Publications/Preprints
Zhang L, Sagan A, Qin B, Hu B, Osmanbeyoglu HU
bioRxiv 2024.06.26.600782 2024
Cancer-cell derived S100A11 promotes macrophage recruitment in ER+ breast cancer
Lee S, Cho Y, Li Y, Brown D, McAuliffe P, Lee AV, Oesterreich S, Zervantonakis, IK, Osmanbeyoglu HU
bioRxiv 2024.03.21.586041 2024
Sinno SH, Imperatore JA, Bai S, Gomes-Jourdan N, Mafarachisi N, Coronnello C, Zhang L, Jašarević E, Osmanbeyoglu HU, Buckanovich RJ, Cascio1 S
Journal of Clinical Investigation 2024
​Spatial landscape of malignant pleural and peritoneal mesothelioma tumor immune microenvironment
Ma X, Lembersky D, Kim ES, Bruno TC, Testa JR, Osmanbeyoglu HU
Cancer Research Communications 2024
Low Exposures to Amphibole or Serpentine Asbestos in Germline Bap1-mutant Mice Induce Mesothelioma Characterized by an Immunosuppressive Tumor Microenvironment
Kadariya Y, Sementino E, Ruan M, Cheung M, Hadikhani P, Osmanbeyoglu HU, Klein-Szanto AJ, Testa J
Cancer Research Communications 2024
Saeed A, Park R, Pathak H, Al-Bzour AN, Dai J, Phadnis M, Al-Rajabi R, Kasi A, Baranda J, SUn W, Williamson S, Chiu Y, Osmanbeyoglu HU, Madan R, Abushukair H, Mulvaney K, Godwin AK, Saeed A
Nature Communications 2024
Zhang L, Cascio S, Mellors JW, Buckanovich RJ, Osmanbeyoglu HU
Communications Biology 2024
Bibee KP, Kulkarni A, Lee S, Ho J, Osmanbeyoglu HU, Ferris RL, Zandberg DP
Oral Oncology 2023
Gau D, Daoud A, Allen A, Joy M, Sagan A, Lee S, Lucas PC, Duensing S, Boone D, Osmanbeyoglu HU, Roy P
Journal of Biological Chemistry 2023
COVID-19db linkage maps of cell surface proteins and transcription factors in immune cells
Ramjattun K*, Ma X*, Gao SJ, Singh H, Osmanbeyoglu HU
Journal of Medical Virology 2023
Sagan A, Ma X, Ramjattun K, Osmanbeyoglu HU
Springer Protocol 2023
Onkar S, Cui J, Zou J, Cardello C, Cillo AR, Uddin MR, Sagan A, Joy M, Osmanbeyoglu HU, Pogue-Geile K, McAuliffe PF, Lucas PC, Tseng GC, Lee AV, Bruno TC, Oesterreich S, Vignali DA
Nature Cancer 2023
Osmanbeyoglu HU#, Palmer D, Sagan A, Sementino E, Becich MJ, Testa JR
Cancers 2022 (#corresponding author)
Tao Y*, Ma X*, Palmer D, Schwartz R, Lu X, Osmanbeyoglu HU.
Nucleic Acids Research 2022
Sugitani N, Vendetti FP, Cipriano AJ, Deppas JJ, Moiseeva TN, Haynes SS, Wang Y, Palmer D, Osmanbeyoglu HU, Bostwick A, Snyder NW, Gong Y, Aird KM, Delgoffe GM, Beumer JH, Bakkenist CJ.
Cell Reports 2022
Lee S, Osmanbeyoglu HU
Breast Cancer Research 2022
Cascio S, Chandler C, Zhang L, Sinno S, Gao B, Onkar S, Bruno T, Vignali D, Mahdi H, Osmanbeyoglu HU, Vlad A, Coffman L, Buckanovich RJ
Science Advances 2021
SPaRTAN, a computational framework for linking cell-surface receptors to transcriptional regulators
Ma X, Somasundaram A, Qi Z, Hartman D, Singh H, Osmanbeyoglu HU.
Nucleic Acids Research 2021
Tanaka K, Han S, Yang S, Kim K, Selcuklu SD, Ganesan YT, Moyer A, Sinha S, Ramani S, Xie Y, Ishizawa K, Osmanbeyoglu HU, Yu HA, Kris MG, Hsieh JJ, Cheng EH.
Cancer Cell 2021
Vyas A, Harbison RA, Faden D, Kubik M, Palmer D, Zhang Q, Osmanbeyoglu HU, Méndez E, Duvvuri U.
Clinical Cancer Research 2021
Moiseeva TN, Qian C, Chiba N, Osmanbeyoglu HU, Bakkenist CJ.
Proc Natl Acad Sci. 2019
Chromatin-informed inference of transcriptional programs in gynecologic and basal breast cancers
Osmanbeyoglu HU#, Shimizu F*, Rynne-Vidal A*, Alonso-Curbelo D*, Chen HA, Wen HY, Yeung TL, Jelinic P, Ravazi P, Lowe SW, Mok SC, Chiosis G, Levine DA, Leslie CS#. (#=co-corresponding authors)
Nature Communications 2019
Moiseeva NT, Yin Y, Calderon MJ, Qian C, Schamus-Haynes S, Sugitani N, Osmanbeyoglu HU, Rothenberg E, Watkins SC, Bakkenist CJ.
Proc Natl Acad Sci. 2019
Integrative Molecular Characterization of Malignant Pleural Mesothelioma
Hmeljak J, Sanchez-Vega F, Hoadley KA, Shih J, Stewart C, Heiman D, Tarpey P, Danilova L, Drill E, Gibb EA, Bowlby R, Kanchi R, Osmanbeyoglu HU, Sekido Y, Takeshita J, Newton Y, Graim K, Gupta M, Gay CM, Diao L, Gibbs DL, Thorsson V, Iype L, Kantheti H, Severson DT, Ravegnini G, Desmeules P, Jungbluth AA, Travis WD, Dacic S, Chirieac LR, Galateau-Sallé F, Fujimoto J, Husain AN, Silveira HC, Rusch VW, Rintoul RC, Pass H, Kindler H, Zauderer MG, Kwiatkowski DJ, Bueno R, Tsao AS, Creaney J, Lichtenberg T, Leraas K, Bowen J; TCGA Research Network, Felau I, Zenklusen JC, Akbani R, Cherniack AD, Byers LA, Noble MS, Fletcher JA, Robertson AG, Shen R, Aburatani H, Robinson BW, Campbell P, Ladanyi M.
Cancer Discovery 2018
Korkut A, Zaidi S, Kanchi RS, Rao S, Gough NR, Schultz A, Li X, Lorenzi PL, Berger AC, Robertson G, Kwong LN, Datto M, Roszik J, Ling S, Ravikumar V, Manyam G, Rao A, Shelley S, Liu Y, Ju Z, Hansel D, de Velasco G, Pennathur A, Andersen JB, O'Rourke CJ, Ohshiro K, Jogunoori W, Nguyen BN, Li S, Osmanbeyoglu HU, Ajani JA, Mani SA, Houseman A, Wiznerowicz M, Chen J, Gu S, Ma W, Zhang J, Tong P, Cherniack AD, Deng C, Resar L.,Cancer Genome Atlas Research Network, Weinstein JN, Mishra L, Akbani R.
Cell Systems 2018
Ets transcription factor GABP controls T cell homeostasis and immunity
Luo CT, Osmanbeyoglu HU, Do MH, Bivona MR, Toure A, Kang D, Xie Y, Leslie CS, Li MO.
Nature Communications 2017
SWI/SNF tumor suppressor gene PBRM1/BAF180 in human clear cell kidney cancer
Nargund AM, Osmanbeyoglu HU, Cheng EH, Hsieh JJ.
Molecular & Cellular Oncology 2017
Computational methods to dissect gene regulatory networks in cancer
Iyer A, Osmanbeyoglu HU, Leslie CS.
Current Opinion in Systems Biology 2017
The SWI/SNF Protein PBMR1 Restrains VHL Loss-Driven Clear Cell Kidney Cancer
Nargund AM, Pham CG, Dong Y, Wang PI, Osmanbeyoglu HU, Xie Y, Aras O, Han S, Oyama T, Takeda S, Ray CE, Dong Z, Berge M, Hakimi AA, Monetta S, Lekaye CL, Koutcher JA, Leslie CS, Creighton CJ, Weinhold N, Lee W, Tickoo SK, Wang Z, Cheng EH, Hsieh JJ.
Cell Reports 2017
Steroid receptor coactivator-1 can regulate osteoblastogenesis independently of estrogen
Watters RJ, Hartmaier RJ, Osmanbeyoglu HU, Gillihan RM, Rae JM, Liao L, Chen K, Li W, Lu X, Oesterreich S.
Mol Cell Endocrinology 2017
Toska E, Osmanbeyoglu HU, Castel P, Chan C, Hendrickson RC, Elkabets M, Dickler MN, Scaltriti M, Leslie CS, Armstrong SA, Baselga J.
Science 2017
Osmanbeyoglu HU, Toska E, Chan C, Baselga J, Leslie CS.
Nat Communications 2017
A mechanism for expansion of regulatory T-cell repertoire and its role in self-tolerance
Feng Y, Veeken J, Shugay M, Putintseva EV, Osmanbeyoglu HU, Dikiy S, Hoyos BE, Moltedo B, Hemmers S, Treuting P, Leslie CS, Chudakov M, Rudensky AY.
Nature 2015
Linking signaling pathways to transcriptional programs in breast cancer
Osmanbeyoglu HU, Pelossof R, Bromberg JF, Leslie CS.
Genome Research 2014
Estrogen represses gene expression through reconfiguring chromatin structures
Osmanbeyoglu HU, Lu KN, Oesterreich S, Day RS, Benos PV, Coronnello C, Lu X.
Nucleic Acids Research 2013
Osmanbeyoglu HU, Hartmaier RJ, Oesterreich S, Lu X.
BMC Genomics 2012
Evaluating the Barriers to Point-of-Care Documentation for Nursing Staff
Kohle-Ersher A, Chatterjee P, Osmanbeyoglu HU, Hochheiser H, Bartos CE.
Computers, Informatics, Nursing 2012
N-gram analysis of 970 microbial organisms reveals presence of biological language models
Osmanbeyoglu HU, Ganapathiraju MK.
BMC Bioinformatics 2011
Rapid Deployment of Viral-Human Interactome Prediction for New Viruses
Osmanbeyoglu H, Ganapathiraju M.
AMIA Translational Bioinformatics Summit 2011
PLoS Computational Biology conference postcards from ISMB
Chalancon G, Kosloff M, Osmanbeyoglu HU, Saraswathi S.
PLoS Computational Biology 2010
Active machine learning for transmembrane helix prediction
Osmanbeyoglu HU, Wehner JA, Carbonell JG, Ganapathiraju MK.
BMC Bioinformatics 2010
Thin alumina nanoporous membranes for similar size biomolecule separation
Osmanbeyoglu HU, Hur TB, Kim HK.
Journal of Membrane Science 2009