22. Moiseeva TN, Qian C, Chiba N, Osmanbeyoglu HU, Bakkenist CJ. WEE1 kinase inhibitor AZD1775 induces CDK1 kinase-dependent origin firing in unperturbed G1 and S phase cells. PNAS 2019 Nov 11. pii: 201915108. doi: 10.1073/pnas.1915108116

21. 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#. Chromatin-informed inference of transcriptional programs in gynecologic and basal breast cancers. Nature Communications 2019 10(1):4369. (#=co-corresponding authors)

20. Moiseeva NT, Yin Y, Calderon MJ, Qian C, Schamus-Haynes S, Sugitani N, Osmanbeyoglu HU, Rothenberg E, Watkins SC, Bakkenist CJ. An ATR and CHK1 kinase signaling mechanism that limits origin firing during unperturbed DNA replication. Proc Natl Acad Sci U S A. 2019 Jun 17. pii: 201903418. doi: 10.1073/pnas.1903418116.

19. 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. Integrative Molecular Characterization of Malignant Pleural Mesothelioma. Cancer Discov. 2018 Dec;8(12):1548-1565. doi: 10.1158/2159-8290.CD-18-0804.

18. 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. A Pan-Cancer Analysis Reveals High-Frequency Genetic Alterations in Mediators of Signaling by the TGF-β Superfamily. Cell Syst. 2018 Oct 24;7(4):422-437.e7. doi: 10.1016/j.cels.2018.08.010. Epub 2018 Sep 26.

17. Luo CT, Osmanbeyoglu HU, Do MH, Bivona MR, Toure A, Kang D, Xie Y, Leslie CS, Li MO. Ets transcription factor GABP controls T cell homeostasis and immunity. Nat Commun. Nat Commun. 2017 Oct 20;8(1):1062. doi: 10.1038/s41467-017-01020-6.

16. Nargund AM, Osmanbeyoglu HU, Cheng EH, Hsieh JJ. SWI/SNF tumor suppressor gene PBRM1/BAF180 in human clear cell kidney cancer. Mol Cell Oncol. 2017 Jun 19;4(4):e1342747. doi: 10.1080/23723556.2017.1342747. eCollection 2017.

15. Iyer A, Osmanbeyoglu HU, Leslie CS.Computational methods to dissect gene regulatory networks in cancer. Current Opinion in Systems Biology 2 (2017): 115-122.

14. 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. The SWI/SNF Protein PBMR1 Restrains VHL Loss-Driven Clear Cell Kidney Cancer.Cell Reports. 2017 Mar 21;18(12):2893-2906. doi: 10.1016/j.celrep.2017.02.074.

13. Watters RJ, Hartmaier RJ, Osmanbeyoglu HU, Gillihan RM, Rae JM, Liao L, Chen K, Li W, Lu X, Oesterreich S. Steroid receptor coactivator-1 can regulate osteoblastogenesis independently of estrogen. Mol Cell Endocrinol. 2017 Jun 15; 448:21-27. doi: 10.1016/j.mce.2017.03.005. Epub 2017 Mar 7.

12. Toska E, Osmanbeyoglu HU, Castel P, Chan C, Hendrickson RC, Elkabets M, Dickler MN, Scaltriti M, Leslie CS, Armstrong SA, Baselga J. PI3K pathway regulates ER-dependent transcription in breast cancer through the epigenetic regulator KMT2D. Science. 2017 Mar 24;355(6331):1324-1330. doi: 10.1126/science.aah6893. Erratum in: Science. 2019 Jan 25;363(6425).

11. Osmanbeyoglu HU, Toska E, Chan C, Baselga J, Leslie CS. Pancancer modelling predicts the context-specific impact of somatic mutations on transcriptional programs. Nat Commun. 2017 Jan 31;8:14249. doi: 10.1038/ncomms14249.

10. 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. A mechanism for expansion of regulatory T-cell repertoire and its role in self-tolerance.Nature. 2015 Dec 3;528(7580):132-136. doi: 10.1038/nature16141. Epub 2015 Nov 25.

9. Osmanbeyoglu HU, Pelossof R, Bromberg JF, Leslie CS. Linking signaling pathways to transcriptional programs in breast cancer. Genome Res. Genome Res. 2014 Nov;24(11):1869-80. doi: 10.1101/gr.173039.114. Epub 2014 Sep 2.

8. Osmanbeyoglu HU, Lu KN, Oesterreich S, Day RS, Benos PV, Coronnello C, Lu X. Estrogen represses gene expression through reconfiguring chromatin structures. Nucleic Acids Res. 2013 Sep;41(17):8061-71. doi: 10.1093/nar/gkt586. Epub 2013 Jul 1.

7. Osmanbeyoglu HU, Hartmaier RJ, Oesterreich S, Lu X. Improving ChIP-seq peak-calling for functional indirect co-regulator binding by integrating multiple sources of biological information. BMC Genomics. 2012;13 Suppl 1:S1. doi: 10.1186/1471-2164-13-S1-S1. Epub 2012 Jan 17.

6. Kohle-Ersher A, Chatterjee P, Osmanbeyoglu HU, Hochheiser H, Bartos CE. Evaluating the Barriers to Point-of-Care Documentation for Nursing Staff. Comput Inform Nurs2012 Mar;30(3):126-33. doi: 10.1097/NCN.0b013e3182343f14.

5. Osmanbeyoglu HU, Ganapathiraju MK. N-gram analysis of 970 microbial organisms reveals presence of biological language models. BMC Bioinformatics. 2011 Jan 10;12:12. doi: 10.1186/1471-2105-12-12.

4. Osmanbeyoglu H, Ganapathiraju M. Rapid Deployment of Viral-Human Interactome Prediction for New Viruses. AMIA Translational Bioinformatics Summit, San Francisco, USA, March 7-9, 2011.

3. Chalancon G, Kosloff M, Osmanbeyoglu HU, Saraswathi S. PLoS Computational Biology conference postcards from ISMB. PLoS computational biology 6.11 (2010): e1002000.

2. Osmanbeyoglu HU, Wehner JA, Carbonell JG, Ganapathiraju MK. Active machine learning for transmembrane helix prediction. BMC Bioinformatics. 2010 Jan 18;11 Suppl 1:S58. doi: 10.1186/1471-2105-11-S1-S58.

1. Osmanbeyoglu HU, Hur TB, Kim HK.Thin alumina nanoporous membranes for similar size biomolecule separation. Journal of Membrane Science 343.1-2 (2009): 1-6.