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  1. Mondal S, Roy D, Sarkar Bhattacharya S, Jin L, Jung D, Zhang S, Kalogera E, Staub J, Wang Y, Xuyang W, Khurana A, Chien J, Telang S, Chesney J, Tapolsky G, Petras D, Shridhar V. Therapeutic targeting of PFKFB3 with a novel glycolytic inhibitor PFK158 promotes lipophagy and chemosensitivity in gynecologic cancers. Int J Cancer. 2019 Jan 1;144(1):178-189. doi: 10.1002/ijc.31868. Epub 2018 Oct 30. PubMed PMID: 30226266; PubMed Central PMCID: PMC6261695.
  2. Bastola P, Oien DB, Cooley M, Chien J. Emerging Cancer Therapeutic Targets in Protein Homeostasis. AAPS J. 2018 Aug 27;20(6):94. doi: 10.1208/s12248-018-0254-1. PubMed PMID: 30151644.
  3. Fang P, Madden JA, Neums L, Moulder RK, Forrest ML, Chien J. Olaparib-induced Adaptive Response Is Disrupted by FOXM1 Targeting that Enhances Sensitivity to PARP Inhibition. Mol Cancer Res. 2018 Jun;16(6):961-973. doi: 10.1158/1541-7786.MCR-17-0607. Epub 2018 Mar 15. PubMed PMID: 29545475.
  4. Chien J, Neums L, Powell AFLA, Torres M, Kalli KR, Multinu F, Shridhar V, Mariani A. Genetic Evidence for Early Peritoneal Spreading in Pelvic High-Grade Serous Cancer. Front Oncol. 2018;8:58. doi: 10.3389/fonc.2018.00058. eCollection 2018. PubMed PMID: 29594039; PubMed Central PMCID: PMC5858520.
  5. Jung D, Khurana A, Roy D, Kalogera E, Bakkum-Gamez J, Chien J, Shridhar V. Quinacrine upregulates p21/p27 independent of p53 through autophagy-mediated downregulation of p62-Skp2 axis in ovarian cancer. Sci Rep. 2018 Feb 6;8(1):2487. doi: 10.1038/s41598-018-20531-w. PubMed PMID: 29410485; PubMed Central PMCID: PMC5802832.
  6. Neums L, Suenaga S, Beyerlein P, Anders S, Koestler D, Mariani A, Chien J. VaDiR: an integrated approach to Variant Detection in RNA. Gigascience. 2018 Feb 1;7(2). doi: 10.1093/gigascience/gix122. PubMed PMID: 29267927; PubMed Central PMCID: PMC5827345.
  7. Bastola P, Chien J. Co-selected mutations in VCP: a novel mechanism of resistance to VCP inhibitors. Cell Death Dis. 2018 Jan 18;9(2):35. doi: 10.1038/s41419-017-0049-9. PubMed PMID: 29348605; PubMed Central PMCID: PMC5833740.
  8. Oien DB, Garay T, Eckstein S, Chien J. Cisplatin and Pemetrexed Activate AXL and AXL Inhibitor BGB324 Enhances Mesothelioma Cell Death from Chemotherapy. Front Pharmacol. 2017;8:970. doi: 10.3389/fphar.2017.00970. eCollection 2017. PubMed PMID: 29375377; PubMed Central PMCID: PMC5768913.
  9. Bastola P, Wang F, Schaich MA, Gan T, Freudenthal BD, Chou TF, Chien J. Specific mutations in the D1-D2 linker region of VCP/p97 enhance ATPase activity and confer resistance to VCP inhibitors. Cell Death Discov. 2017;3:17065. doi: 10.1038/cddiscovery.2017.65. eCollection 2017. PubMed PMID: 29367883; PubMed Central PMCID: PMC5672561.
  10. Chien J, Mehta G. Meeting Report From the 2016 11th Biennial Ovarian Cancer Research Symposium: Mechanisms of Initiation and Progression of Ovarian Cancers. Int J Gynecol Cancer. 2017 Nov;27(9S Suppl 5):S10-S13. doi: 10.1097/IGC.0000000000001117. PubMed PMID: 29278599.
  11. Chien J, Poole EM. Ovarian Cancer Prevention, Screening, and Early Detection: Report From the 11th Biennial Ovarian Cancer Research Symposium. Int J Gynecol Cancer. 2017 Nov;27(9S Suppl 5):S20-S22. doi: 10.1097/IGC.0000000000001118. PubMed PMID: 29278600; PubMed Central PMCID: PMC6154781.
  12. Zhang W, Chien J, Yong J, Kuang R. Network-based machine learning and graph theory algorithms for precision oncology. NPJ Precis Oncol. 2017;1(1):25. doi: 10.1038/s41698-017-0029-7. eCollection 2017. Review. PubMed PMID: 29872707; PubMed Central PMCID: PMC5871915.
  13. Kommoss S, Winterhoff B, Oberg AL, Konecny GE, Wang C, Riska SM, Fan JB, Maurer MJ, April C, Shridhar V, Kommoss F, du Bois A, Hilpert F, Mahner S, Baumann K, Schroeder W, Burges A, Canzler U, Chien J, Embleton AC, Parmar M, Kaplan R, Perren T, Hartmann LC, Goode EL, Dowdy SC, Pfisterer J. Bevacizumab May Differentially Improve Ovarian Cancer Outcome in Patients with Proliferative and Mesenchymal Molecular Subtypes. Clin Cancer Res. 2017 Jul 15;23(14):3794-3801. doi: 10.1158/1078-0432.CCR-16-2196. Epub 2017 Feb 3. PubMed PMID: 28159814; PubMed Central PMCID: PMC5661884.
  14. Meier R, Graw S, Beyerlein P, Koestler D, Molina JR, Chien J. digit-a tool for detection and identification of genomic interchromosomal translocations. Nucleic Acids Res. 2017 May 19;45(9):e72. doi: 10.1093/nar/gkx010. PubMed PMID: 28132028; PubMed Central PMCID: PMC5435966.
  15. Wilson C, Qiu L, Hong Y, Karnik T, Tadros G, Mau B, Ma T, Mu Y, New J, Louie RJ, Gunewardena S, Godwin AK, Tawfik OW, Chien J, Roby KF, Krieg AJ. The histone demethylase KDM4B regulates peritoneal seeding of ovarian cancer. Oncogene. 2017 May 4;36(18):2565-2576. doi: 10.1038/onc.2016.412. Epub 2016 Nov 21. PubMed PMID: 27869162; PubMed Central PMCID: PMC5418103.
  16. Miller DF, Yan P, Fang F, Buechlein A, Kroll K, Frankhouser D, Stump C, Stump P, Ford JB, Tang H, Michaels S, Matei D, Huang TH, Chien J, Liu Y, Rusch DB, Nephew KP. Complete Transcriptome RNA-Seq. Methods Mol Biol. 2017;1513:141-162. doi: 10.1007/978-1-4939-6539-7_10. PubMed PMID: 27807835.
  17. Bastola P, Neums L, Schoenen FJ, Chien J. VCP inhibitors induce endoplasmic reticulum stress, cause cell cycle arrest, trigger caspase-mediated cell death and synergistically kill ovarian cancer cells in combination with Salubrinal. Mol Oncol. 2016 Dec;10(10):1559-1574. doi: 10.1016/j.molonc.2016.09.005. Epub 2016 Sep 28. PubMed PMID: 27729194; PubMed Central PMCID: PMC5423134.
  18. de Queiroz RM, Madan R, Chien J, Dias WB, Slawson C. Changes in O-Linked N-Acetylglucosamine (O-GlcNAc) Homeostasis Activate the p53 Pathway in Ovarian Cancer Cells. J Biol Chem. 2016 Sep 2;291(36):18897-914. doi: 10.1074/jbc.M116.734533. Epub 2016 Jul 11. PubMed PMID: 27402830; PubMed Central PMCID: PMC5009264.
  19. Zhang L, Hapon MB, Goyeneche AA, Srinivasan R, Gamarra-Luques CD, Callegari EA, Drappeau DD, Terpstra EJ, Pan B, Knapp JR, Chien J, Wang X, Eyster KM, Telleria CM. Mifepristone increases mRNA translation rate, triggers the unfolded protein response, increases autophagic flux, and kills ovarian cancer cells in combination with proteasome or lysosome inhibitors. Mol Oncol. 2016 Aug;10(7):1099-117. doi: 10.1016/j.molonc.2016.05.001. Epub 2016 May 17. PubMed PMID: 27233943; PubMed Central PMCID: PMC5240778.
  20. Oien D, Chien J. TP53 mutations as biomarkers for high-grade serous ovarian cancer: are we there yet?. Translational cancer research. 2016 August; 5(Supplement 2):S264-S268. doi: 10.21037/tcr.2016.07.45.
  21. Ledgerwood LG, Kumar D, Eterovic AK, Wick J, Chen K, Zhao H, Tazi L, Manna P, Kerley S, Joshi R, Wang L, Chiosea SI, Garnett JD, Tsue TT, Chien J, Mills GB, Grandis JR, Thomas SM. The degree of intratumor mutational heterogeneity varies by primary tumor sub-site. Oncotarget. 2016 May 10;7(19):27185-98. doi: 10.18632/oncotarget.8448. PubMed PMID: 27034009; PubMed Central PMCID: PMC5053641.
  22. Earp M, Winham SJ, Larson N, Permuth JB, Sicotte H, Chien J, Anton-Culver H, Bandera EV, Berchuck A, Cook LS, Cramer D, Doherty JA, Goodman MT, Levine DA, Monteiro AN, Ness RB, Pearce CL, Rossing MA, Tworoger SS, Wentzensen N, Bisogna M, Brinton L, Brooks-Wilson A, Carney ME, Cunningham JM, Edwards RP, Fogarty ZC, Iversen ES, Kraft P, Larson MC, Le ND, Lin HY, Lissowska J, Modugno F, Moysich KB, Olson SH, Pike MC, Poole EM, Rider DN, Terry KL, Thompson PJ, van den Berg D, Vierkant RA, Vitonis AF, Wilkens LR, Wu AH, Yang HP, Ziogas A, Phelan CM, Schildkraut JM, Chen YA, Sellers TA, Fridley BL, Goode EL. A targeted genetic association study of epithelial ovarian cancer susceptibility. Oncotarget. 2016 Feb 16;7(7):7381-9. doi: 10.18632/oncotarget.7121. PubMed PMID: 26848776; PubMed Central PMCID: PMC4884925.
  23. Belinsky MG, Rink L, Cai KQ, Capuzzi SJ, Hoang Y, Chien J, Godwin AK, von Mehren M. Somatic loss of function mutations in neurofibromin 1 and MYC associated factor X genes identified by exome-wide sequencing in a wild-type GIST case. BMC Cancer. 2015 Nov 10;15:887. doi: 10.1186/s12885-015-1872-y. PubMed PMID: 26555092; PubMed Central PMCID: PMC4641358.
  24. Cooley M, Fang P, Fang F, Nephew KP, Chien J. Molecular determinants of chemotherapy resistance in ovarian cancer. Pharmacogenomics. 2015 Nov;16(16):1763-7. doi: 10.2217/pgs.15.130. Epub 2015 Nov 10. PubMed PMID: 26554863.
  25. Dhakal P, Rumi MA, Kubota K, Chakraborty D, Chien J, Roby KF, Soares MJ. Neonatal Progesterone Programs Adult Uterine Responses to Progesterone and Susceptibility to Uterine Dysfunction. Endocrinology. 2015 Oct;156(10):3791-803. doi: 10.1210/en.2015-1397. Epub 2015 Jul 23. PubMed PMID: 26204463; PubMed Central PMCID: PMC4588825.
  26. Munchel S, Hoang Y, Zhao Y, Cottrell J, Klotzle B, Godwin AK, Koestler D, Beyerlein P, Fan JB, Bibikova M, Chien J. Targeted or whole genome sequencing of formalin fixed tissue samples: potential applications in cancer genomics. Oncotarget. 2015 Sep 22;6(28):25943-61. doi: 10.18632/oncotarget.4671. PubMed PMID: 26305677; PubMed Central PMCID: PMC4694877.
  27. Elsarraj HS, Hong Y, Valdez KE, Michaels W, Hook M, Smith WP, Chien J, Herschkowitz JI, Troester MA, Beck M, Inciardi M, Gatewood J, May L, Cusick T, McGinness M, Ricci L, Fan F, Tawfik O, Marks JR, Knapp JR, Yeh HW, Thomas P, Carrasco DR, Fields TA, Godwin AK, Behbod F. Expression profiling of in vivo ductal carcinoma in situ progression models identified B cell lymphoma-9 as a molecular driver of breast cancer invasion. Breast Cancer Res. 2015 Sep 17;17:128. doi: 10.1186/s13058-015-0630-z. PubMed PMID: 26384318; PubMed Central PMCID: PMC4574212.
  28. Chien J, Sicotte H, Fan JB, Humphray S, Cunningham JM, Kalli KR, Oberg AL, Hart SN, Li Y, Davila JI, Baheti S, Wang C, Dietmann S, Atkinson EJ, Asmann YW, Bell DA, Ota T, Tarabishy Y, Kuang R, Bibikova M, Cheetham RK, Grocock RJ, Swisher EM, Peden J, Bentley D, Kocher JP, Kaufmann SH, Hartmann LC, Shridhar V, Goode EL. TP53 mutations, tetraploidy and homologous recombination repair defects in early stage high-grade serous ovarian cancer. Nucleic Acids Res. 2015 Aug 18;43(14):6945-58. doi: 10.1093/nar/gkv111. Epub 2015 Apr 27. PubMed PMID: 25916844; PubMed Central PMCID: PMC4538798.
  29. Graw S, Meier R, Minn K, Bloomer C, Godwin AK, Fridley B, Vlad A, Beyerlein P, Chien J. Robust gene expression and mutation analyses of RNA-sequencing of formalin-fixed diagnostic tumor samples. Sci Rep. 2015 Jul 23;5:12335. doi: 10.1038/srep12335. PubMed PMID: 26202458; PubMed Central PMCID: PMC4511951.
  30. Chien J, Landen CN. Summary of the 2015 American Association for Cancer Research (AACR) Annual Meeting. Gynecol Oncol. 2015 Jul;138(1):7-10. PubMed PMID: 26269806.
  31. Winterhoff B, Freyer L, Hammond E, Giri S, Mondal S, Roy D, Teoman A, Mullany SA, Hoffmann R, von Bismarck A, Chien J, Block MS, Millward M, Bampton D, Dredge K, Shridhar V. PG545 enhances anti-cancer activity of chemotherapy in ovarian models and increases surrogate biomarkers such as VEGF in preclinical and clinical plasma samples. Eur J Cancer. 2015 May;51(7):879-892. doi: 10.1016/j.ejca.2015.02.007. Epub 2015 Mar 5. PubMed PMID: 25754234; PubMed Central PMCID: PMC4402130.
  32. Lin E, Chien J, Ong FS, Fan JB. Challenges and opportunities for next-generation sequencing in companion diagnostics. Expert Rev Mol Diagn. 2015 Feb;15(2):193-209. doi: 10.1586/14737159.2015.961916. Epub 2014 Sep 24. PubMed PMID: 25249308.
  33. Zhang X, Cheng L, Minn K, Madan R, Godwin AK, Shridhar V, Chien J. Targeting of mutant p53-induced FoxM1 with thiostrepton induces cytotoxicity and enhances carboplatin sensitivity in cancer cells. Oncotarget. 2014 Nov 30;5(22):11365-80. doi: 10.18632/oncotarget.2497. PubMed PMID: 25426548; PubMed Central PMCID: PMC4294351.
  34. Roy D, Mondal S, Wang C, He X, Khurana A, Giri S, Hoffmann R, Jung DB, Kim SH, Chini EN, Periera JC, Folmes CD, Mariani A, Dowdy SC, Bakkum-Gamez JN, Riska SM, Oberg AL, Karoly ED, Bell LN, Chien J, Shridhar V. Loss of HSulf-1 promotes altered lipid metabolism in ovarian cancer. Cancer Metab. 2014;2:13. doi: 10.1186/2049-3002-2-13. eCollection 2014. PubMed PMID: 25225614; PubMed Central PMCID: PMC4164348.
  35. Wang C, Cicek MS, Charbonneau B, Kalli KR, Armasu SM, Larson MC, Konecny GE, Winterhoff B, Fan JB, Bibikova M, Chien J, Shridhar V, Block MS, Hartmann LC, Visscher DW, Cunningham JM, Knutson KL, Fridley BL, Goode EL. Tumor hypomethylation at 6p21.3 associates with longer time to recurrence of high-grade serous epithelial ovarian cancer. Cancer Res. 2014 Jun 1;74(11):3084-91. doi: 10.1158/0008-5472.CAN-13-3198. Epub 2014 Apr 11. PubMed PMID: 24728075; PubMed Central PMCID: PMC4054691.
  36. Cunningham JM, Cicek MS, Larson NB, Davila J, Wang C, Larson MC, Song H, Dicks EM, Harrington P, Wick M, Winterhoff BJ, Hamidi H, Konecny GE, Chien J, Bibikova M, Fan JB, Kalli KR, Lindor NM, Fridley BL, Pharoah PP, Goode EL. Clinical characteristics of ovarian cancer classified by BRCA1, BRCA2, and RAD51C status. Sci Rep. 2014 Feb 7;4:4026. doi: 10.1038/srep04026. PubMed PMID: 24504028; PubMed Central PMCID: PMC4168524.
  37. Koestler DC, Chalise P, Cicek MS, Cunningham JM, Armasu S, Larson MC, Chien J, Block M, Kalli KR, Sellers TA, Fridley BL, Goode EL. Integrative genomic analysis identifies epigenetic marks that mediate genetic risk for epithelial ovarian cancer. BMC Med Genomics. 2014 Jan 30;7:8. doi: 10.1186/1755-8794-7-8. PubMed PMID: 24479488; PubMed Central PMCID: PMC3916313.
  38. Leonard B, Hart SN, Burns MB, Carpenter MA, Temiz NA, Rathore A, Vogel RI, Nikas JB, Law EK, Brown WL, Li Y, Zhang Y, Maurer MJ, Oberg AL, Cunningham JM, Shridhar V, Bell DA, April C, Bentley D, Bibikova M, Cheetham RK, Fan JB, Grocock R, Humphray S, Kingsbury Z, Peden J, Chien J, Swisher EM, Hartmann LC, Kalli KR, Goode EL, Sicotte H, Kaufmann SH, Harris RS. APOBEC3B upregulation and genomic mutation patterns in serous ovarian carcinoma. Cancer Res. 2013 Dec 15;73(24):7222-31. doi: 10.1158/0008-5472.CAN-13-1753. Epub 2013 Oct 23. PubMed PMID: 24154874; PubMed Central PMCID: PMC3867573.
  39. Chien J, Kuang R, Landen C, Shridhar V. Platinum-sensitive recurrence in ovarian cancer: the role of tumor microenvironment. Front Oncol. 2013 Sep 24;3:251. doi: 10.3389/fonc.2013.00251. Review. PubMed PMID: 24069583; PubMed Central PMCID: PMC3781360.
  40. Cicek MS, Koestler DC, Fridley BL, Kalli KR, Armasu SM, Larson MC, Wang C, Winham SJ, Vierkant RA, Rider DN, Block MS, Klotzle B, Konecny G, Winterhoff BJ, Hamidi H, Shridhar V, Fan JB, Visscher DW, Olson JE, Hartmann LC, Bibikova M, Chien J, Cunningham JM, Goode EL. Epigenome-wide ovarian cancer analysis identifies a methylation profile differentiating clear-cell histology with epigenetic silencing of the HERG K+ channel. Hum Mol Genet. 2013 Aug 1;22(15):3038-47. doi: 10.1093/hmg/ddt160. Epub 2013 Apr 9. PubMed PMID: 23571109; PubMed Central PMCID: PMC3699065.
  41. Chien J. Functional Cancer Genomics: A Way to Bridge the Gap between Genomic Information and Biological Knowledge. Journal of cancer biology & research. 2013 July; 1(1):1-4.
  42. Zhang W, Ota T, Shridhar V, Chien J, Wu B, Kuang R. Network-based survival analysis reveals subnetwork signatures for predicting outcomes of ovarian cancer treatment. PLoS Comput Biol. 2013;9(3):e1002975. doi: 10.1371/journal.pcbi.1002975. Epub 2013 Mar 21. PubMed PMID: 23555212; PubMed Central PMCID: PMC3605061.
  43. Kumar S, Meuter A, Thapa P, Langstraat C, Giri S, Chien J, Rattan R, Cliby W, Shridhar V. Metformin intake is associated with better survival in ovarian cancer: a case-control study. Cancer. 2013 Feb 1;119(3):555-62. doi: 10.1002/cncr.27706. Epub 2012 Dec 3. PubMed PMID: 23208739; PubMed Central PMCID: PMC3553259.
  44. Khurana A, Beleford D, He X, Chien J, Shridhar V. Role of heparan sulfatases in ovarian and breast cancer. Am J Cancer Res. 2013;3(1):34-45. Epub 2013 Jan 18. PubMed PMID: 23359864; PubMed Central PMCID: PMC3555198.
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  46. He X, Chien J, Shridhar V. Assessment of resistance to anoikis in ovarian cancer. Methods Mol Biol. 2013;1049:347-54. doi: 10.1007/978-1-62703-547-7_26. PubMed PMID: 23913229.
  47. He X, Khurana A, Maguire JL, Chien J, Shridhar V. HtrA1 sensitizes ovarian cancer cells to cisplatin-induced cytotoxicity by targeting XIAP for degradation. Int J Cancer. 2012 Mar 1;130(5):1029-35. doi: 10.1002/ijc.26044. Epub 2011 Apr 25. PubMed PMID: 21387310; PubMed Central PMCID: PMC3206182.
  48. Fan JB, Chen J, April CS, Fisher JS, Klotzle B, Bibikova M, Kaper F, Ronaghi M, Linnarsson S, Ota T, Chien J, Laurent LC, Loring JF, Nisperos SV, Chen GY, Zhong JF. Highly parallel genome-wide expression analysis of single mammalian cells. PLoS One. 2012;7(2):e30794. doi: 10.1371/journal.pone.0030794. Epub 2012 Feb 8. PubMed PMID: 22347404; PubMed Central PMCID: PMC3275609.
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