, Michael S., Saksena, Gordon, Voet, Doug, Zhang, Hailei, Bernard, Brady, Chambwe, Nyasha, Dhankani, Varsha, Knijnenburg, Theo, Kramer, Roger, Leinonen, Kalle, Liu, Yuexin, Miller, Michael, Reynolds, Sheila, Shmulevich, Ilya, Thorsson, Vesteinn, Zhang, Wei, Akbani, Rehan, Broom, Bradley M., Hegde, Apurva M., Ju, Zhenlin, Kanchi, Rupa S., Korkut, Anil, Li, Jun, Liang, Han, Ling, Shiyun, Liu, Wenbin, Lu, Yiling, Mills, Gordon B., Ng, Kwok-Shing, Rao, Arvind, Ryan, Michael, Wang, Jing, Weinstein, John N., Zhang, Jiexin, Abeshouse, Adam, Armenia, Joshua, Chakravarty, Debyani, Chatila, Walid K., de Bruijn, Ino, Gao, Jianjiong, Gross, Benjamin E., Heins, Zachary J., Kundra, Ritika, La, Konnor, Ladanyi, Marc, Luna, Augustin, Nissan, Moriah G., Ochoa, Angelica, Phillips, Sarah M., Reznik, Ed, Sanchez-Vega, Francisco, Sander, Chris, Schultz, Nikolaus, Sheridan, Robert, Sumer, S. Onur, Sun, Yichao, Taylor, Barry S., Wang, Jioajiao, Zhang, Hongxin, Anur, Pavana, Peto, Myron, Spellman, Paul, Benz, Christopher, Stuart, Joshua M., Wong, Christopher K., Yau, Christina, Hayes, D. Neil, Parker, Joel S., Wilkerson, Matthew D., Ally, Adrian, Balasundaram, Miruna, Bowlby, Reanne, Brooks, Denise, Carlsen, Rebecca, Chuah, Eric, Dhalla, Noreen, Holt, Robert, Jones, Steven J.M., Kasaian, Katayoon, Lee, Darlene, Ma, Yussanne, Marra, Marco A., Mayo, Michael, Moore, Richard A., Mungall, Andrew J., Mungall, Karen, Robertson, A. Gordon, Sadeghi, Sara, Schein, Jacqueline E., Sipahimalani, Payal, Tam, Angela, Thiessen, Nina, Tse, Kane, Wong, Tina, Berger, Ashton C., Beroukhim, Rameen, Cherniack, Andrew D., Cibulskis, Carrie, Gabriel, Stacey B., Gao, Galen F., Ha, Gavin, Meyerson, Matthew, Schumacher, Steven E., Shih, Juliann, Kucherlapati, Melanie H., Kucherlapati, Raju S., Baylin, Stephen, Cope, Leslie, Danilova, Ludmila, Bootwalla, Moiz S., Lai, Phillip H., Maglinte, Dennis T., Van Den Berg, David J., Weisenberger, Daniel J., Auman, J. Todd, Balu, Saianand, Bodenheimer, Tom, Fan, Cheng, Hoadley, Katherine A., Hoyle, Alan P., Jefferys, Stuart R., Jones, Corbin D., Meng, Shaowu, Mieczkowski, Piotr A., Mose, Lisle E., Perou, Amy H., Perou, Charles M., Roach, Jeffrey, Shi, Yan, Simons, Janae V., Skelly, Tara, Soloway, Matthew G., Tan, Donghui, Veluvolu, Umadevi, Fan, Huihui, Hinoue, Toshinori, Laird, Peter W., Shen, Hui, Zhou, Wanding, Bellair, Michelle, Chang, Kyle, Covington, Kyle, Creighton, Chad J., Dinh, Huyen, Doddapaneni, HarshaVardhan, Donehower, Lawrence A., Drummond, Jennifer, Gibbs, Richard A., Glenn, Robert, Hale, Walker, Han, Yi, Hu, Jianhong, Korchina, Viktoriya, Lee, Sandra, Lewis, Lora, Li, Wei, Liu, Xiuping, Morgan, Margaret, Morton, Donna, Muzny, Donna, Santibanez, Jireh, Sheth, Margi, Shinbrot, Eve, Wang, Linghua, Wang, Min, Wheeler, David A., Xi, Liu, Zhao, Fengmei, Hess, Julian, Appelbaum, Elizabeth L., Bailey, Matthew, Cordes, Matthew G., Ding, Li, Fronick, Catrina C., Fulton, Lucinda A., Fulton, Robert S., Kandoth, Cyriac, Mardis, Elaine R., McLellan, Michael D., Miller, Christopher A., Schmidt, Heather K., Wilson, Richard K., Crain, Daniel, Curley, Erin, Gardner, Johanna, Lau, Kevin, Mallery, David, Morris, Scott, Paulauskis, Joseph, Penny, Robert, Shelton, Candace, Shelton, Troy, Sherman, Mark, Thompson, Eric, Yena, Peggy, Bowen, Jay, Gastier-Foster, Julie M., Gerken, Mark, Leraas, Kristen M., Lichtenberg, Tara M., Ramirez, Nilsa C., Wise, Lisa, Zmuda, Erik, Corcoran, Niall, Costello, Tony, Hovens, Christopher, Carvalho, Andre L., de Carvalho, Ana C., Fregnani, José H., Longatto-Filho, Adhemar, Reis, Rui M., Scapulatempo-Neto, Cristovam, Silveira, Henrique C.S., Vidal, Daniel O., Burnette, Andrew, Eschbacher, Jennifer, Hermes, Beth, Noss, Ardene, Singh, Rosy, Anderson, Matthew L., Castro, Patricia D., Ittmann, Michael, Huntsman, David, Kohl, Bernard, Le, Xuan, Thorp, Richard, Andry, Chris, Duffy, Elizabeth R., Lyadov, Vladimir, Paklina, Oxana, Setdikova, Galiya, Shabunin, Alexey, Tavobilov, Mikhail, McPherson, Christopher, Warnick, Ronald, Berkowitz, Ross, Cramer, Daniel, Feltmate, Colleen, Horowitz, Neil, Kibel, Adam, Muto, Michael, Raut, Chandrajit P., Malykh, Andrei, Barnholtz-Sloan, Jill S., Barrett, Wendi, Devine, Karen, Fulop, Jordonna, Ostrom, Quinn T., Shimmel, Kristen, Wolinsky, Yingli, Sloan, Andrew E., De Rose, Agostino, Giuliante, Felice, Goodman, Marc, Karlan, Beth Y., Hagedorn, Curt H., Eckman, John, Harr, Jodi, Myers, Jerome, Tucker, Kelinda, Zach, Leigh Anne, Deyarmin, Brenda, Hu, Hai, Kvecher, Leonid, Larson, Caroline, Mural, Richard J., Somiari, Stella, Vicha, Ales, Zelinka, Tomas, Bennett, Joseph, Iacocca, Mary, Rabeno, Brenda, Swanson, Patricia, Latour, Mathieu, Lacombe, Louis, Têtu, Bernard, Bergeron, Alain, McGraw, Mary, Staugaitis, Susan M., Chabot, John, Hibshoosh, Hanina, Sepulveda, Antonia, Su, Tao, Wang, Timothy, Potapova, Olga, Voronina, Olga, Desjardins, Laurence, Mariani, Odette, Roman-Roman, Sergio, Sastre, Xavier, Stern, Marc-Henri, Cheng, Feixiong, Signoretti, Sabina, Berchuck, Andrew, Bigner, Darell, Lipp, Eric, Marks, Jeffrey, McCall, Shannon, McLendon, Roger, Secord, Angeles, Sharp, Alexis, Behera, Madhusmita, Brat, Daniel J., Chen, Amy, Delman, Keith, Force, Seth, Khuri, Fadlo, Magliocca, Kelly, Maithel, Shishir, Olson, Jeffrey J., Owonikoko, Taofeek, Pickens, Alan, Ramalingam, Suresh, Shin, Dong M., Sica, Gabriel, Van Meir, Erwin G., Zhang, Hongzheng, Eijckenboom, Wil, Gillis, Ad, Korpershoek, Esther, Looijenga, Leendert, Oosterhuis, Wolter, Stoop, Hans, van Kessel, Kim E., Zwarthoff, Ellen C., Calatozzolo, Chiara, Cuppini, Lucia, Cuzzubbo, Stefania, DiMeco, Francesco, Finocchiaro, Gaetano, Mattei, Luca, Perin, Alessandro, Pollo, Bianca, Chen, Chu, Houck, John, Lohavanichbutr, Pawadee, Hartmann, Arndt, Stoehr, Christine, Stoehr, Robert, Taubert, Helge, Wach, Sven, Wullich, Bernd, Kycler, Witold, Murawa, Dawid, Wiznerowicz, Maciej, Chung, Ki, Edenfield, W. Jeffrey, Martin, Julie, Baudin, Eric, Bubley, Glenn, Bueno, Raphael, De Rienzo, Assunta, Richards, William G., Kalkanis, Steven, Mikkelsen, Tom, Noushmehr, Houtan, Scarpace, Lisa, Girard, Nicolas, Aymerich, Marta, Campo, Elias, Giné, Eva, Guillermo, Armando López, Van Bang, Nguyen, Hanh, Phan Thi, Phu, Bui Duc, Tang, Yufang, Colman, Howard, Evason, Kimberley, Dottino, Peter R., Martignetti, John A., Gabra, Hani, Juhl, Hartmut, Akeredolu, Teniola, Stepa, Serghei, Hoon, Dave, Ahn, Keunsoo, Kang, Koo Jeong, Beuschlein, Felix, Breggia, Anne, Birrer, Michael, Bell, Debra, Borad, Mitesh, Bryce, Alan H., Castle, Erik, Chandan, Vishal, Cheville, John, Copland, John A., Farnell, Michael, Flotte, Thomas, Giama, Nasra, Ho, Thai, Kendrick, Michael, Kocher, Jean-Pierre, Kopp, Karla, Moser, Catherine, Nagorney, David, O’Brien, Daniel, O’Neill, Brian Patrick, Patel, Tushar, Petersen, Gloria, Que, Florencia, Rivera, Michael, Roberts, Lewis, Smallridge, Robert, Smyrk, Thomas, Stanton, Melissa, Thompson, R. Houston, Torbenson, Michael, Yang, Ju Dong, Zhang, Lizhi, Brimo, Fadi, Ajani, Jaffer A., Gonzalez, Ana Maria Angulo, Behrens, Carmen, Bondaruk, Jolanta, Broaddus, Russell, Czerniak, Bogdan, Esmaeli, Bita, Fujimoto, Junya, Gershenwald, Jeffrey, Guo, Charles, Lazar, Alexander J., Logothetis, Christopher, Meric-Bernstam, Funda, Moran, Cesar, Ramondetta, Lois, Rice, David, Sood, Anil, Tamboli, Pheroze, Thompson, Timothy, Troncoso, Patricia, Tsao, Anne, Wistuba, Ignacio, Carter, Candace, Haydu, Lauren, Hersey, Peter, Jakrot, Valerie, Kakavand, Hojabr, Kefford, Richard, Lee, Kenneth, Long, Georgina, Mann, Graham, Quinn, Michael, Saw, Robyn, Scolyer, Richard, Shannon, Kerwin, Spillane, Andrew, Stretch, Jonathan, Synott, Maria, Thompson, John, Wilmott, James, Al-Ahmadie, Hikmat, Chan, Timothy A., Ghossein, Ronald, Gopalan, Anuradha, Levine, Douglas A., Reuter, Victor, Singer, Samuel, Singh, Bhuvanesh, Tien, Nguyen Viet, Broudy, Thomas, Mirsaidi, Cyrus, Nair, Praveen, Drwiega, Paul, Miller, Judy, Smith, Jennifer, Zaren, Howard, Park, Joong-Won, Hung, Nguyen Phi, Kebebew, Electron, Linehan, W. Marston, Metwalli, Adam R., Pacak, Karel, Pinto, Peter A., Schiffman, Mark, Schmidt, Laura S., Vocke, Cathy D., Wentzensen, Nicolas, Worrell, Robert, Yang, Hannah, Moncrieff, Marc, Goparaju, Chandra, Melamed, Jonathan, Pass, Harvey, Botnariuc, Natalia, Caraman, Irina, Cernat, Mircea, Chemencedji, Inga, Clipca, Adrian, Doruc, Serghei, Gorincioi, Ghenadie, Mura, Sergiu, Pirtac, Maria, Stancul, Irina, Tcaciuc, Diana, Albert, Monique, Alexopoulou, Iakovina, Arnaout, Angel, Bartlett, John, Engel, Jay, Gilbert, Sebastien, Parfitt, Jeremy, Sekhon, Harman, Thomas, George, Rassl, Doris M., Rintoul, Robert C., Bifulco, Carlo, Tamakawa, Raina, Urba, Walter, Hayward, Nicholas, Timmers, Henri, Antenucci, Anna, Facciolo, Francesco, Grazi, Gianluca, Marino, Mirella, Merola, Roberta, de Krijger, Ronald, Gimenez-Roqueplo, Anne-Paule, Piché, Alain, Chevalier, Simone, McKercher, Ginette, Birsoy, Kivanc, Barnett, Gene, Brewer, Cathy, Farver, Carol, Naska, Theresa, Pennell, Nathan A., Raymond, Daniel, Schilero, Cathy, Smolenski, Kathy, Williams, Felicia, Morrison, Carl, Borgia, Jeffrey A., Liptay, Michael J., Pool, Mark, Seder, Christopher W., Junker, Kerstin, Omberg, Larsson, Dinkin, Mikhail, Manikhas, George, Alvaro, Domenico, Bragazzi, Maria Consiglia, Cardinale, Vincenzo, Carpino, Guido, Gaudio, Eugenio, Chesla, David, Cottingham, Sandra, Dubina, Michael, Moiseenko, Fedor, Dhanasekaran, Renumathy, Becker, Karl-Friedrich, Janssen, Klaus-Peter, Slotta-Huspenina, Julia, Abdel-Rahman, Mohamed H., Aziz, Dina, Bell, Sue, Cebulla, Colleen M., Davis, Amy, Duell, Rebecca, Elder, J. Bradley, Hilty, Joe, Kumar, Bahavna, Lang, James, Lehman, Norman L., Mandt, Randy, Nguyen, Phuong, Pilarski, Robert, Rai, Karan, Schoenfield, Lynn, Senecal, Kelly, Wakely, Paul, Hansen, Paul, Lechan, Ronald, Powers, James, Tischler, Arthur, Grizzle, William E., Sexton, Katherine C., Kastl, Alison, Henderson, Joel, Porten, Sima, Waldmann, Jens, Fassnacht, Martin, Asa, Sylvia L., Schadendorf, Dirk, Couce, Marta, Graefen, Markus, Huland, Hartwig, Sauter, Guido, Schlomm, Thorsten, Simon, Ronald, Tennstedt, Pierre, Olabode, Oluwole, Nelson, Mark, Bathe, Oliver, Carroll, Peter R., Chan, June M., Disaia, Philip, Glenn, Pat, Kelley, Robin K., Landen, Charles N., Phillips, Joanna, Prados, Michael, Simko, Jeffry, Smith-McCune, Karen, VandenBerg, Scott, Roggin, Kevin, Fehrenbach, Ashley, Kendler, Ady, Sifri, Suzanne, Steele, Ruth, Jimeno, Antonio, Carey, Francis, Forgie, Ian, Mannelli, Massimo, Carney, Michael, Hernandez, Brenda, Campos, Benito, Herold-Mende, Christel, Jungk, Christin, Unterberg, Andreas, von Deimling, Andreas, Bossler, Aaron, Galbraith, Joseph, Jacobus, Laura, Knudson, Michael, Knutson, Tina, Ma, Deqin, Milhem, Mohammed, Sigmund, Rita, Godwin, Andrew K., Madan, Rashna, Rosenthal, Howard G., Adebamowo, Clement, Adebamowo, Sally N., Boussioutas, Alex, Beer, David, Giordano, Thomas, Mes-Masson, Anne-Marie, Saad, Fred, Bocklage, Therese, Landrum, Lisa, Mannel, Robert, Moore, Kathleen, Moxley, Katherine, Postier, Russel, Walker, Joan, Zuna, Rosemary, Feldman, Michael, Valdivieso, Federico, Dhir, Rajiv, Luketich, James, Pinero, Edna M. Mora, Quintero-Aguilo, Mario, Carlotti, Carlos Gilberto, Dos Santos, Jose Sebastião, Kemp, Rafael, Sankarankuty, Ajith, Tirapelli, Daniela, Catto, James, Agnew, Kathy, Swisher, Elizabeth, Creaney, Jenette, Robinson, Bruce, Shelley, Carl Simon, Godwin, Eryn M., Kendall, Sara, Shipman, Cassaundra, Bradford, Carol, Carey, Thomas, Haddad, Andrea, Moyer, Jeffey, Peterson, Lisa, Prince, Mark, Rozek, Laura, Wolf, Gregory, Bowman, Rayleen, Fong, Kwun M., Yang, Ian, Korst, Robert, Rathmell, W. Kimryn, Fantacone-Campbell, J. Leigh, Hooke, Jeffrey A., Kovatich, Albert J., Shriver, Craig D., DiPersio, John, Drake, Bettina, Govindan, Ramaswamy, Heath, Sharon, Ley, Timothy, Van Tine, Brian, Westervelt, Peter, Rubin, Mark A., Lee, Jung Il, Aredes, Natália D., Mariamidze, Armaz, Sanchez, Yolanda, and Greene, Casey S.
  • Cell Reports; April 2018, Vol. 23 Issue: 1 p172-180.e3
Abstract
Precision oncology uses genomic evidence to match patients with treatment but often fails to identify all patients who may respond. The transcriptome of these “hidden responders” may reveal responsive molecular states. We describe and evaluate a machine-learning approach to classify aberrant pathway activity in tumors, which may aid in hidden responder identification. The algorithm integrates RNA-seq, copy number, and mutations from 33 different cancer types across The Cancer Genome Atlas (TCGA) PanCanAtlas project to predict aberrant molecular states in tumors. Applied to the Ras pathway, the method detects Ras activation across cancer types and identifies phenocopying variants. The model, trained on human tumors, can predict response to MEK inhibitors in wild-type Ras cell lines. We also present data that suggest that multiple hits in the Ras pathway confer increased Ras activity. The transcriptome is underused in precision oncology and, combined with machine learning, can aid in the identification of hidden responders.

98. Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images [2018]

  • Saltz, Joel, Gupta, Rajarsi, Hou, Le, Kurc, Tahsin, Singh, Pankaj, Nguyen, Vu, Samaras, Dimitris, Shroyer, Kenneth R., Zhao, Tianhao, Batiste, Rebecca, Van Arnam, John, Caesar-Johnson, Samantha J., Demchok, John A., Felau, Ina, Kasapi, Melpomeni, Ferguson, Martin L., Hutter, Carolyn M., Sofia, Heidi J., Tarnuzzer, Roy, Wang, Zhining, Yang, Liming, Zenklusen, Jean C., Zhang, Jiashan (Julia), Chudamani, Sudha, Liu, Jia, Lolla, Laxmi, Naresh, Rashi, Pihl, Todd, Sun, Qiang, Wan, Yunhu, Wu, Ye, Cho, Juok, DeFreitas, Timothy, Frazer, Scott, Gehlenborg, Nils, Getz, Gad, Heiman, David I., Kim, Jaegil, Lawrence, Michael S., Lin, Pei, Meier, Sam, Noble, Michael S., Saksena, Gordon, Voet, Doug, Zhang, Hailei, Bernard, Brady, Chambwe, Nyasha, Dhankani, Varsha, Knijnenburg, Theo, Kramer, Roger, Leinonen, Kalle, Liu, Yuexin, Miller, Michael, Reynolds, Sheila, Shmulevich, Ilya, Thorsson, Vesteinn, Zhang, Wei, Akbani, Rehan, Broom, Bradley M., Hegde, Apurva M., Ju, Zhenlin, Kanchi, Rupa S., Korkut, Anil, Li, Jun, Liang, Han, Ling, Shiyun, Liu, Wenbin, Lu, Yiling, Mills, Gordon B., Ng, Kwok-Shing, Rao, Arvind, Ryan, Michael, Wang, Jing, Weinstein, John N., Zhang, Jiexin, Abeshouse, Adam, Armenia, Joshua, Chakravarty, Debyani, Chatila, Walid K., de Bruijn, Ino, Gao, Jianjiong, Gross, Benjamin E., Heins, Zachary J., Kundra, Ritika, La, Konnor, Ladanyi, Marc, Luna, Augustin, Nissan, Moriah G., Ochoa, Angelica, Phillips, Sarah M., Reznik, Ed, Sanchez-Vega, Francisco, Sander, Chris, Schultz, Nikolaus, Sheridan, Robert, Sumer, S. Onur, Sun, Yichao, Taylor, Barry S., Wang, Jioajiao, Zhang, Hongxin, Anur, Pavana, Peto, Myron, Spellman, Paul, Benz, Christopher, Stuart, Joshua M., Wong, Christopher K., Yau, Christina, Hayes, D. Neil, Parker, Joel S., Wilkerson, Matthew D., Ally, Adrian, Balasundaram, Miruna, Bowlby, Reanne, Brooks, Denise, Carlsen, Rebecca, Chuah, Eric, Dhalla, Noreen, Holt, Robert, Jones, Steven J.M., Kasaian, Katayoon, Lee, Darlene, Ma, Yussanne, Marra, Marco A., Mayo, Michael, Moore, Richard A., Mungall, Andrew J., Mungall, Karen, Robertson, A. Gordon, Sadeghi, Sara, Schein, Jacqueline E., Sipahimalani, Payal, Tam, Angela, Thiessen, Nina, Tse, Kane, Wong, Tina, Berger, Ashton C., Beroukhim, Rameen, Cherniack, Andrew D., Cibulskis, Carrie, Gabriel, Stacey B., Gao, Galen F., Ha, Gavin, Meyerson, Matthew, Schumacher, Steven E., Shih, Juliann, Kucherlapati, Melanie H., Kucherlapati, Raju S., Baylin, Stephen, Cope, Leslie, Danilova, Ludmila, Bootwalla, Moiz S., Lai, Phillip H., Maglinte, Dennis T., Van Den Berg, David J., Weisenberger, Daniel J., Auman, J. Todd, Balu, Saianand, Bodenheimer, Tom, Fan, Cheng, Hoadley, Katherine A., Hoyle, Alan P., Jefferys, Stuart R., Jones, Corbin D., Meng, Shaowu, Mieczkowski, Piotr A., Mose, Lisle E., Perou, Amy H., Perou, Charles M., Roach, Jeffrey, Shi, Yan, Simons, Janae V., Skelly, Tara, Soloway, Matthew G., Tan, Donghui, Veluvolu, Umadevi, Fan, Huihui, Hinoue, Toshinori, Laird, Peter W., Shen, Hui, Zhou, Wanding, Bellair, Michelle, Chang, Kyle, Covington, Kyle, Creighton, Chad J., Dinh, Huyen, Doddapaneni, HarshaVardhan, Donehower, Lawrence A., Drummond, Jennifer, Gibbs, Richard A., Glenn, Robert, Hale, Walker, Han, Yi, Hu, Jianhong, Korchina, Viktoriya, Lee, Sandra, Lewis, Lora, Li, Wei, Liu, Xiuping, Morgan, Margaret, Morton, Donna, Muzny, Donna, Santibanez, Jireh, Sheth, Margi, Shinbrot, Eve, Wang, Linghua, Wang, Min, Wheeler, David A., Xi, Liu, Zhao, Fengmei, Hess, Julian, Appelbaum, Elizabeth L., Bailey, Matthew, Cordes, Matthew G., Ding, Li, Fronick, Catrina C., Fulton, Lucinda A., Fulton, Robert S., Kandoth, Cyriac, Mardis, Elaine R., McLellan, Michael D., Miller, Christopher A., Schmidt, Heather K., Wilson, Richard K., Crain, Daniel, Curley, Erin, Gardner, Johanna, Lau, Kevin, Mallery, David, Morris, Scott, Paulauskis, Joseph, Penny, Robert, Shelton, Candace, Shelton, Troy, Sherman, Mark, Thompson, Eric, Yena, Peggy, Bowen, Jay, Gastier-Foster, Julie M., Gerken, Mark, Leraas, Kristen M., Lichtenberg, Tara M., Ramirez, Nilsa C., Wise, Lisa, Zmuda, Erik, Corcoran, Niall, Costello, Tony, Hovens, Christopher, Carvalho, Andre L., de Carvalho, Ana C., Fregnani, José H., Longatto-Filho, Adhemar, Reis, Rui M., Scapulatempo-Neto, Cristovam, Silveira, Henrique C.S., Vidal, Daniel O., Burnette, Andrew, Eschbacher, Jennifer, Hermes, Beth, Noss, Ardene, Singh, Rosy, Anderson, Matthew L., Castro, Patricia D., Ittmann, Michael, Huntsman, David, Kohl, Bernard, Le, Xuan, Thorp, Richard, Andry, Chris, Duffy, Elizabeth R., Lyadov, Vladimir, Paklina, Oxana, Setdikova, Galiya, Shabunin, Alexey, Tavobilov, Mikhail, McPherson, Christopher, Warnick, Ronald, Berkowitz, Ross, Cramer, Daniel, Feltmate, Colleen, Horowitz, Neil, Kibel, Adam, Muto, Michael, Raut, Chandrajit P., Malykh, Andrei, Barnholtz-Sloan, Jill S., Barrett, Wendi, Devine, Karen, Fulop, Jordonna, Ostrom, Quinn T., Shimmel, Kristen, Wolinsky, Yingli, Sloan, Andrew E., De Rose, Agostino, Giuliante, Felice, Goodman, Marc, Karlan, Beth Y., Hagedorn, Curt H., Eckman, John, Harr, Jodi, Myers, Jerome, Tucker, Kelinda, Zach, Leigh Anne, Deyarmin, Brenda, Hu, Hai, Kvecher, Leonid, Larson, Caroline, Mural, Richard J., Somiari, Stella, Vicha, Ales, Zelinka, Tomas, Bennett, Joseph, Iacocca, Mary, Rabeno, Brenda, Swanson, Patricia, Latour, Mathieu, Lacombe, Louis, Têtu, Bernard, Bergeron, Alain, McGraw, Mary, Staugaitis, Susan M., Chabot, John, Hibshoosh, Hanina, Sepulveda, Antonia, Su, Tao, Wang, Timothy, Potapova, Olga, Voronina, Olga, Desjardins, Laurence, Mariani, Odette, Roman-Roman, Sergio, Sastre, Xavier, Stern, Marc-Henri, Cheng, Feixiong, Signoretti, Sabina, Berchuck, Andrew, Bigner, Darell, Lipp, Eric, Marks, Jeffrey, McCall, Shannon, McLendon, Roger, Secord, Angeles, Sharp, Alexis, Behera, Madhusmita, Brat, Daniel J., Chen, Amy, Delman, Keith, Force, Seth, Khuri, Fadlo, Magliocca, Kelly, Maithel, Shishir, Olson, Jeffrey J., Owonikoko, Taofeek, Pickens, Alan, Ramalingam, Suresh, Shin, Dong M., Sica, Gabriel, Van Meir, Erwin G., Zhang, Hongzheng, Eijckenboom, Wil, Gillis, Ad, Korpershoek, Esther, Looijenga, Leendert, Oosterhuis, Wolter, Stoop, Hans, van Kessel, Kim E., Zwarthoff, Ellen C., Calatozzolo, Chiara, Cuppini, Lucia, Cuzzubbo, Stefania, DiMeco, Francesco, Finocchiaro, Gaetano, Mattei, Luca, Perin, Alessandro, Pollo, Bianca, Chen, Chu, Houck, John, Lohavanichbutr, Pawadee, Hartmann, Arndt, Stoehr, Christine, Stoehr, Robert, Taubert, Helge, Wach, Sven, Wullich, Bernd, Kycler, Witold, Murawa, Dawid, Wiznerowicz, Maciej, Chung, Ki, Edenfield, W. Jeffrey, Martin, Julie, Baudin, Eric, Bubley, Glenn, Bueno, Raphael, De Rienzo, Assunta, Richards, William G., Kalkanis, Steven, Mikkelsen, Tom, Noushmehr, Houtan, Scarpace, Lisa, Girard, Nicolas, Aymerich, Marta, Campo, Elias, Giné, Eva, Guillermo, Armando López, Van Bang, Nguyen, Hanh, Phan Thi, Phu, Bui Duc, Tang, Yufang, Colman, Howard, Evason, Kimberley, Dottino, Peter R., Martignetti, John A., Gabra, Hani, Juhl, Hartmut, Akeredolu, Teniola, Stepa, Serghei, Hoon, Dave, Ahn, Keunsoo, Kang, Koo Jeong, Beuschlein, Felix, Breggia, Anne, Birrer, Michael, Bell, Debra, Borad, Mitesh, Bryce, Alan H., Castle, Erik, Chandan, Vishal, Cheville, John, Copland, John A., Farnell, Michael, Flotte, Thomas, Giama, Nasra, Ho, Thai, Kendrick, Michael, Kocher, Jean-Pierre, Kopp, Karla, Moser, Catherine, Nagorney, David, O’Brien, Daniel, O’Neill, Brian Patrick, Patel, Tushar, Petersen, Gloria, Que, Florencia, Rivera, Michael, Roberts, Lewis, Smallridge, Robert, Smyrk, Thomas, Stanton, Melissa, Thompson, R. Houston, Torbenson, Michael, Yang, Ju Dong, Zhang, Lizhi, Brimo, Fadi, Ajani, Jaffer A., Gonzalez, Ana Maria Angulo, Behrens, Carmen, Bondaruk, Jolanta, Broaddus, Russell, Czerniak, Bogdan, Esmaeli, Bita, Fujimoto, Junya, Gershenwald, Jeffrey, Guo, Charles, Lazar, Alexander J., Logothetis, Christopher, Meric-Bernstam, Funda, Moran, Cesar, Ramondetta, Lois, Rice, David, Sood, Anil, Tamboli, Pheroze, Thompson, Timothy, Troncoso, Patricia, Tsao, Anne, Wistuba, Ignacio, Carter, Candace, Haydu, Lauren, Hersey, Peter, Jakrot, Valerie, Kakavand, Hojabr, Kefford, Richard, Lee, Kenneth, Long, Georgina, Mann, Graham, Quinn, Michael, Saw, Robyn, Scolyer, Richard, Shannon, Kerwin, Spillane, Andrew, Stretch, onathan, Synott, Maria, Thompson, John, Wilmott, James, Al-Ahmadie, Hikmat, Chan, Timothy A., Ghossein, Ronald, Gopalan, Anuradha, Levine, Douglas A., Reuter, Victor, Singer, Samuel, Singh, Bhuvanesh, Tien, Nguyen Viet, Broudy, Thomas, Mirsaidi, Cyrus, Nair, Praveen, Drwiega, Paul, Miller, Judy, Smith, Jennifer, Zaren, Howard, Park, Joong-Won, Hung, Nguyen Phi, Kebebew, Electron, Linehan, W. Marston, Metwalli, Adam R., Pacak, Karel, Pinto, Peter A., Schiffman, Mark, Schmidt, Laura S., Vocke, Cathy D., Wentzensen, Nicolas, Worrell, Robert, Yang, Hannah, Moncrieff, Marc, Goparaju, Chandra, Melamed, Jonathan, Pass, Harvey, Botnariuc, Natalia, Caraman, Irina, Cernat, Mircea, Chemencedji, Inga, Clipca, Adrian, Doruc, Serghei, Gorincioi, Ghenadie, Mura, Sergiu, Pirtac, Maria, Stancul, Irina, Tcaciuc, Diana, Albert, Monique, Alexopoulou, Iakovina, Arnaout, Angel, Bartlett, John, Engel, Jay, Gilbert, Sebastien, Parfitt, Jeremy, Sekhon, Harman, Thomas, George, Rassl, Doris M., Rintoul, Robert C., Bifulco, Carlo, Tamakawa, Raina, Urba, Walter, Hayward, Nicholas, Timmers, Henri, Antenucci, Anna, Facciolo, Francesco, Grazi, Gianluca, Marino, Mirella, Merola, Roberta, de Krijger, Ronald, Gimenez-Roqueplo, Anne-Paule, Piché, Alain, Chevalier, Simone, McKercher, Ginette, Birsoy, Kivanc, Barnett, Gene, Brewer, Cathy, Farver, Carol, Naska, Theresa, Pennell, Nathan A., Raymond, Daniel, Schilero, Cathy, Smolenski, Kathy, Williams, Felicia, Morrison, Carl, Borgia, Jeffrey A., Liptay, Michael J., Pool, Mark, Seder, Christopher W., Junker, Kerstin, Omberg, Larsson, Dinkin, Mikhail, Manikhas, George, Alvaro, Domenico, Bragazzi, Maria Consiglia, Cardinale, Vincenzo, Carpino, Guido, Gaudio, Eugenio, Chesla, David, Cottingham, Sandra, Dubina, Michael, Moiseenko, Fedor, Dhanasekaran, Renumathy, Becker, Karl-Friedrich, Janssen, Klaus-Peter, Slotta-Huspenina, Julia, Abdel-Rahman, Mohamed H., Aziz, Dina, Bell, Sue, Cebulla, Colleen M., Davis, Amy, Duell, Rebecca, Elder, J. Bradley, Hilty, Joe, Kumar, Bahavna, Lang, James, Lehman, Norman L., Mandt, Randy, Nguyen, Phuong, Pilarski, Robert, Rai, Karan, Schoenfield, Lynn, Senecal, Kelly, Wakely, Paul, Hansen, Paul, Lechan, Ronald, Powers, James, Tischler, Arthur, Grizzle, William E., Sexton, Katherine C., Kastl, Alison, Henderson, Joel, Porten, Sima, Waldmann, Jens, Fassnacht, Martin, Asa, Sylvia L., Schadendorf, Dirk, Couce, Marta, Graefen, Markus, Huland, Hartwig, Sauter, Guido, Schlomm, Thorsten, Simon, Ronald, Tennstedt, Pierre, Olabode, Oluwole, Nelson, Mark, Bathe, Oliver, Carroll, Peter R., Chan, June M., Disaia, Philip, Glenn, Pat, Kelley, Robin K., Landen, Charles N., Phillips, Joanna, Prados, Michael, Simko, Jeffry, Smith-McCune, Karen, VandenBerg, Scott, Roggin, Kevin, Fehrenbach, Ashley, Kendler, Ady, Sifri, Suzanne, Steele, Ruth, Jimeno, Antonio, Carey, Francis, Forgie, Ian, Mannelli, Massimo, Carney, Michael, Hernandez, Brenda, Campos, Benito, Herold-Mende, Christel, Jungk, Christin, Unterberg, Andreas, von Deimling, Andreas, Bossler, Aaron, Galbraith, Joseph, Jacobus, Laura, Knudson, Michael, Knutson, Tina, Ma, Deqin, Milhem, Mohammed, Sigmund, Rita, Godwin, Andrew K., Madan, Rashna, Rosenthal, Howard G., Adebamowo, Clement, Adebamowo, Sally N., Boussioutas, Alex, Beer, David, Giordano, Thomas, Mes-Masson, Anne-Marie, Saad, Fred, Bocklage, Therese, Landrum, Lisa, Mannel, Robert, Moore, Kathleen, Moxley, Katherine, Postier, Russel, Walker, Joan, Zuna, Rosemary, Feldman, Michael, Valdivieso, Federico, Dhir, Rajiv, Luketich, James, Pinero, Edna M. Mora, Quintero-Aguilo, Mario, Carlotti, Carlos Gilberto, Dos Santos, Jose Sebastião, Kemp, Rafael, Sankarankuty, Ajith, Tirapelli, Daniela, Catto, James, Agnew, Kathy, Swisher, Elizabeth, Creaney, Jenette, Robinson, Bruce, Shelley, Carl Simon, Godwin, Eryn M., Kendall, Sara, Shipman, Cassaundra, Bradford, Carol, Carey, Thomas, Haddad, Andrea, Moyer, Jeffey, Peterson, Lisa, Prince, Mark, Rozek, Laura, Wolf, Gregory, Bowman, Rayleen, Fong, Kwun M., Yang, Ian, Korst, Robert, Rathmell, W. Kimryn, Fantacone-Campbell, J. Leigh, Hooke, Jeffrey A., Kovatich, Albert J., Shriver, Craig D., DiPersio, John, Drake, Bettina, Govindan, Ramaswamy, Heath, Sharon, Ley, Timothy, Van Tine, Brian, Westervelt, Peter, Rubin, Mark A., Lee, Jung Il, Aredes, Natália D., Mariamidze, Armaz, Shmulevich, Ilya, Rao, Arvind U.K., Lazar, Alexander J., Sharma, Ashish, and Thorsson, Vésteinn
  • Cell Reports; April 2018, Vol. 23 Issue: 1 p181-193.e7
Abstract
Beyond sample curation and basic pathologic characterization, the digitized H&E-stained images of TCGA samples remain underutilized. To highlight this resource, we present mappings of tumor-infiltrating lymphocytes (TILs) based on H&E images from 13 TCGA tumor types. These TIL maps are derived through computational staining using a convolutional neural network trained to classify patches of images. Affinity propagation revealed local spatial structure in TIL patterns and correlation with overall survival. TIL map structural patterns were grouped using standard histopathological parameters. These patterns are enriched in particular T cell subpopulations derived from molecular measures. TIL densities and spatial structure were differentially enriched among tumor types, immune subtypes, and tumor molecular subtypes, implying that spatial infiltrate state could reflect particular tumor cell aberration states. Obtaining spatial lymphocytic patterns linked to the rich genomic characterization of TCGA samples demonstrates one use for the TCGA image archives with insights into the tumor-immune microenvironment.

99. Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas [2018]

  • Campbell, Joshua D., Yau, Christina, Bowlby, Reanne, Liu, Yuexin, Brennan, Kevin, Fan, Huihui, Taylor, Alison M., Wang, Chen, Walter, Vonn, Akbani, Rehan, Byers, Lauren Averett, Creighton, Chad J., Coarfa, Cristian, Shih, Juliann, Cherniack, Andrew D., Gevaert, Olivier, Prunello, Marcos, Shen, Hui, Anur, Pavana, Chen, Jianhong, Cheng, Hui, Hayes, D. Neil, Bullman, Susan, Pedamallu, Chandra Sekhar, Ojesina, Akinyemi I., Sadeghi, Sara, Mungall, Karen L., Robertson, A. Gordon, Benz, Christopher, Schultz, Andre, Kanchi, Rupa S., Gay, Carl M., Hegde, Apurva, Diao, Lixia, Wang, Jing, Ma, Wencai, Sumazin, Pavel, Chiu, Hua-Sheng, Chen, Ting-Wen, Gunaratne, Preethi, Donehower, Larry, Rader, Janet S., Zuna, Rosemary, Al-Ahmadie, Hikmat, Lazar, Alexander J., Flores, Elsa R., Tsai, Kenneth Y., Zhou, Jane H., Rustgi, Anil K., Drill, Esther, Shen, Ronglei, Wong, Christopher K., Caesar-Johnson, Samantha J., Demchok, John A., Felau, Ina, Kasapi, Melpomeni, Ferguson, Martin L., Hutter, Carolyn M., Sofia, Heidi J., Tarnuzzer, Roy, Wang, Zhining, Yang, Liming, Zenklusen, Jean C., Zhang, Jiashan (Julia), Chudamani, Sudha, Liu, Jia, Lolla, Laxmi, Naresh, Rashi, Pihl, Todd, Sun, Qiang, Wan, Yunhu, Wu, Ye, Cho, Juok, DeFreitas, Timothy, Frazer, Scott, Gehlenborg, Nils, Getz, Gad, Heiman, David I., Kim, Jaegil, Lawrence, Michael S., Lin, Pei, Meier, Sam, Noble, Michael S., Saksena, Gordon, Voet, Doug, Zhang, Hailei, Bernard, Brady, Chambwe, Nyasha, Dhankani, Varsha, Knijnenburg, Theo, Kramer, Roger, Leinonen, Kalle, Liu, Yuexin, Miller, Michael, Reynolds, Sheila, Shmulevich, Ilya, Thorsson, Vesteinn, Zhang, Wei, Akbani, Rehan, Broom, Bradley M., Hegde, Apurva M., Ju, Zhenlin, Kanchi, Rupa S., Korkut, Anil, Li, Jun, Liang, Han, Ling, Shiyun, Liu, Wenbin, Lu, Yiling, Mills, Gordon B., Ng, Kwok-Shing, Rao, Arvind, Ryan, Michael, Wang, Jing, Weinstein, John N., Zhang, Jiexin, Abeshouse, Adam, Armenia, Joshua, Chakravarty, Debyani, Chatila, Walid K., de Bruijn, Ino, Gao, Jianjiong, Gross, Benjamin E., Heins, Zachary J., Kundra, Ritika, La, Konnor, Ladanyi, Marc, Luna, Augustin, Nissan, Moriah G., Ochoa, Angelica, Phillips, Sarah M., Reznik, Ed, Sanchez-Vega, Francisco, Sander, Chris, Schultz, Nikolaus, Sheridan, Robert, Sumer, S. Onur, Sun, Yichao, Taylor, Barry S., Wang, Jioajiao, Zhang, Hongxin, Anur, Pavana, Peto, Myron, Spellman, Paul, Benz, Christopher, Stuart, Joshua M., Wong, Christopher K., Yau, Christina, Hayes, D. Neil, Parker, Joel S., Wilkerson, Matthew D., Ally, Adrian, Balasundaram, Miruna, Bowlby, Reanne, Brooks, Denise, Carlsen, Rebecca, Chuah, Eric, Dhalla, Noreen, Holt, Robert, Jones, Steven J.M., Kasaian, Katayoon, Lee, Darlene, Ma, Yussanne, Marra, Marco A., Mayo, Michael, Moore, Richard A., Mungall, Andrew J., Mungall, Karen, Robertson, A. Gordon, Sadeghi, Sara, Schein, Jacqueline E., Sipahimalani, Payal, Tam, Angela, Thiessen, Nina, Tse, Kane, Wong, Tina, Berger, Ashton C., Beroukhim, Rameen, Cherniack, Andrew D., Cibulskis, Carrie, Gabriel, Stacey B., Gao, Galen F., Ha, Gavin, Meyerson, Matthew, Schumacher, Steven E., Shih, Juliann, Kucherlapati, Melanie H., Kucherlapati, Raju S., Baylin, Stephen, Cope, Leslie, Danilova, Ludmila, Bootwalla, Moiz S., Lai, Phillip H., Maglinte, Dennis T., Van Den Berg, David J., Weisenberger, Daniel J., Auman, J. Todd, Balu, Saianand, Bodenheimer, Tom, Fan, Cheng, Hoadley, Katherine A., Hoyle, Alan P., Jefferys, Stuart R., Jones, Corbin D., Meng, Shaowu, Mieczkowski, Piotr A., Mose, Lisle E., Perou, Amy H., Perou, Charles M., Roach, Jeffrey, Shi, Yan, Simons, Janae V., Skelly, Tara, Soloway, Matthew G., Tan, Donghui, Veluvolu, Umadevi, Fan, Huihui, Hinoue, Toshinori, Laird, Peter W., Shen, Hui, Zhou, Wanding, Bellair, Michelle, Chang, Kyle, Covington, Kyle, Creighton, Chad J., Dinh, Huyen, Doddapaneni, HarshaVardhan, Donehower, Lawrence A., Drummond, Jennifer, Gibbs, Richard A., Glenn, Robert, Hale, Walker, Han, Yi, Hu, Jianhong, Korchina, Viktoriya, Lee, Sandra, Lewis, Lora, Li, Wei, Liu, Xiuping, Morgan, Margaret, Morton, Donna, Muzny, Donna, Santibanez, Jireh, Sheth, Margi, Shinbrot, Eve, Wang, Linghua, Wang, Min, Wheeler, David A., Xi, Liu, Zhao, Fengmei, Hess, Julian, Appelbaum, Elizabeth L., Bailey, Matthew, Cordes, Matthew G., Ding, Li, Fronick, Catrina C., Fulton, Lucinda A., Fulton, Robert S., Kandoth, Cyriac, Mardis, Elaine R., McLellan, Michael D., Miller, Christopher A., Schmidt, Heather K., Wilson, Richard K., Crain, Daniel, Curley, Erin, Gardner, Johanna, Lau, Kevin, Mallery, David, Morris, Scott, Paulauskis, Joseph, Penny, Robert, Shelton, Candace, Shelton, Troy, Sherman, Mark, Thompson, Eric, Yena, Peggy, Bowen, Jay, Gastier-Foster, Julie M., Gerken, Mark, Leraas, Kristen M., Lichtenberg, Tara M., Ramirez, Nilsa C., Wise, Lisa, Zmuda, Erik, Corcoran, Niall, Costello, Tony, Hovens, Christopher, Carvalho, Andre L., de Carvalho, Ana C., Fregnani, José H., Longatto-Filho, Adhemar, Reis, Rui M., Scapulatempo-Neto, Cristovam, Silveira, Henrique C.S., Vidal, Daniel O., Burnette, Andrew, Eschbacher, Jennifer, Hermes, Beth, Noss, Ardene, Singh, Rosy, Anderson, Matthew L., Castro, Patricia D., Ittmann, Michael, Huntsman, David, Kohl, Bernard, Le, Xuan, Thorp, Richard, Andry, Chris, Duffy, Elizabeth R., Lyadov, Vladimir, Paklina, Oxana, Setdikova, Galiya, Shabunin, Alexey, Tavobilov, Mikhail, McPherson, Christopher, Warnick, Ronald, Berkowitz, Ross, Cramer, Daniel, Feltmate, Colleen, Horowitz, Neil, Kibel, Adam, Muto, Michael, Raut, Chandrajit P., Malykh, Andrei, Barnholtz-Sloan, Jill S., Barrett, Wendi, Devine, Karen, Fulop, Jordonna, Ostrom, Quinn T., Shimmel, Kristen, Wolinsky, Yingli, Sloan, Andrew E., De Rose, Agostino, Giuliante, Felice, Goodman, Marc, Karlan, Beth Y., Hagedorn, Curt H., Eckman, John, Harr, Jodi, Myers, Jerome, Tucker, Kelinda, Zach, Leigh Anne, Deyarmin, Brenda, Hu, Hai, Kvecher, Leonid, Larson, Caroline, Mural, Richard J., Somiari, Stella, Vicha, Ales, Zelinka, Tomas, Bennett, Joseph, Iacocca, Mary, Rabeno, Brenda, Swanson, Patricia, Latour, Mathieu, Lacombe, Louis, Têtu, Bernard, Bergeron, Alain, McGraw, Mary, Staugaitis, Susan M., Chabot, John, Hibshoosh, Hanina, Sepulveda, Antonia, Su, Tao, Wang, Timothy, Potapova, Olga, Voronina, Olga, Desjardins, Laurence, Mariani, Odette, Roman-Roman, Sergio, Sastre, Xavier, Stern, Marc-Henri, Cheng, Feixiong, Signoretti, Sabina, Berchuck, Andrew, Bigner, Darell, Lipp, Eric, Marks, Jeffrey, McCall, Shannon, McLendon, Roger, Secord, Angeles, Sharp, Alexis, Behera, Madhusmita, Brat, Daniel J., Chen, Amy, Delman, Keith, Force, Seth, Khuri, Fadlo, Magliocca, Kelly, Maithel, Shishir, Olson, Jeffrey J., Owonikoko, Taofeek, Pickens, Alan, Ramalingam, Suresh, Shin, Dong M., Sica, Gabriel, Van Meir, Erwin G., Zhang, Hongzheng, Eijckenboom, Wil, Gillis, Ad, Korpershoek, Esther, Looijenga, Leendert, Oosterhuis, Wolter, Stoop, Hans, van Kessel, Kim E., Zwarthoff, Ellen C., Calatozzolo, Chiara, Cuppini, Lucia, Cuzzubbo, Stefania, DiMeco, Francesco, Finocchiaro, Gaetano, Mattei, Luca, Perin, Alessandro, Pollo, Bianca, Chen, Chu, Houck, John, Lohavanichbutr, Pawadee, Hartmann, Arndt, Stoehr, Christine, Stoehr, Robert, Taubert, Helge, Wach, Sven, Wullich, Bernd, Kycler, Witold, Murawa, Dawid, Wiznerowicz, Maciej, Chung, Ki, Edenfield, W. Jeffrey, Martin, Julie, Baudin, Eric, Bubley, Glenn, Bueno, Raphael, De Rienzo, Assunta, Richards, William G., Kalkanis, Steven, Mikkelsen, Tom, Noushmehr, Houtan, Scarpace, Lisa, Girard, Nicolas, Aymerich, Marta, Campo, Elias, Giné, Eva, Guillermo, Armando López, Van Bang, Nguyen, Hanh, Phan Thi, Phu, Bui Duc, Tang, Yufang, Colman, Howard, Evason, Kimberley, Dottino, Peter R., Martignetti, John A., Gabra, Hani, Juhl, Hartmut, Akeredolu, Teniola, Stepa, Serghei, Hoon, Dave, Ahn, Keunsoo, Kang, Koo Jeong, Beuschlein, Felix, Breggia, Anne, Birrer, Michael, Bell, Debra, Borad, Mitesh, Bryce, Alan H., Castle, Erik, Chandan, Vishal, Cheville, John, Copland, John A., Farnell, Michael, Flotte, Thomas, Giama, Nasra, Ho, Thai, Kendrick, Michael, Kocher, Jean-Pierre, Kopp, Karla, Moser, Catherine, Nagorney, David, O’Brien, Daniel, O’Neill, Brian Patrick, Patel, Tushar, Petersen, Gloria, Que, Florencia, Rivera, Michael, Roberts, Lewis, Smallridge, Robert, Smyrk, Thomas, Stanton, Melissa, Thompson, R. Houston, Torbenson, Michael, Yang, Ju Dong, Zhang, Lizhi, Brimo, Fadi, Ajani, Jaffer A., Gonzalez, Ana Maria Angulo, Behrens, Carmen, Bondaruk, Jolanta, Broaddus, Russell, Czerniak, Bogdan, Esmaeli, Bita, Fujimoto, Junya, Gershenwald, Jeffrey, Guo, Charles, Lazar, Alexander J., Logothetis, Christopher, Meric-Bernstam, Funda, Moran, Cesar, Ramondetta, Lois, Rice, David, Sood, Anil, Tamboli, Pheroze, Thompson, Timothy, Troncoso, Patricia, Tsao, Anne, Wistuba, Ignacio, Carter, Candace, Haydu, Lauren, Hersey, Peter, Jakrot, Valerie, Kakavand, Hojabr, Kefford, Richard, Lee, Kenneth, Long, Georgina, Mann, Graham, Quinn, Michael, Saw, Robyn, Scolyer, Richard, Shannon, Kerwin, Spillane, Andrew, Stretch, onathan, Synott, Maria, Thompson, John, Wilmott, James, Al-Ahmadie, Hikmat, Chan, Timothy A., Ghossein, Ronald, Gopalan, Anuradha, Levine, Douglas A., Reuter, Victor, Singer, Samuel, Singh, Bhuvanesh, Tien, Nguyen Viet, Broudy, Thomas, Mirsaidi, Cyrus, Nair, Praveen, Drwiega, Paul, Miller, Judy, Smith, Jennifer, Zaren, Howard, Park, Joong-Won, Hung, Nguyen Phi, Kebebew, Electron, Linehan, W. Marston, Metwalli, Adam R., Pacak, Karel, Pinto, Peter A., Schiffman, Mark, Schmidt, Laura S., Vocke, Cathy D., Wentzensen, Nicolas, Worrell, Robert, Yang, Hannah, Moncrieff, Marc, Goparaju, Chandra, Melamed, Jonathan, Pass, Harvey, Botnariuc, Natalia, Caraman, Irina, Cernat, Mircea, Chemencedji, Inga, Clipca, Adrian, Doruc, Serghei, Gorincioi, Ghenadie, Mura, Sergiu, Pirtac, Maria, Stancul, Irina, Tcaciuc, Diana, Albert, Monique, Alexopoulou, Iakovina, Arnaout, Angel, Bartlett, John, Engel, Jay, Gilbert, Sebastien, Parfitt, Jeremy, Sekhon, Harman, Thomas, George, Rassl, Doris M., Rintoul, Robert C., Bifulco, Carlo, Tamakawa, Raina, Urba, Walter, Hayward, Nicholas, Timmers, Henri, Antenucci, Anna, Facciolo, Francesco, Grazi, Gianluca, Marino, Mirella, Merola, Roberta, de Krijger, Ronald, Gimenez-Roqueplo, Anne-Paule, Piché, Alain, Chevalier, Simone, McKercher, Ginette, Birsoy, Kivanc, Barnett, Gene, Brewer, Cathy, Farver, Carol, Naska, Theresa, Pennell, Nathan A., Raymond, Daniel, Schilero, Cathy, Smolenski, Kathy, Williams, Felicia, Morrison, Carl, Borgia, Jeffrey A., Liptay, Michael J., Pool, Mark, Seder, Christopher W., Junker, Kerstin, Omberg, Larsson, Dinkin, Mikhail, Manikhas, George, Alvaro, Domenico, Bragazzi, Maria Consiglia, Cardinale, Vincenzo, Carpino, Guido, Gaudio, Eugenio, Chesla, David, Cottingham, Sandra, Dubina, Michael, Moiseenko, Fedor, Dhanasekaran, Renumathy, Becker, Karl-Friedrich, Janssen, Klaus-Peter, Slotta-Huspenina, Julia, Abdel-Rahman, Mohamed H., Aziz, Dina, Bell, Sue, Cebulla, Colleen M., Davis, Amy, Duell, Rebecca, Elder, J. Bradley, Hilty, Joe, Kumar, Bahavna, Lang, James, Lehman, Norman L., Mandt, Randy, Nguyen, Phuong, Pilarski, Robert, Rai, Karan, Schoenfield, Lynn, Senecal, Kelly, Wakely, Paul, Hansen, Paul, Lechan, Ronald, Powers, James, Tischler, Arthur, Grizzle, William E., Sexton, Katherine C., Kastl, Alison, Henderson, Joel, Porten, Sima, Waldmann, Jens, Fassnacht, Martin, Asa, Sylvia L., Schadendorf, Dirk, Couce, Marta, Graefen, Markus, Huland, Hartwig, Sauter, Guido, Schlomm, Thorsten, Simon, Ronald, Tennstedt, Pierre, Olabode, Oluwole, Nelson, Mark, Bathe, Oliver, Carroll, Peter R., Chan, June M., Disaia, Philip, Glenn, Pat, Kelley, Robin K., Landen, Charles N., Phillips, Joanna, Prados, Michael, Simko, Jeffry, Smith-McCune, Karen, VandenBerg, Scott, Roggin, Kevin, Fehrenbach, Ashley, Kendler, Ady, Sifri, Suzanne, Steele, Ruth, Jimeno, Antonio, Carey, Francis, Forgie, Ian, Mannelli, Massimo, Carney, Michael, Hernandez, Brenda, Campos, Benito, Herold-Mende, Christel, Jungk, Christin, Unterberg, Andreas, von Deimling, Andreas, Bossler, Aaron, Galbraith, Joseph, Jacobus, Laura, Knudson, Michael, Knutson, Tina, Ma, Deqin, Milhem, Mohammed, Sigmund, Rita, Godwin, Andrew K., Madan, Rashna, Rosenthal, Howard G., Adebamowo, Clement, Adebamowo, Sally N., Boussioutas, Alex, Beer, David, Giordano, Thomas, Mes-Masson, Anne-Marie, Saad, Fred, Bocklage, Therese, Landrum, Lisa, Mannel, Robert, Moore, Kathleen, Moxley, Katherine, Postier, Russel, Walker, Joan, Zuna, Rosemary, Feldman, Michael, Valdivieso, Federico, Dhir, Rajiv, Luketich, James, Pinero, Edna M. Mora, Quintero-Aguilo, Mario, Carlotti, Carlos Gilberto, Dos Santos, Jose Sebastião, Kemp, Rafael, Sankarankuty, Ajith, Tirapelli, Daniela, Catto, James, Agnew, Kathy, Swisher, Elizabeth, Creaney, Jenette, Robinson, Bruce, Shelley, Carl Simon, Godwin, Eryn M., Kendall, Sara, Shipman, Cassaundra, Bradford, Carol, Carey, Thomas, Haddad, Andrea, Moyer, Jeffey, Peterson, Lisa, Prince, Mark, Rozek, Laura, Wolf, Gregory, Bowman, Rayleen, Fong, Kwun M., Yang, Ian, Korst, Robert, Rathmell, W. Kimryn, Fantacone-Campbell, J. Leigh, Hooke, Jeffrey A., Kovatich, Albert J., Shriver, Craig D., DiPersio, John, Drake, Bettina, Govindan, Ramaswamy, Heath, Sharon, Ley, Timothy, Van Tine, Brian, Westervelt, Peter, Rubin, Mark A., Lee, Jung Il, Aredes, Natália D., Mariamidze, Armaz, Stuart, Joshua M., Laird, Peter W., Hoadley, Katherine A., Weinstein, John N., Peto, Myron, Pickering, Curtis R., Chen, Zhong, and Van Waes, Carter
  • Cell Reports; April 2018, Vol. 23 Issue: 1 p194-212.e6
Abstract
This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing molecular features of squamous cell carcinomas (SCCs) from five sites associated with smoking and/or human papillomavirus (HPV). SCCs harbor 3q, 5p, and other recurrent chromosomal copy-number alterations (CNAs), DNA mutations, and/or aberrant methylation of genes and microRNAs, which are correlated with the expression of multi-gene programs linked to squamous cell stemness, epithelial-to-mesenchymal differentiation, growth, genomic integrity, oxidative damage, death, and inflammation. Low-CNA SCCs tended to be HPV(+) and display hypermethylation with repression of TET1demethylase and FANCF, previously linked to predisposition to SCC, or harbor mutations affecting CASP8, RAS-MAPK pathways, chromatin modifiers, and immunoregulatory molecules. We uncovered hypomethylation of the alternative promoter that drives expression of the ΔNp63oncogene and embedded miR944. Co-expression of immune checkpoint, T-regulatory, and Myeloid suppressor cells signatures may explain reduced efficacy of immune therapy. These findings support possibilities for molecular classification and therapeutic approaches.

100. Integrated Genomic Analysis of the Ubiquitin Pathway across Cancer Types [2018]

  • Ge, Zhongqi, Leighton, Jake S., Wang, Yumeng, Peng, Xinxin, Chen, Zhongyuan, Chen, Hu, Sun, Yutong, Yao, Fan, Li, Jun, Zhang, Huiwen, Liu, Jianfang, Shriver, Craig D., Hu, Hai, Caesar-Johnson, Samantha J., Demchok, John A., Felau, Ina, Kasapi, Melpomeni, Ferguson, Martin L., Hutter, Carolyn M., Sofia, Heidi J., Tarnuzzer, Roy, Wang, Zhining, Yang, Liming, Zenklusen, Jean C., Zhang, Jiashan (Julia), Chudamani, Sudha, Liu, Jia, Lolla, Laxmi, Naresh, Rashi, Pihl, Todd, Sun, Qiang, Wan, Yunhu, Wu, Ye, Cho, Juok, DeFreitas, Timothy, Frazer, Scott, Gehlenborg, Nils, Getz, Gad, Heiman, David I., Kim, Jaegil, Lawrence, Michael S., Lin, Pei, Meier, Sam, Noble, Michael S., Saksena, Gordon, Voet, Doug, Zhang, Hailei, Bernard, Brady, Chambwe, Nyasha, Dhankani, Varsha, Knijnenburg, Theo, Kramer, Roger, Leinonen, Kalle, Liu, Yuexin, Miller, Michael, Reynolds, Sheila, Shmulevich, Ilya, Thorsson, Vesteinn, Zhang, Wei, Akbani, Rehan, Broom, Bradley M., Hegde, Apurva M., Ju, Zhenlin, Kanchi, Rupa S., Korkut, Anil, Li, Jun, Liang, Han, Ling, Shiyun, Liu, Wenbin, Lu, Yiling, Mills, Gordon B., Ng, Kwok-Shing, Rao, Arvind, Ryan, Michael, Wang, Jing, Weinstein, John N., Zhang, Jiexin, Abeshouse, Adam, Armenia, Joshua, Chakravarty, Debyani, Chatila, Walid K., de Bruijn, Ino, Gao, Jianjiong, Gross, Benjamin E., Heins, Zachary J., Kundra, Ritika, La, Konnor, Ladanyi, Marc, Luna, Augustin, Nissan, Moriah G., Ochoa, Angelica, Phillips, Sarah M., Reznik, Ed, Sanchez-Vega, Francisco, Sander, Chris, Schultz, Nikolaus, Sheridan, Robert, Sumer, S. Onur, Sun, Yichao, Taylor, Barry S., Wang, Jioajiao, Zhang, Hongxin, Anur, Pavana, Peto, Myron, Spellman, Paul, Benz, Christopher, Stuart, Joshua M., Wong, Christopher K., Yau, Christina, Hayes, D. Neil, Parker, Joel S., Wilkerson, Matthew D., Ally, Adrian, Balasundaram, Miruna, Bowlby, Reanne, Brooks, Denise, Carlsen, Rebecca, Chuah, Eric, Dhalla, Noreen, Holt, Robert, Jones, Steven J.M., Kasaian, Katayoon, Lee, Darlene, Ma, Yussanne, Marra, Marco A., Mayo, Michael, Moore, Richard A., Mungall, Andrew J., Mungall, Karen, Robertson, A. Gordon, Sadeghi, Sara, Schein, Jacqueline E., Sipahimalani, Payal, Tam, Angela, Thiessen, Nina, Tse, Kane, Wong, Tina, Berger, Ashton C., Beroukhim, Rameen, Cherniack, Andrew D., Cibulskis, Carrie, Gabriel, Stacey B., Gao, Galen F., Ha, Gavin, Meyerson, Matthew, Schumacher, Steven E., Shih, Juliann, Kucherlapati, Melanie H., Kucherlapati, Raju S., Baylin, Stephen, Cope, Leslie, Danilova, Ludmila, Bootwalla, Moiz S., Lai, Phillip H., Maglinte, Dennis T., Van Den Berg, David J., Weisenberger, Daniel J., Auman, J. Todd, Balu, Saianand, Bodenheimer, Tom, Fan, Cheng, Hoadley, Katherine A., Hoyle, Alan P., Jefferys, Stuart R., Jones, Corbin D., Meng, Shaowu, Mieczkowski, Piotr A., Mose, Lisle E., Perou, Amy H., Perou, Charles M., Roach, Jeffrey, Shi, Yan, Simons, Janae V., Skelly, Tara, Soloway, Matthew G., Tan, Donghui, Veluvolu, Umadevi, Fan, Huihui, Hinoue, Toshinori, Laird, Peter W., Shen, Hui, Zhou, Wanding, Bellair, Michelle, Chang, Kyle, Covington, Kyle, Creighton, Chad J., Dinh, Huyen, Doddapaneni, HarshaVardhan, Donehower, Lawrence A., Drummond, Jennifer, Gibbs, Richard A., Glenn, Robert, Hale, Walker, Han, Yi, Hu, Jianhong, Korchina, Viktoriya, Lee, Sandra, Lewis, Lora, Li, Wei, Liu, Xiuping, Morgan, Margaret, Morton, Donna, Muzny, Donna, Santibanez, Jireh, Sheth, Margi, Shinbrot, Eve, Wang, Linghua, Wang, Min, Wheeler, David A., Xi, Liu, Zhao, Fengmei, Hess, Julian, Appelbaum, Elizabeth L., Bailey, Matthew, Cordes, Matthew G., Ding, Li, Fronick, Catrina C., Fulton, Lucinda A., Fulton, Robert S., Kandoth, Cyriac, Mardis, Elaine R., McLellan, Michael D., Miller, Christopher A., Schmidt, Heather K., Wilson, Richard K., Crain, Daniel, Curley, Erin, Gardner, Johanna, Lau, Kevin, Mallery, David, Morris, Scott, Paulauskis, Joseph, Penny, Robert, Shelton, Candace, Shelton, Troy, Sherman, Mark, Thompson, Eric, Yena, Peggy, Bowen, Jay, Gastier-Foster, Julie M., Gerken, Mark, Leraas, Kristen M., Lichtenberg, Tara M., Ramirez, Nilsa C., Wise, Lisa, Zmuda, Erik, Corcoran, Niall, Costello, Tony, Hovens, Christopher, Carvalho, Andre L., de Carvalho, Ana C., Fregnani, José H., Longatto-Filho, Adhemar, Reis, Rui M., Scapulatempo-Neto, Cristovam, Silveira, Henrique C.S., Vidal, Daniel O., Burnette, Andrew, Eschbacher, Jennifer, Hermes, Beth, Noss, Ardene, Singh, Rosy, Anderson, Matthew L., Castro, Patricia D., Ittmann, Michael, Huntsman, David, Kohl, Bernard, Le, Xuan, Thorp, Richard, Andry, Chris, Duffy, Elizabeth R., Lyadov, Vladimir, Paklina, Oxana, Setdikova, Galiya, Shabunin, Alexey, Tavobilov, Mikhail, McPherson, Christopher, Warnick, Ronald, Berkowitz, Ross, Cramer, Daniel, Feltmate, Colleen, Horowitz, Neil, Kibel, Adam, Muto, Michael, Raut, Chandrajit P., Malykh, Andrei, Barnholtz-Sloan, Jill S., Barrett, Wendi, Devine, Karen, Fulop, Jordonna, Ostrom, Quinn T., Shimmel, Kristen, Wolinsky, Yingli, Sloan, Andrew E., De Rose, Agostino, Giuliante, Felice, Goodman, Marc, Karlan, Beth Y., Hagedorn, Curt H., Eckman, John, Harr, Jodi, Myers, Jerome, Tucker, Kelinda, Zach, Leigh Anne, Deyarmin, Brenda, Hu, Hai, Kvecher, Leonid, Larson, Caroline, Mural, Richard J., Somiari, Stella, Vicha, Ales, Zelinka, Tomas, Bennett, Joseph, Iacocca, Mary, Rabeno, Brenda, Swanson, Patricia, Latour, Mathieu, Lacombe, Louis, Têtu, Bernard, Bergeron, Alain, McGraw, Mary, Staugaitis, Susan M., Chabot, John, Hibshoosh, Hanina, Sepulveda, Antonia, Su, Tao, Wang, Timothy, Potapova, Olga, Voronina, Olga, Desjardins, Laurence, Mariani, Odette, Roman-Roman, Sergio, Sastre, Xavier, Stern, Marc-Henri, Cheng, Feixiong, Signoretti, Sabina, Berchuck, Andrew, Bigner, Darell, Lipp, Eric, Marks, Jeffrey, McCall, Shannon, McLendon, Roger, Secord, Angeles, Sharp, Alexis, Behera, Madhusmita, Brat, Daniel J., Chen, Amy, Delman, Keith, Force, Seth, Khuri, Fadlo, Magliocca, Kelly, Maithel, Shishir, Olson, Jeffrey J., Owonikoko, Taofeek, Pickens, Alan, Ramalingam, Suresh, Shin, Dong M., Sica, Gabriel, Van Meir, Erwin G., Zhang, Hongzheng, Eijckenboom, Wil, Gillis, Ad, Korpershoek, Esther, Looijenga, Leendert, Oosterhuis, Wolter, Stoop, Hans, van Kessel, Kim E., Zwarthoff, Ellen C., Calatozzolo, Chiara, Cuppini, Lucia, Cuzzubbo, Stefania, DiMeco, Francesco, Finocchiaro, Gaetano, Mattei, Luca, Perin, Alessandro, Pollo, Bianca, Chen, Chu, Houck, John, Lohavanichbutr, Pawadee, Hartmann, Arndt, Stoehr, Christine, Stoehr, Robert, Taubert, Helge, Wach, Sven, Wullich, Bernd, Kycler, Witold, Murawa, Dawid, Wiznerowicz, Maciej, Chung, Ki, Edenfield, W. Jeffrey, Martin, Julie, Baudin, Eric, Bubley, Glenn, Bueno, Raphael, De Rienzo, Assunta, Richards, William G., Kalkanis, Steven, Mikkelsen, Tom, Noushmehr, Houtan, Scarpace, Lisa, Girard, Nicolas, Aymerich, Marta, Campo, Elias, Giné, Eva, Guillermo, Armando López, Van Bang, Nguyen, Hanh, Phan Thi, Phu, Bui Duc, Tang, Yufang, Colman, Howard, Evason, Kimberley, Dottino, Peter R., Martignetti, John A., Gabra, Hani, Juhl, Hartmut, Akeredolu, Teniola, Stepa, Serghei, Hoon, Dave, Ahn, Keunsoo, Kang, Koo Jeong, Beuschlein, Felix, Breggia, Anne, Birrer, Michael, Bell, Debra, Borad, Mitesh, Bryce, Alan H., Castle, Erik, Chandan, Vishal, Cheville, John, Copland, John A., Farnell, Michael, Flotte, Thomas, Giama, Nasra, Ho, Thai, Kendrick, Michael, Kocher, Jean-Pierre, Kopp, Karla, Moser, Catherine, Nagorney, David, O’Brien, Daniel, O’Neill, Brian Patrick, Patel, Tushar, Petersen, Gloria, Que, Florencia, Rivera, Michael, Roberts, Lewis, Smallridge, Robert, Smyrk, Thomas, Stanton, Melissa, Thompson, R. Houston, Torbenson, Michael, Yang, Ju Dong, Zhang, Lizhi, Brimo, Fadi, Ajani, Jaffer A., Gonzalez, Ana Maria Angulo, Behrens, Carmen, Bondaruk, Jolanta, Broaddus, Russell, Czerniak, Bogdan, Esmaeli, Bita, Fujimoto, Junya, Gershenwald, Jeffrey, Guo, Charles, Lazar, Alexander J., Logothetis, Christopher, Meric-Bernstam, Funda, Moran, Cesar, Ramondetta, Lois, Rice, David, Sood, Anil, Tamboli, Pheroze, Thompson, Timothy, Troncoso, Patricia, Tsao, Anne, Wistuba, Ignacio, Carter, Candace, Haydu, Lauren, Hersey, Peter, Jakrot, Valerie, Kakavand, Hojabr, Kefford, Richard, Lee, Kenneth, Long, Georgina, Mann, Graham, Quinn, Michael, Saw, Robyn, Scolyer, Richard, Shannon, Kerwin, Spillane, Andrew, Stretch, Jonathan, Synott, Maria, Thompson, John, Wilmott, James, Al-Ahmadie, Hikmat, Chan, Timothy A., Ghossein, Ronald, Gopalan, Anuradha, Levine, Douglas A., Reuter, Victor, Singer, Samuel, Singh, Bhuvanesh, Tien, Nguyen Viet, Broudy, Thomas, Mirsaidi, Cyrus, Nair, Praveen, Drwiega, Paul, Miller, Judy, Smith, Jennifer, Zaren, Howard, Park, Joong-Won, Hung, Nguyen Phi, Kebebew, Electron, Linehan, W. Marston, Metwalli, Adam R., Pacak, Karel, Pinto, Peter A., Schiffman, Mark, Schmidt, Laura S., Vocke, Cathy D., Wentzensen, Nicolas, Worrell, Robert, Yang, Hannah, Moncrieff, Marc, Goparaju, Chandra, Melamed, Jonathan, Pass, Harvey, Botnariuc, Natalia, Caraman, Irina, Cernat, Mircea, Chemencedji, Inga, Clipca, Adrian, Doruc, Serghei, Gorincioi, Ghenadie, Mura, Sergiu, Pirtac, Maria, Stancul, Irina, Tcaciuc, Diana, Albert, Monique, Alexopoulou, Iakovina, Arnaout, Angel, Bartlett, John, Engel, Jay, Gilbert, Sebastien, Parfitt, Jeremy, Sekhon, Harman, Thomas, George, Rassl, Doris M., Rintoul, Robert C., Bifulco, Carlo, Tamakawa, Raina, Urba, Walter, Hayward, Nicholas, Timmers, Henri, Antenucci, Anna, Facciolo, Francesco, Grazi, Gianluca, Marino, Mirella, Merola, Roberta, de Krijger, Ronald, Gimenez-Roqueplo, Anne-Paule, Piché, Alain, Chevalier, Simone, McKercher, Ginette, Birsoy, Kivanc, Barnett, Gene, Brewer, Cathy, Farver, Carol, Naska, Theresa, Pennell, Nathan A., Raymond, Daniel, Schilero, Cathy, Smolenski, Kathy, Williams, Felicia, Morrison, Carl, Borgia, Jeffrey A., Liptay, Michael J., Pool, Mark, Seder, Christopher W., Junker, Kerstin, Omberg, Larsson, Dinkin, Mikhail, Manikhas, George, Alvaro, Domenico, Bragazzi, Maria Consiglia, Cardinale, Vincenzo, Carpino, Guido, Gaudio, Eugenio, Chesla, David, Cottingham, Sandra, Dubina, Michael, Moiseenko, Fedor, Dhanasekaran, Renumathy, Becker, Karl-Friedrich, Janssen, Klaus-Peter, Slotta-Huspenina, Julia, Abdel-Rahman, Mohamed H., Aziz, Dina, Bell, Sue, Cebulla, Colleen M., Davis, Amy, Duell, Rebecca, Elder, J. Bradley, Hilty, Joe, Kumar, Bahavna, Lang, James, Lehman, Norman L., Mandt, Randy, Nguyen, Phuong, Pilarski, Robert, Rai, Karan, Schoenfield, Lynn, Senecal, Kelly, Wakely, Paul, Hansen, Paul, Lechan, Ronald, Powers, James, Tischler, Arthur, Grizzle, William E., Sexton, Katherine C., Kastl, Alison, Henderson, Joel, Porten, Sima, Waldmann, Jens, Fassnacht, Martin, Asa, Sylvia L., Schadendorf, Dirk, Couce, Marta, Graefen, Markus, Huland, Hartwig, Sauter, Guido, Schlomm, Thorsten, Simon, Ronald, Tennstedt, Pierre, Olabode, Oluwole, Nelson, Mark, Bathe, Oliver, Carroll, Peter R., Chan, June M., Disaia, Philip, Glenn, Pat, Kelley, Robin K., Landen, Charles N., Phillips, Joanna, Prados, Michael, Simko, Jeffry, Smith-McCune, Karen, VandenBerg, Scott, Roggin, Kevin, Fehrenbach, Ashley, Kendler, Ady, Sifri, Suzanne, Steele, Ruth, Jimeno, Antonio, Carey, Francis, Forgie, Ian, Mannelli, Massimo, Carney, Michael, Hernandez, Brenda, Campos, Benito, Herold-Mende, Christel, Jungk, Christin, Unterberg, Andreas, von Deimling, Andreas, Bossler, Aaron, Galbraith, Joseph, Jacobus, Laura, Knudson, Michael, Knutson, Tina, Ma, Deqin, Milhem, Mohammed, Sigmund, Rita, Godwin, Andrew K., Madan, Rashna, Rosenthal, Howard G., Adebamowo, Clement, Adebamowo, Sally N., Boussioutas, Alex, Beer, David, Giordano, Thomas, Mes-Masson, Anne-Marie, Saad, Fred, Bocklage, Therese, Landrum, Lisa, Mannel, Robert, Moore, Kathleen, Moxley, Katherine, Postier, Russel, Walker, Joan, Zuna, Rosemary, Feldman, Michael, Valdivieso, Federico, Dhir, Rajiv, Luketich, James, Pinero, Edna M. Mora, Quintero-Aguilo, Mario, Carlotti, Carlos Gilberto, Dos Santos, Jose Sebastião, Kemp, Rafael, Sankarankuty, Ajith, Tirapelli, Daniela, Catto, James, Agnew, Kathy, Swisher, Elizabeth, Creaney, Jenette, Robinson, Bruce, Shelley, Carl Simon, Godwin, Eryn M., Kendall, Sara, Shipman, Cassaundra, Bradford, Carol, Carey, Thomas, Haddad, Andrea, Moyer, Jeffey, Peterson, Lisa, Prince, Mark, Rozek, Laura, Wolf, Gregory, Bowman, Rayleen, Fong, Kwun M., Yang, Ian, Korst, Robert, Rathmell, W. Kimryn, Fantacone-Campbell, J. Leigh, Hooke, Jeffrey A., Kovatich, Albert J., Shriver, Craig D., DiPersio, John, Drake, Bettina, Govindan, Ramaswamy, Heath, Sharon, Ley, Timothy, Van Tine, Brian, Westervelt, Peter, Rubin, Mark A., Lee, Jung Il, Aredes, Natália D., Mariamidze, Armaz, Piwnica-Worms, Helen, Ma, Li, and Liang, Han
  • Cell Reports; April 2018, Vol. 23 Issue: 1 p213-226.e3
Abstract
Protein ubiquitination is a dynamic and reversible process of adding single ubiquitin molecules or various ubiquitin chains to target proteins. Here, using multidimensional omic data of 9,125 tumor samples across 33 cancer types from The Cancer Genome Atlas, we perform comprehensive molecular characterization of 929 ubiquitin-related genes and 95 deubiquitinase genes. Among them, we systematically identify top somatic driver candidates, including mutated FBXW7with cancer-type-specific patterns and amplified MDM2showing a mutually exclusive pattern with BRAFmutations. Ubiquitin pathway genes tend to be upregulated in cancer mediated by diverse mechanisms. By integrating pan-cancer multiomic data, we identify a group of tumor samples that exhibit worse prognosis. These samples are consistently associated with the upregulation of cell-cycle and DNA repair pathways, characterized by mutated TP53, MYC/TERTamplification, and APC/PTENdeletion. Our analysis highlights the importance of the ubiquitin pathway in cancer development and lays a foundation for developing relevant therapeutic strategies.

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