Publications

Dr. Joe Gray, Ph.D., is now Professor Emeritus at OHSU. This is his former lab page.

Dr. Gray has authored over 500 publications and 80 patents.

Publications: MyNCBI

Patents: US Patent & Trademark Office, Patent Full Text and Image Database

  • Goecks J, Jalili V, Heiser LM, Gray JW. How Machine Learning Will Transform Biomedicine. Cell. 2020;181(1):92-101. Epub 2020/04/04. doi: 10.1016/j.cell.2020.03.022. PubMed PMID: 32243801.
  • Chang YH, Chin K, Thibault G, Eng J, Burlingame E, Gray JW. RESTORE: Robust intEnSiTy nORmalization mEthod for multiplexed imaging. Commun Biol. 2020;3(1):111. Epub 2020/03/11. doi: 10.1038/s42003-020-0828-1. PubMed PMID: 32152447; PMCID: PMC7062831.
  • Rozenblatt-Rosen O, Regev A, Oberdoerffer P, Nawy T, Hupalowska A, Rood JE, Ashenberg O, Cerami E, Coffey RJ, Demir E, Ding L, Esplin ED, Ford JM, Goecks J, Ghosh S, Gray JW, Guinney J, Hanlon SE, Hughes SK, Hwang ES, Iacobuzio-Donahue CA, Jane-Valbuena J, Johnson BE, Lau KS, Lively T, Mazzilli SA, Pe'er D, Santagata S, Shalek AK, Schapiro D, Snyder MP, Sorger PK, Spira AE, Srivastava S, Tan K, West RB, Williams EH, Human Tumor Atlas N. The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution. Cell. 2020;181(2):236-49. Epub 2020/04/18. doi: 10.1016/j.cell.2020.03.053. PubMed PMID: 32302568.
  • Riesterer JL, López CS, Stempinski ES, Williams M, Loftis K, Stoltz K, Thibault G, Lanicault C, Williams T, Gray JW. A workflow for visualizing human cancer biopsies using large-format electron microscopy. Methods Cell Biol. 2020;158:163-81. Epub 2020/05/20. doi: 10.1016/bs.mcb.2020.01.005. PubMed PMID: 32423648.
  • Schau G, Burlingame E, Thibault G, Anekpuritanang T, Wang Y, Gray J, Corless C, Chang YH. Predicting primary site of secondary liver cancer with a neural estimator of metastatic origin. J Med Imaging. 2020;7(1):012706. Epub 2020/02/18. doi: 10.1117/1.JMI.7.1.012706.
  • McMahon NP, Jones JA, Kwon S, Chin K, Nederlof MA, Gray JW, Gibbs SL. Oligonucleotide conjugated antibodies permit highly multiplexed immunofluorescence for future use in clinical histopathology. J Biomed Opt. 2020;25(5):1-18. Epub 2020/05/24. doi: 10.1117/1.Jbo.25.5.056004. PubMed PMID: 32445299; PMCID: PMC7245007.

  • Tsujikawa T, Thibault G, Azimi V, Sivagnanam S, Banik G, Means C, Kawashima R, Clayburgh DR, Gray JW, Coussens LM, Chang YH. Robust Cell Detection and Segmentation for Image Cytometry Reveal Th17 Cell Heterogeneity. Cytometry A. 2019;95(4):389-98. Epub 2019/02/05. doi: 10.1002/cyto.a.23726. PubMed PMID: 30714674; PMCID: PMC6461524.
  • McMahon N, Jones J, Eng J, Kwon S, Chang YH, Thibault G, Chin K, Nederlof M, Gray JW, Gibbs S. Signal removal methods for highly multiplexed immunofluorescent staining using antibody conjugated oligonucleotides. Proc SPIE 10881, Imaging, Manipulation, and Analysis of Biomolecules, Cells, and Tissues XVII, 108810X (4 March 2019); doi: 10.1117/12.2510573.
  • Rozanov D, Cheltsov A, Nilsen A, Boniface C, Forquer I, Korkola J, Gray J, Tyner J, Tognon CE, Mills GB, Spellman P. Targeting mitochondria in cancer therapy could provide a basis for the selective anti-cancer activity. PLoS One. 2019;14(3):e0205623. Epub 2019/03/26. doi: 10.1371/journal.pone.0205623. PubMed PMID: 30908483; PMCID: PMC6433232 affiliation does not alter our adherence to PLOS ONE policies on sharing data and material.
  • Butler TM, Boniface CT, Johnson-Camacho K, Tabatabaei S, Melendez D, Kelley T, Gray JW, Corless CL, Spellman PT. Circulating tumor DNA dynamics using patient-customized assays are associated with outcome in neoadjuvantly treated breast cancer. Cold Spring Harb Mol Case Stud. 2019 Apr; 5(2): a003772l; doi: 10.1101/mcs.a003772. PubMed PMID: 30833418; PMCID: PMC6549569.
  • Schau GF, Thibault G, Dane MA, Gray JW, Heiser LM, Chang YH. Variational Autoencoding Tissue Response to Microenvironment Perturbation. Proc SPIE Int Soc Opt Eng. 2019;10949. Epub 2019/08/06. doi: 10.1117/12.2512660. PubMed PMID: 31379401; PMCID: PMC6677277.
  • Lee Y, Phelps C, Huang T, Mostofian B, Wu L, Zhang Y, Tao K, Chang YH, Stork PJ, Gray JW, Zuckerman DM, Nan X. High-throughput single-particle tracking reveals nested membrane domains that dictate KRas(G12D) diffusion and trafficking. Elife. 2019;8. Epub 2019/11/02. doi: 10.7554/eLife.46393. PubMed PMID: 31674905.
  • Lowe ME, Andersen DK, Caprioli RM, Choudhary J, Cruz-Monserrate Z, Dasyam AK, Forsmark CE, Gorelick FS, Gray JW, Haupt M, Kelly KA, Olive KP, Plevritis SK, Rappaport N, Roth HR, Steen H, Swamidass SJ, Tirkes T, Uc A, Veselkov K, Whitcomb DC, Habtezion A. Precision Medicine in Pancreatic Disease-Knowledge Gaps and Research Opportunities: Summary of a National Institute of Diabetes and Digestive and Kidney Diseases Workshop. Pancreas. 2019;48(10):1250-8. Epub 2019/11/07. doi: 10.1097/MPA.0000000000001412. PubMed PMID: 31688587.
  • Reda M, Ngamcherdtrakul W, Gu S, Bejan DS, Siriwon N, Gray JW, Yantasee W. PLK1 and EGFR targeted nanoparticle as a radiation sensitizer for non-small cell lung cancer. Cancer Lett. 2019;467:9-18. Epub 2019/09/30. doi: 10.1016/j.canlet.2019.09.014. PubMed PMID: 31563561.
  • Sethunath V, Hu H, De Angelis C, Veeraraghavan J, Qin L, Wang N, Simon LM, Wang T, Fu X, Nardone A, Pereira R, Nanda S, Griffith OL, Tsimelzon A, Shaw C, Chamness GC, Reis-Filho JS, Weigelt B, Heiser LM, Hilsenbeck SG, Huang S, Rimawi MF, Gray JW, Osborne CK, Schiff R. Targeting the Mevalonate Pathway to Overcome Acquired Anti-HER2 Treatment Resistance in Breast Cancer. Mol Cancer Res. 2019;17(11):2318-30. Epub 2019/08/20. doi: 10.1158/1541-7786.MCR-19-0756. PubMed PMID: 31420371; PMCID: PMC6825570.
  • Eng J, Thibault G, Luoh SW, Gray JW, Chang YH, Chin K. Cyclic Multiplexed-Immunofluorescence (cmIF), a Highly Multiplexed Method for Single-Cell Analysis. Methods Mol Biol. 2020;2055:521-62. Epub 2019/09/11. doi: 10.1007/978-1-4939-9773-2_24. PubMed PMID: 31502168.
  • Sutton MN, Lu Z, Li YC, Zhou Y, Huang T, Reger AS, Hurwitz AM, Palzkill T, Logsdon C, Liang X, Gray JW, Nan X, Hancock J, Wahl GM, Bast RC, Jr. DIRAS3 (ARHI) Blocks RAS/MAPK Signaling by Binding Directly to RAS and Disrupting RAS Clusters. Cell Rep. 2019;29(11):3448-59 e6. Epub 2019/12/12. doi: 10.1016/j.celrep.2019.11.045. PubMed PMID: 31825828; PMCID: PMC6948147.1.

  • Cheng JB, Sedgewick AJ, Finnegan AI, Harirchian P, Lee J, Kwon S, Fassett MS, Golovato J, Gray M, Ghadially R, Liao W, Perez White BE, Mauro TM, Mully T, Kim EA, Sbitany H, Neuhaus IM, Grekin RC, Yu SS, Gray JW, Purdom E, Paus R, Vaske CJ, Benz SC, Song JS, Cho RJ. (2018) Transcriptional Programming of Normal and Inflamed Human Epidermis at Single-Cell Resolution. Cell Rep. 25(4):871-883. doi: 10.1016/j.celrep.2018.09.006.
  • Burlingame EA, Margolin AA, Gray JW, Chang YH. (2018) SHIFT: speedy histopathological-to-immunofluorescent translation of whole slide images using conditional generative adversarial networks. Proc SPIE Int Soc Opt Eng. 10581. pii: 1058105. doi: 10.1117/12.2293249. Epub 2018 Mar 6.
  • Risom T, Langer EM, Chapman MP, Rantala J, Fields AJ, Boniface C, Alvarez MJ, Kendsersky ND, Pelz CR, Johnson-Camacho K, Dobrolecki LE, Chin K, Aswani AJ, Wang NJ, Califano A, Lewis MT, Tomlin CJ, Spellman PT, Adey A, Gray JW, Sears RC. (2018) Differentiation-state plasticity is a targetable resistance mechanism in basal-like breast cancer. Nat Commun. 9(1):3815. doi: 10.1038/s41467-018-05729-w.
  • Gu S, Ngamcherdtrakul W, Reda M, Hu Z, Gray JW, Yantasee W. (2018) Lack of acquired resistance in HER2-positive breast cancer cells after long-term HER2 siRNA nanoparticle treatment. PLoS One. 13(6):e0198141. doi: 10.1371/journal.pone.0198141. eCollection 2018.
  • Cornforth MN, Anur P, Wang N, Robinson E, Ray FA, Bedford JS, Loucas BD, Williams ES, Peto M, Spellman P, Kollipara R, Kittler R, Gray JW, Bailey SM. (2018) Molecular Cytogenetics Guides Massively Parallel Sequencing of a Radiation-Induced Chromosome Translocation in Human Cells. Radiat Res. 190(1):88-97. doi: 10.1667/RR15053.1. Epub 2018 May 11.
  • Watson SS, Dane M, Chin K, Tatarova Z, Liu M, Liby T, Thompson W, Smith R, Nederlof M, Bucher E, Kilburn D, Whitman M, Sudar D, Mills GB, Heiser LM, Jonas O, Gray JW, Korkola JE. (2018) Microenvironment-Mediated Mechanisms of Resistance to HER2 Inhibitors Differ between HER2+ Breast Cancer Subtypes. Cell Syst. 6(3):329-342.e6. doi: 10.1016/j.cels.2018.02.001. Epub 2018 Mar 14.
  • Huang T, Phelps C, Wang J, Lin LJ, Bittel A, Scott Z, Jacques S, Gibbs SL, Gray JW, Nan X. (2018) Simultaneous Multicolor Single-Molecule Tracking with Single-Laser Excitation via Spectral Imaging. Biophys J. 114(2):301-310. doi: 10.1016/j.bpj.2017.11.013.
  • Jiao X, Velasco-Velázquez MA, Wang M, Li Z, Rui H, Peck AR, Korkola JE, Chen X, Xu S, DuHadaway JB, Guerrero-Rodriguez S, Addya S, Sicoli D, Mu Z, Zhang G, Stucky A, Zhang X, Cristofanilli M, Fatatis A, Gray JW, Zhong JF, Prendergast GC, Pestell RG. (2018) CCR5 Governs DNA Damage Repair and Breast Cancer Stem Cell Expansion. Cancer Res. 78(7):1657-1671. doi: 10.1158/0008-5472.CAN-17-0915. Epub 2018 Jan 22.
  • Rozanov DV, Rozanov ND, Chiotti KE, Reddy A, Wilmarth PA, David LL, Cha SW, Woo S, Pevzner P, Bafna V, Burrows GG, Rantala JK, Levin T, Anur P, Johnson-Camacho K, Tabatabaei S, Munson DJ, Bruno TC, Slansky JE, Kappler JW, Hirano N, Boegel S, Fox BA, Egelston C, Simons DL, Jimenez G, Lee PP, Gray JW, Spellman PT. (2018) MHC class I loaded ligands from breast cancer cell lines: A potential HLA-I-typed antigen collection. J Proteomics. 176:13-23. doi: 10.1016/j.jprot.2018.01.004. Epub 2018 Jan 10.
  • Keenan AB, Jenkins SL, Jagodnik KM, Koplev S, He E, Torre D, Wang Z, Dohlman AB, Silverstein MC, Lachmann A, Kuleshov MV, Ma'ayan A, Stathias V, Terryn R, Cooper D, Forlin M, Koleti A, Vidovic D, Chung C, Schürer SC, Vasiliauskas J, Pilarczyk M, Shamsaei B, Fazel M, Ren Y, Niu W, Clark NA, White S, Mahi N, Zhang L, Kouril M, Reichard JF, Sivaganesan S, Medvedovic M, Meller J, Koch RJ, Birtwistle MR, Iyengar R, Sobie EA, Azeloglu EU, Kaye J, Osterloh J, Haston K, Kalra J, Finkbiener S, Li J, Milani P, Adam M, Escalante-Chong R, Sachs K, Lenail A, Ramamoorthy D, Fraenkel E, Daigle G, Hussain U, Coye A, Rothstein J, Sareen D, Ornelas L, Banuelos M, Mandefro B, Ho R, Svendsen CN, Lim RG, Stocksdale J, Casale MS, Thompson TG, Wu J, Thompson LM, Dardov V, Venkatraman V, Matlock A, Van Eyk JE, Jaffe JD, Papanastasiou M, Subramanian A, Golub TR, Erickson SD, Fallahi-Sichani M, Hafner M, Gray NS, Lin JR, Mills CE, Muhlich JL, Niepel M, Shamu CE, Williams EH, Wrobel D, Sorger PK, Heiser LM, Gray JW, Korkola JE, Mills GB, LaBarge M, Feiler HS, Dane MA, Bucher E, Nederlof M, Sudar D, Gross S, Kilburn DF, Smith R, Devlin K, Margolis R, Derr L, Lee A, Pillai A. (2018) The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations. Cell Syst. 6(1):13-24. doi: 10.1016/j.cels.2017.11.001. Epub 2017 Nov 29.

  • Kwon S, Chin K, Nederlof M, Gray JW. (2017) Quantitative, in situ analysis of mRNAs and proteins with subcellular resolution. Sci Rep. 7(1):16459. doi: 10.1038/s41598-017-16492-1.
  • Hafner M, Heiser LM, Williams EH, Niepel M, Wang NJ, Korkola JE, Gray JW, Sorger PK. (2017) Quantification of sensitivity and resistance of breast cancer cell lines to anti-cancer drugs using GR metrics. Sci Data. 4:170166. doi: 10.1038/sdata.2017.166.
  • Brady SW, McQuerry JA, Qiao Y, Piccolo SR, Shrestha G, Jenkins DF, Layer RM, Pedersen BS, Miller RH, Esch A, Selitsky SR, Parker JS, Anderson LA, Dalley BK, Factor RE, Reddy CB, Boltax JP, Li DY, Moos PJ, Gray JW, Heiser LM, Buys SS, Cohen AL, Johnson WE, Quinlan AR, Marth G, Werner TL, Bild AH. (2017) Combating subclonal evolution of resistant cancer phenotypes. Nat Commun. 8(1):1231. doi: 10.1038/s41467-017-01174-3.
  • Young Hwan Chang, Tsujikawa T, Margolin A, Coussens LM, Gray JW. (2017) Multiplexed immunohistochemistry image analysis using sparse coding. Conf Proc IEEE Eng Med Biol Soc. 2017:4046-4049. doi: 10.1109/EMBC.2017.8037744.
  • Young Hwan Chang, Thibault G, Madin O, Azimi V, Meyers C, Johnson B, Link J, Margolin A, Gray JW. (2017) Deep learning based Nucleus Classification in pancreas histological images. 

    Conf Proc IEEE Eng Med Biol Soc. 2017:672-675. doi: 10.1109/EMBC.2017.8036914.

  • Hassan S, Esch A, Liby T, Gray JW, Heiser LM. (2017) Pathway-Enriched Gene Signature Associated with 53BP1 Response to PARP Inhibition in Triple-Negative Breast Cancer. Mol Cancer Ther. 16(12):2892-2901. doi: 10.1158/1535-7163.MCT-17-0170. Epub 2017 Sep 27.

  • Zhang Y, Huang T, Jorgens DM, Nickerson A, Lin LJ, Pelz J, Gray JW, López CS, Nan X. (2017) Quantitating morphological changes in biological samples during scanning electron microscopy sample preparation with correlative super-resolution microscopy. PLoS One. 12(5):e0176839. doi: 10.1371/journal.pone.0176839. eCollection 2017.

  • López CS, Bouchet-Marquis C, Arthur CP, Riesterer JL, Heiss G, Thibault G, Pullan L, Kwon S, Gray JW. (2017) A fully integrated, three-dimensional fluorescence to electron microscopy correlative workflow. Methods Cell Biol. 2017;140:149-164. doi: 10.1016/bs.mcb.2017.03.008. Epub 2017 Apr 19.

  • Xu X, De Angelis C, Burke KA, Nardone A, Hu H, Qin L, Veeraraghavan J, Sethunath V, Heiser LM, Wang N, Ng CKY, Chen ES, Renwick A, Wang T, Nanda S, Shea M, Mitchell T, Rajendran M, Waters I, Zabransky DJ, Scott KL, Gutierrez C, Nagi C, Geyer FC, Chamness GC, Park BH, Shaw CA, Hilsenbeck SG, Rimawi MF, Gray JW, Weigelt B, Reis-Filho JS, Osborne CK, Schiff R. (2017) HER2 Reactivation through Acquisition of the HER2 L755S Mutation as a Mechanism of Acquired Resistance to HER2-targeted Therapy in HER2+Breast Cancer. Clin Cancer Res. 23(17):5123-5134. doi: 10.1158/1078-0432.CCR-16-2191. Epub 2017 May 9.

  • Rahman M, MacNeil SM, Jenkins DF, Shrestha G, Wyatt SR, McQuerry JA, Piccolo SR, Heiser LM, Gray JW, Johnson WE, Bild AH. (2017) Activity of distinct growth factor receptor network components in breast tumors uncovers two biologically relevant subtypes. Genome Med. 9(1):40. doi: 10.1186/s13073-017-0429-x.

  • Tsujikawa T, Kumar S, Borkar RN, Azimi V, Thibault G, Chang YH, Balter A, Kawashima R, Choe G, Sauer D, El Rassi E, Clayburgh DR, Kulesz-Martin MF, Lutz ER, Zheng L, Jaffee EM, Leyshock P, Margolin AA, Mori M, Gray JW, Flint PW, Coussens LM. (2017) Quantitative Multiplex Immunohistochemistry Reveals Myeloid-Inflamed Tumor-Immune Complexity Associated with Poor Prognosis. Cell Rep. 19(1):203-217. doi: 10.1016/j.celrep.2017.03.037.

  • Azimi V, Chang YH, Thibault G, Smith J, Tsujikawa T, Kukull B, Jensen B, Corless C, Margolin A, Gray JW. (2017) Breast cancer histopathology image analysis pipeline for tumor purity estimation. Proc IEEE Int Symp Biomed Imaging. 2017:1137-1140. doi: 10.1109/ISBI.2017.7950717. Epub 2017 Jun 19.

  • Sears R, Gray JW. (2017) Epigenomic Inactivation of RasGAPs Activates RAS Signaling in a Subset of Luminal B Breast Cancers. Cancer Discov. (2):131-133. doi: 10.1158/2159-8290.CD-16-1423.

  • Morry J, Ngamcherdtrakul W, Gu S, Reda M, Castro DJ, Sangvanich T, Gray JW, Yantasee W. (2017) Targeted Treatment of Metastatic Breast Cancer by PLK1 siRNA Delivered by an Antioxidant Nanoparticle Platform. Mol Cancer Ther. 16(4):763-772. doi: 10.1158/1535-7163.MCT-16-0644. Epub 

  • Chang YH, Thibault G, Johnson B, Margolin A, Gray JW. (2017) Integrative Analysis on Histopathological Image for Identifying Cellular Heterogeneity. Proc SPIE Int Soc Opt Eng. 10140. pii: 101400T. doi: 10.1117/12.2250428. Epub 2017 Mar 1.

  • Gendelman R, Xing H, Mirzoeva OK, Sarde P, Curtis C, Feiler HS, McDonagh P, Gray JW, Khalil I, Korn WM. (2017) Bayesian Network Inference Modeling Identifies TRIB1 as a Novel Regulator of Cell-Cycle Progression and Survival in Cancer Cells. Cancer Res. 77(7):1575-1585. doi: 10.1158/0008-5472.CAN-16-0512. Epub 2017 Jan 13. 

  • Hill SM, Nesser NK, Johnson-Camacho K, Jeffress M, Johnson A, Boniface C, Spencer SE, Lu Y, Heiser LM, Lawrence Y, Pande NT, Korkola JE, Gray JW, Mills GB, Mukherjee S, Spellman PT. (2017) Context Specificity in Causal Signaling Networks Revealed by Phosphoprotein Profiling. Cell Syst. 2017 Jan 25;4(1):73-83.e10. doi: 10.1016/j.cels.2016.11.013. Epub 2016 Dec 22.

  • Chang YH, Dobbe R, Bhushan P, Gray JW, Tomlin CJ. (2016) Reconstruction of Gene Regulatory Networks based on Repairing Sparse Low-rank Matrices. IEEE/ACM Trans Comput Biol Bioinform. 13(4):767-777. Epub 2015 Aug 7.
  • Fu X, Jeselsohn R, Pereira R, Hollingsworth EF, Creighton CJ, Li F, Shea M, Nardone A, De Angelis C, Heiser LM, Anur P, Wang N, Grasso CS, Spellman PT, Griffith OL, Tsimelzon A, Gutierrez C, Huang S, Edwards DP, Trivedi MV, Rimawi MF, Lopez-Terrada D, Hilsenbeck SG, Gray JW, Brown M, Osborne CK, Schiff R. (2016) FOXA1 overexpression mediates endocrine resistance by altering the ER transcriptome and IL-8 expression in ER-positive breast cancer. Proc Natl Acad Sci USA. 113(43):E6600-E6609. Epub 2016 Oct 6.
  • Campbell MJ, Baehner F, O'Meara T, Ojukwu E, Han B, Mukhtar R, Tandon V, Endicott M, Zhu Z, Wong J, Krings G, Au A, Gray JW, Esserman L. (2016) Characterizing the immune microenvironment in high-risk ductal carcinoma in situ of the breast. Breast Cancer Res Treat. 161(1):17-28. doi: 10.1007/s10549-016-4036-0. Epub 2016 Oct 26.
  • Jacob T, Gray JW, Troxell M, Vu TQ. (2016) Multiplexed imaging reveals heterogeneity of PI3K/MAPK network signaling in breast lesions of known PIK3CA genotype. Breast Cancer Res Treat. 159(3):575-83. doi: 10.1007/s10549-016-3962-1. Epub 2016 Aug 31.
  • Gray JW. (2016) PI3 Kinase Pathway Mutations in Human Cancers. JAMA Oncol. 2016 Dec 1;2(12):1543-1544. doi: 10.1001/jamaoncol.2016.0875.
  • Hu Z, Mao JH, Curtis C, Huang G, Gu S, Heiser L, Lenburg ME, Korkola JE, Bayani N, Samarajiwa S, Seoane JA, Dane MA, Esch A, Feiler HS, Wang NJ, Hardwicke MA, Laquerre S, Jackson J, W Wood K, Weber B, Spellman PT, Aparicio S, Wooster R, Caldas C, Gray JW.
     (2016) Genome co-amplification upregulates a mitotic gene network activity that predicts outcome and response to mitotic protein inhibitors in breast cancer. Breast Cancer Res. 1;18(1):70. doi: 10.1186/s13058-016-0728-y. Erratum in: Breast Cancer Res. 2017 Feb 9;19(1):17.
  • Guest ST, Kratche ZR, Irish JC, Wilson RC, Haddad R, Gray JW, Garrett-Mayer E, Ethier SP. (2016) Functional oncogene signatures guide rationally designed combination therapies to synergistically induce breast cancer cell death. Oncotarget. 7(24):36138-36153. doi: 10.18632/oncotarget.9147.
  • Ngamcherdtrakul W, Castro DJ, Gu S, Morry J, Reda M, Gray JW, Yantasee W. (2016) Current development of targeted oligonucleotide-based cancer therapies: Perspective on HER2-positive breast cancer treatment. Cancer Treat Rev. 45:19-29. doi: 10.1016/j.ctrv.2016.02.005. Epub 2016 Feb 22. Review.
  • Hill SM, Heiser LM, Cokelaer T, Unger M, Nesser NK, Carlin DE, Zhang Y, Sokolov A, Paull EO, Wong CK, Graim K, Bivol A, Wang H, Zhu F, Afsari B, Danilova LV, Favorov AV, Lee WS, Taylor D, Hu CW, Long BL, Noren DP, Bisberg AJ; HPN-DREAM Consortium, Mills GB, Gray JW, Kellen M, Norman T, Friend S, Qutub AA, Fertig EJ, Guan Y, Song M, Stuart JM, Spellman PT, Koeppl H, Stolovitzky G, Saez-Rodriguez J, Mukherjee S. (2016) Inferring causal molecular networks: empirical assessment through a community-based effort. Nat Methods. (4):310-8. doi: 10.1038/nmeth.3773. Epub 2016 Feb 22.
  • Gu S, Hu Z, Ngamcherdtrakul W, Castro DJ, Morry J, Reda MM, Gray JW, Yantasee W. (2016) Therapeutic siRNA for drug-resistant HER2-positive breast cancer. Oncotarget. 7(12):14727-41. doi: 10.18632/oncotarget.7409.
  • Young Hwan Chang, Thibault G, Azimi V, Johnson B, Jorgens D, Link J, Margolin A, Gray JW. (2016) Quantitative analysis of histological tissue image based on cytological profiles and spatial statistics. Conf Proc IEEE Eng Med Biol Soc. 2016:1175-1178. doi: 10.1109/EMBC.2016.7590914.