Selected Member Publications

. SARC028 samples reveal an interplay between TGFβ, interferon signaling and low HLA class I expression as contributors to Ewing sarcoma checkpoint blockade resistance. Clin Cancer Res. 2025-07-08; doi: 10.1158/1078-0432.CCR-24-3882. nihFormattedCitation: Daley JD, Mukherjee E, Ferraro D, Bhaskar S, Green A, Meyer EM, Tawbi H, Burgess M, Bruno TC, Cillo AR, Bailey KM. SARC028 samples reveal an interplay between TGFβ, interferon signaling and low HLA class I expression as contributors to Ewing sarcoma checkpoint blockade resistance. Clin Cancer Res. 2025;.. PubMed PMID: 40627445.
. Multiomics identifies tumor-intrinsic SREBP1 driving immune exclusion in hepatocellular carcinoma. J Immunother Cancer. 2025-06-15;13(6): doi: 10.1136/jitc-2025-011537. nihFormattedCitation: Dadey RE, Li R, Griner J, Chen J, Singh A, Isett B, Newman S, Augustin R, Li A, Manning JA, Monga SP, Singhi A, Geller DAA, Krieg C, Zervantonakis IK, Luke JJ, Bao R. Multiomics identifies tumor-intrinsic SREBP1 driving immune exclusion in hepatocellular carcinoma. J Immunother Cancer. 2025;13(6).. PubMed PMID: 40518290.
. Aged and BRCA mutated stromal cells drive epithelial cell transformation. Cancer Discov. 2025-06-03; doi: 10.1158/2159-8290.CD-24-0805. nihFormattedCitation: Garcia GL, Orellana T, Gorecki G, Frisbie L, Baruwal R, Suresh S, Goldfeld E, Beddows I, MacFawn IP, Britt AK, Hale MM, Elhaw AT, Isett BR, Hempel N, Bao R, Shen H, Buckanovich RJ, Finkel T, Drapkin R, Soong TR, Bruno TC, Atiya HI, Coffman LG. Aged and BRCA mutated stromal cells drive epithelial cell transformation. Cancer Discov. 2025;. PMCID: PMC12130807.. PubMed PMID: 40084985; PMCID: PMC12130807.
. Precision targeting of β-catenin induces tumor reprogramming and immunity in hepatocellular cancers. Nat Commun. 2025-05-30;16(1):5009. doi: 10.1038/s41467-025-60457-2. nihFormattedCitation: Lehrich BM, Delgado ER, Yasaka TM, Liu S, Cao C, Liu Y, Taheri MN, Guan X, Koeppen H, Singh S, Meadows V, Liu JJ, Singh-Varma A, Krutsenko Y, Poddar M, Hitchens TK, Foley LM, Liang B, Rialdi A, Rai RP, Patel P, Riley M, Bell A, Raeman R, Dadali T, Luke JJ, Guccione E, Ebrahimkhani MR, Lujambio A, Chen X, Maier M, Wang Y, Broom W, Tao J, Monga SP. Precision targeting of β-catenin induces tumor reprogramming and immunity in hepatocellular cancers. Nat Commun. 2025;16(1):5009. PMCID: PMC12122713.. PubMed PMID: 40442146; PMCID: PMC12122713.
. Integrative characterization of MYC RNA-binding function. Cell Genom. 2025-05-13;100878. doi: 10.1016/j.xgen.2025.100878. nihFormattedCitation: Li S, Wang Z, Wang X, Wang Y, Pattarayan D, Zhang Y, Nguyen P, Bhuniya A, Chen Y, Huang H, Huang Y, Wang L, Wang J, Li S, Zhang M, Liu Y, Lee N, Yang D. Integrative characterization of MYC RNA-binding function. Cell Genom. 2025;:100878.. PubMed PMID: 40378850.
. Reply to: "Breast Cancer Screening Interval: Effects of Proportions and Biases on Benefits" and "Annual Versus Biennial Mammographic Screening". J Clin Oncol. 2025-03-01;JCO2402373. doi: 10.1200/JCO-24-02373. nihFormattedCitation: Zuley ML, Bandos AI, Duffy SW, Logue D, Bhargava R, McAuliffe PF, Brufsky AM, Nishikawa RM. Reply to: "Breast Cancer Screening Interval: Effects of Proportions and Biases on Benefits" and "Annual Versus Biennial Mammographic Screening". J Clin Oncol. 2025;:JCO2402373. PMCID: PMC11867873.. PubMed PMID: 39689268; PMCID: PMC11867873.
. Radiomic analysis of patient and interorgan heterogeneity in response to immunotherapies and BRAF-targeted therapy in metastatic melanoma. J Immunother Cancer. 2025-02-12;13(2): doi: 10.1136/jitc-2024-009568. nihFormattedCitation: Tompkins AG, Gray ZN, Dadey RE, Zenkin S, Batavani N, Newman S, Amouzegar A, Ak M, Ak N, Pak TY, Peddagangireddy V, Mamindla P, Amjadzadeh M, Behr S, Goodman A, Ploucha DL, Kirkwood JM, Zarour HM, Najjar YG, Davar D, Tatsuoka C, Colen RR, Luke JJ, Bao R. Radiomic analysis of patient and interorgan heterogeneity in response to immunotherapies and BRAF-targeted therapy in metastatic melanoma. J Immunother Cancer. 2025;13(2). PMCID: PMC11822426.. PubMed PMID: 39939139; PMCID: PMC11822426.
. Optimizing Ewing Sarcoma and Osteosarcoma Biopsy Acquisition: A Children's Oncology Group Bone Tumor Committee Consensus Statement. J Natl Compr Canc Netw. 2024-12-27;1-7. doi: 10.6004/jnccn.2024.7063. nihFormattedCitation: Dietz MS, Al-Ibraheemi A, Davis JL, Hawkins CM, Craig BT, Dasgupta R, Geller DS, Shulman DS, Cohen-Gogo S, Gupta A, Whiteway SL, Slotkin EK, Heske CM, Ahmed SK, Indelicato DJ, Albert CM, Montgomery N, Sandberg JK, Grier HE, Krailo M, Isakoff MS, Rubin E, Lawlor ER, DuBois SG, Mascarenhas L, Grohar PJ, Binitie O, Reed D, Janeway K, Roberts RD, Bailey KM. Optimizing Ewing Sarcoma and Osteosarcoma Biopsy Acquisition: A Children's Oncology Group Bone Tumor Committee Consensus Statement. J Natl Compr Canc Netw. 2024;:1-7. PMCID: PMC11881167.. PubMed PMID: 39729709; PMCID: PMC11881167.
. Lactate reprograms glioblastoma immunity through CBX3-regulated histone lactylation. J Clin Invest. 2024-11-15;134(22): doi: 10.1172/JCI176851. nihFormattedCitation: Wang S, Huang T, Wu Q, Yuan H, Wu X, Yuan F, Duan T, Taori S, Zhao Y, Snyder NW, Placantonakis DG, Rich JN. Lactate reprograms glioblastoma immunity through CBX3-regulated histone lactylation. J Clin Invest. 2024;134(22). PMCID: PMC11563687.. PubMed PMID: 39545414; PMCID: PMC11563687.
. Breast Cancer Screening Interval: Effect on Rate of Late-Stage Disease at Diagnosis and Overall Survival. J Clin Oncol. 2024-11-10;JCO2400285. doi: 10.1200/JCO.24.00285. nihFormattedCitation: Zuley ML, Bandos AI, Duffy SW, Logue D, Bhargava R, McAuliffe PF, Brufsky AM, Nishikawa RM. Breast Cancer Screening Interval: Effect on Rate of Late-Stage Disease at Diagnosis and Overall Survival. J Clin Oncol. 2024;:JCO2400285. PMCID: PMC11540751.. PubMed PMID: 39167740; PMCID: PMC11540751.
. Metabolic regulation of the glioblastoma stem cell epitranscriptome by malate dehydrogenase 2. Cell Metab. 2024-11-05; doi: 10.1016/j.cmet.2024.09.014. nihFormattedCitation: Lv D, Dixit D, Cruz AF, Kim LJY, Duan L, Xu X, Wu Q, Zhong C, Lu C, Gersey ZC, Gimple RC, Xie Q, Yang K, Liu X, Fang X, Wu X, Kidwell RL, Wang X, Bao S, He HH, Locasale JW, Agnihotri S, Rich JN. Metabolic regulation of the glioblastoma stem cell epitranscriptome by malate dehydrogenase 2. Cell Metab. 2024;. PMCID: PMC11726586.. PubMed PMID: 39454581; PMCID: PMC11726586.
. Changes in Reader Performance During Sequential Reading of Breast Cancer Screening Digital Breast Tomosynthesis Examinations. Radiology. 2024-11-01;313(2):e232885. doi: 10.1148/radiol.232885. nihFormattedCitation: Abbey CK, Bandos AI, Parthasarathy MK, Webster MA, Zuley ML. Changes in Reader Performance During Sequential Reading of Breast Cancer Screening Digital Breast Tomosynthesis Examinations. Radiology. 2024;313(2):e232885. PMCID: PMC11605108.. PubMed PMID: 39530892; PMCID: PMC11605108.
. Paracrine Ovarian Cancer Cell-Derived CSF1 Signaling Regulates Macrophage Migration Dynamics in a 3D Microfluidic Model that Recapitulates in vivo Infiltration Patterns in Patient-Derived Xenografts. Adv Healthc Mater. 2024-11-01;e2401719. doi: 10.1002/adhm.202401719. nihFormattedCitation: Scott AL, Jazwinska DE, Kulawiec DG, Zervantonakis IK. Paracrine Ovarian Cancer Cell-Derived CSF1 Signaling Regulates Macrophage Migration Dynamics in a 3D Microfluidic Model that Recapitulates in vivo Infiltration Patterns in Patient-Derived Xenografts. Adv Healthc Mater. 2024;:e2401719. PMCID: PMC11560735.. PubMed PMID: 38807270; PMCID: PMC11560735.
. Ten challenges and opportunities in computational immuno-oncology. J Immunother Cancer. 2024-10-26;12(10): doi: 10.1136/jitc-2024-009721. nihFormattedCitation: Bao R, Hutson A, Madabhushi A, Jonsson VD, Rosario SR, Barnholtz-Sloan JS, Fertig EJ, Marathe H, Harris L, Altreuter J, Chen Q, Dignam J, Gentles AJ, Gonzalez-Kozlova E, Gnjatic S, Kim E, Long M, Morgan M, Ruppin E, Valen DV, Zhang H, Vokes N, Meerzaman D, Liu S, Van Allen EM, Xing Y. Ten challenges and opportunities in computational immuno-oncology. J Immunother Cancer. 2024;12(10). PMCID: PMC11529678.. PubMed PMID: 39461879; PMCID: PMC11529678.
. The dark side of human hepatocyte plasticity. Gastroenterology. 2024-10-01; doi: 10.1053/j.gastro.2024.06.011. nihFormattedCitation: Ko S, Monga SP. The dark side of human hepatocyte plasticity. Gastroenterology. 2024;. PMCID: PMC11980431.. PubMed PMID: 38936779; PMCID: PMC11980431.
. Threonine fuels glioblastoma through YRDC-mediated codon-biased translational reprogramming. Nat Cancer. 2024-07-01; doi: 10.1038/s43018-024-00748-7. nihFormattedCitation: Wu X, Yuan H, Wu Q, Gao Y, Duan T, Yang K, Huang T, Wang S, Yuan F, Lee D, Taori S, Plute T, Heissel S, Alwaseem H, Isay-Del Viscio M, Molina H, Agnihotri S, Hsu DJ, Zhang N, Rich JN. Threonine fuels glioblastoma through YRDC-mediated codon-biased translational reprogramming. Nat Cancer. 2024;. PMCID: PMC11552442.. PubMed PMID: 38519786; PMCID: PMC11552442.
. Career trajectories of MD-PhD physician scientists: The loss of women investigators. Cancer Cell. 2024-05-13; doi: 10.1016/j.ccell.2024.04.006. nihFormattedCitation: Steinman RA, Gandy LM, Qi H, Fertig EJ, Blackford AL, Grandis JR. Career trajectories of MD-PhD physician scientists: The loss of women investigators. Cancer Cell. 2024;.. PubMed PMID: 38701793.
. Facts and hopes in using omics to advance combined immunotherapy strategies. Clin Cancer Res. 2024-05-01; doi: 10.1158/1078-0432.CCR-22-2241. nihFormattedCitation: Augustin RC, Cai WL, Luke JJ, Bao R. Facts and hopes in using omics to advance combined immunotherapy strategies. Clin Cancer Res. 2024;. PMCID: PMC11062841.. PubMed PMID: 38236069; PMCID: PMC11062841.
. Machine Learning Predicts Oxaliplatin Benefit in Early Colon Cancer. J Clin Oncol. 2024-05-01;JCO2301080. doi: 10.1200/JCO.23.01080. nihFormattedCitation: Chen L, Wang Y, Cai C, Ding Y, Kim RS, Lipchik C, Gavin PG, Yothers G, Allegra CJ, Petrelli NJ, Suga JM, Hopkins JO, Saito NG, Evans T, Jujjavarapu S, Wolmark N, Lucas PC, Paik S, Sun M, Pogue-Geile KL, Lu X. Machine Learning Predicts Oxaliplatin Benefit in Early Colon Cancer. J Clin Oncol. 2024;:JCO2301080. PMCID: PMC11095904.. PubMed PMID: 38315963; PMCID: PMC11095904.
. A Path to Persistence after EGFR Inhibition. Cancer Res. 2024-04-15;84(8):1188-1190. doi: 10.1158/0008-5472.CAN-24-0274. nihFormattedCitation: Rumde PH, Burns TF. A Path to Persistence after EGFR Inhibition. Cancer Res. 2024;84(8):1188-1190. PMCID: PMC11090642.. PubMed PMID: 38616658; PMCID: PMC11090642.
. Systematic investigation of chemo-immunotherapy synergism to shift anti-PD-1 resistance in cancer. Nat Commun. 2024-04-12;15(1):3178. doi: 10.1038/s41467-024-47433-y. nihFormattedCitation: Wang Y, Pattarayan D, Huang H, Zhao Y, Li S, Wang Y, Zhang M, Li S, Yang D. Systematic investigation of chemo-immunotherapy synergism to shift anti-PD-1 resistance in cancer. Nat Commun. 2024;15(1):3178. PMCID: PMC11015024.. PubMed PMID: 38609378; PMCID: PMC11015024.
. Addition of Contrast-enhanced Mammography to Tomosynthesis for Breast Cancer Detection in Women with a Personal History of Breast Cancer: Prospective TOCEM Trial Interim Analysis. Radiology. 2024-04-01;311(1):e231991. doi: 10.1148/radiol.231991. nihFormattedCitation: Berg WA, Berg JM, Bandos AI, Vargo A, Chough DM, Lu AH, Ganott MA, Kelly AE, Nair BE, Hartman JY, Waheed U, Hakim CM, Harnist KS, Reginella RF, Shinde DD, Carlin BA, Cohen CS, Wallace LP, Sumkin JH, Zuley ML. Addition of Contrast-enhanced Mammography to Tomosynthesis for Breast Cancer Detection in Women with a Personal History of Breast Cancer: Prospective TOCEM Trial Interim Analysis. Radiology. 2024;311(1):e231991. PMCID: PMC11070607.. PubMed PMID: 38687218; PMCID: PMC11070607.
. Therapeutic Hope on the Surface of Ewing Sarcoma. Clin Cancer Res. 2024-03-01; doi: 10.1158/1078-0432.CCR-23-3138. nihFormattedCitation: Bailey KM. Therapeutic Hope on the Surface of Ewing Sarcoma. Clin Cancer Res. 2024;. PMCID: PMC10922950.. PubMed PMID: 38113033; PMCID: PMC10922950.
. Lymphatic endothelial-like cells promote glioblastoma stem cell growth through cytokine-driven cholesterol metabolism. Nat Cancer. 2024-01-01; doi: 10.1038/s43018-023-00658-0. nihFormattedCitation: Zhao L, Qiu Z, Yang Z, Xu L, Pearce TM, Wu Q, Yang K, Li F, Saulnier O, Fei F, Yu H, Gimple RC, Varadharajan V, Liu J, Hendrikse LD, Fong V, Wang W, Zhang J, Lv D, Lee D, Lehrich BM, Jin C, Ouyang L, Dixit D, Wu H, Wang X, Sloan AE, Wang X, Huan T, Mark Brown J, Goldman SA, Taylor MD, Zhou S, Rich JN. Lymphatic endothelial-like cells promote glioblastoma stem cell growth through cytokine-driven cholesterol metabolism. Nat Cancer. 2024;.. PubMed PMID: 38172338.
. EGFR promotes ALKBH5 nuclear retention to attenuate N6-methyladenosine and protect against ferroptosis in glioblastoma. Mol Cell. 2023-12-07; doi: 10.1016/j.molcel.2023.10.025. nihFormattedCitation: Lv D, Zhong C, Dixit D, Yang K, Wu Q, Godugu B, Prager BC, Zhao G, Wang X, Xie Q, Bao S, He C, Heiland DH, Rosenfeld MG, Rich JN. EGFR promotes ALKBH5 nuclear retention to attenuate N6-methyladenosine and protect against ferroptosis in glioblastoma. Mol Cell. 2023;. PMCID: PMC10842222.. PubMed PMID: 37979586; PMCID: PMC10842222.
. Beyond matrix stiffness: targeting force-induced cancer drug resistance. Trends Cancer. 2023-11-01; doi: 10.1016/j.trecan.2023.07.006. nihFormattedCitation: Kalli M, Poskus MD, Stylianopoulos T, Zervantonakis IK. Beyond matrix stiffness: targeting force-induced cancer drug resistance. Trends Cancer. 2023;. PMCID: PMC10592424.. PubMed PMID: 37558577; PMCID: PMC10592424.
. Statins as a Secondary Preventive Agent for Metastatic Cancer. J Thorac Oncol. 2023-11-01;18(11):e125-e126. doi: 10.1016/j.jtho.2023.07.027. nihFormattedCitation: Marti JLG, Wells JZ, Wells A. Statins as a Secondary Preventive Agent for Metastatic Cancer. J Thorac Oncol. 2023;18(11):e125-e126.. PubMed PMID: 37879767.
. Identification of tumor-intrinsic drivers of immune exclusion in acral melanoma. J Immunother Cancer. 2023-10-01;11(10): doi: 10.1136/jitc-2023-007567. nihFormattedCitation: Augustin RC, Newman S, Li A, Joy M, Lyons M, Pham MP, Lucas P, Smith K, Sander C, Isett B, Davar D, Najjar YG, Zarour HM, Kirkwood JM, Luke JJ, Bao R. Identification of tumor-intrinsic drivers of immune exclusion in acral melanoma. J Immunother Cancer. 2023;11(10). PMCID: PMC10603348.. PubMed PMID: 37857525; PMCID: PMC10603348.
. The EstroGene Database Reveals Diverse Temporal, Context-Dependent, and Bidirectional Estrogen Receptor Regulomes in Breast Cancer. Cancer Res. 2023-08-15;83(16):2656-2674. doi: 10.1158/0008-5472.CAN-23-0539. nihFormattedCitation: Li Z, Li T, Yates ME, Wu Y, Ferber A, Chen L, Brown DD, Carroll JS, Sikora MJ, Tseng GC, Oesterreich S, Lee AV. The EstroGene Database Reveals Diverse Temporal, Context-Dependent, and Bidirectional Estrogen Receptor Regulomes in Breast Cancer. Cancer Res. 2023;83(16):2656-2674. PMCID: PMC10527051.. PubMed PMID: 37272757; PMCID: PMC10527051.
. Quiescent Ovarian Cancer Cells Secrete Follistatin to Induce Chemotherapy Resistance in Surrounding Cells in Response to Chemotherapy. Clin Cancer Res. 2023-05-15;29(10):1969-1983. doi: 10.1158/1078-0432.CCR-22-2254. nihFormattedCitation: Cole AJ, Panesso-Gómez S, Shah JS, Ebai T, Jiang Q, Gumusoglu-Acar E, Bello MG, Vlad A, Modugno F, Edwards RP, Buckanovich RJ. Quiescent Ovarian Cancer Cells Secrete Follistatin to Induce Chemotherapy Resistance in Surrounding Cells in Response to Chemotherapy. Clin Cancer Res. 2023;29(10):1969-1983. PMCID: PMC10192102.. PubMed PMID: 36795892; PMCID: PMC10192102.
. Lysine catabolism reprograms tumour immunity through histone crotonylation. Nature. 2023-05-01;617(7962):818-826. doi: 10.1038/s41586-023-06061-0. nihFormattedCitation: Yuan H, Wu X, Wu Q, Chatoff A, Megill E, Gao J, Huang T, Duan T, Yang K, Jin C, Yuan F, Wang S, Zhao L, Zinn PO, Abdullah KG, Zhao Y, Snyder NW, Rich JN. Lysine catabolism reprograms tumour immunity through histone crotonylation. Nature. 2023;617(7962):818-826. PMCID: PMC11089809.. PubMed PMID: 37198486; PMCID: PMC11089809.
. Growth factor receptor signaling induces mitophagy through epitranscriptomic regulation. Autophagy. 2023-03-01;19(3):1034-1035. doi: 10.1080/15548627.2022.2114765. nihFormattedCitation: Lv D, Yang K, Rich JN. Growth factor receptor signaling induces mitophagy through epitranscriptomic regulation. Autophagy. 2023;19(3):1034-1035. PMCID: PMC9980508.. PubMed PMID: 35980802; PMCID: PMC9980508.
. High-Throughput Cellular Heterogeneity Analysis in Cell Migration at the Single-Cell Level. Small. 2023-02-01;19(6):e2206754. doi: 10.1002/smll.202206754. nihFormattedCitation: Zhou M, Ma Y, Chiang CC, Rock EC, Luker KE, Luker GD, Chen YC. High-Throughput Cellular Heterogeneity Analysis in Cell Migration at the Single-Cell Level. Small. 2023;19(6):e2206754. PMCID: PMC9908848.. PubMed PMID: 36449634; PMCID: PMC9908848.
. Superenhancer activation of KLHDC8A drives glioma ciliation and hedgehog signaling. J Clin Invest. 2023-01-17;133(2): doi: 10.1172/JCI163592. nihFormattedCitation: Lee D, Gimple RC, Wu X, Prager BC, Qiu Z, Wu Q, Daggubati V, Mariappan A, Gopalakrishnan J, Sarkisian MR, Raleigh DR, Rich JN. Superenhancer activation of KLHDC8A drives glioma ciliation and hedgehog signaling. J Clin Invest. 2023;133(2). PMCID: PMC9843063.. PubMed PMID: 36394953; PMCID: PMC9843063.
. The Great Immune Escape: Understanding the Divergent Immune Response in Breast Cancer Subtypes. Cancer Discov. 2023-01-09;13(1):23-40. doi: 10.1158/2159-8290.CD-22-0475. nihFormattedCitation: Onkar SS, Carleton NM, Lucas PC, Bruno TC, Lee AV, Vignali DAA, Oesterreich S. The Great Immune Escape: Understanding the Divergent Immune Response in Breast Cancer Subtypes. Cancer Discov. 2023;13(1):23-40. PMCID: PMC9833841.. PubMed PMID: 36620880; PMCID: PMC9833841.
. Prospective, Multi-Institutional, Real-Time Next-Generation Sequencing of Pancreatic Cyst Fluid Reveals Diverse Genomic Alterations That Improve the Clinical Management of Pancreatic Cysts. Gastroenterology. 2023-01-01;164(1):117-133.e7. doi: 10.1053/j.gastro.2022.09.028. nihFormattedCitation: Paniccia A, Polanco PM, Boone BA, Wald AI, McGrath K, Brand RE, Khalid A, Kubiliun N, O'Broin-Lennon AM, Park WG, Klapman J, Tharian B, Inamdar S, Fasanella K, Nasr J, Chennat J, Das R, DeWitt J, Easler JJ, Bick B, Singh H, Fairley KJ, Sarkaria S, Sawas T, Skef W, Slivka A, Tavakkoli A, Thakkar S, Kim V, Vanderveldt HD, Richardson A, Wallace MB, Brahmbhatt B, Engels M, Gabbert C, Dugum M, El-Dika S, Bhat Y, Ramrakhiani S, Bakis G, Rolshud D, Millspaugh G, Tielleman T, Schmidt C, Mansour J, Marsh W, Ongchin M, Centeno B, Monaco SE, Ohori NP, Lajara S, Thompson ED, Hruban RH, Bell PD, Smith K, Permuth JB, Vandenbussche C, Ernst W, Grupillo M, Kaya C, Hogg M, He J, Wolfgang CL, Lee KK, Zeh H, Zureikat A, Nikiforova MN, Singhi AD. Prospective, Multi-Institutional, Real-Time Next-Generation Sequencing of Pancreatic Cyst Fluid Reveals Diverse Genomic Alterations That Improve the Clinical Management of Pancreatic Cysts. Gastroenterology. 2023;164(1):117-133.e7. PMCID: PMC9844531.. PubMed PMID: 36209796; PMCID: PMC9844531.
. Endometriosis-Associated Mesenchymal Stem Cells Support Ovarian Clear Cell Carcinoma through Iron Regulation. Cancer Res. 2022-12-16;82(24):4680-4693. doi: 10.1158/0008-5472.CAN-22-1294. nihFormattedCitation: Atiya HI, Frisbie L, Goldfeld E, Orellana T, Donnellan N, Modugno F, Calderon M, Watkins S, Zhang R, Elishaev E, Soong TR, Vlad A, Coffman L. Endometriosis-Associated Mesenchymal Stem Cells Support Ovarian Clear Cell Carcinoma through Iron Regulation. Cancer Res. 2022;82(24):4680-4693. PMCID: PMC9755968.. PubMed PMID: 36219681; PMCID: PMC9755968.
. Genome-wide gain-of-function screening characterized lncRNA regulators for tumor immune response. Sci Adv. 2022-12-09;8(49):eadd0005. doi: 10.1126/sciadv.add0005. nihFormattedCitation: Wang Y, Zhao Y, Guo W, Yadav GS, Bhaskarla C, Wang Z, Wang X, Li S, Wang Y, Chen Y, Pattarayan D, Xie W, Li S, Lu B, Kammula US, Zhang M, Yang D. Genome-wide gain-of-function screening characterized lncRNA regulators for tumor immune response. Sci Adv. 2022;8(49):eadd0005. PMCID: PMC9728976.. PubMed PMID: 36475797; PMCID: PMC9728976.
. The Great Immune Escape: Understanding the Divergent Immune Response in Breast Cancer Subtypes. Cancer Discov. 2022-12-06;OF1-OF18. doi: 10.1158/2159-8290.CD-22-0475. nihFormattedCitation: Onkar SS, Carleton NM, Lucas PC, Bruno TC, Lee AV, Vignali DAA, Oesterreich S. The Great Immune Escape: Understanding the Divergent Immune Response in Breast Cancer Subtypes. Cancer Discov. 2022;:OF1-OF18.. PubMed PMID: 36473061.
. Ewing Sarcoma and Osteosarcoma Have Distinct Immune Signatures and Intercellular Communication Networks. Clin Cancer Res. 2022-11-14;28(22):4968-4982. doi: 10.1158/1078-0432.CCR-22-1471. nihFormattedCitation: Cillo AR, Mukherjee E, Bailey NG, Onkar S, Daley J, Salgado C, Li X, Liu D, Ranganathan S, Burgess M, Sembrat J, Weiss K, Watters R, Bruno TC, Vignali DAA, Bailey KM. Ewing Sarcoma and Osteosarcoma Have Distinct Immune Signatures and Intercellular Communication Networks. Clin Cancer Res. 2022;28(22):4968-4982. PMCID: PMC9669190.. PubMed PMID: 36074145; PMCID: PMC9669190.
. Interpretable deep learning for chromatin-informed inference of transcriptional programs driven by somatic alterations across cancers. Nucleic Acids Res. 2022-10-28;50(19):10869-10881. doi: 10.1093/nar/gkac881. nihFormattedCitation: Tao Y, Ma X, Palmer D, Schwartz R, Lu X, Osmanbeyoglu HU. Interpretable deep learning for chromatin-informed inference of transcriptional programs driven by somatic alterations across cancers. Nucleic Acids Res. 2022;50(19):10869-10881. PMCID: PMC9638905.. PubMed PMID: 36243974; PMCID: PMC9638905.
. Single-cell spatial transcriptomics reveals a dynamic control of metabolic zonation and liver regeneration by endothelial cell Wnt2 and Wnt9b. Cell Rep Med. 2022-10-18;3(10):100754. doi: 10.1016/j.xcrm.2022.100754. nihFormattedCitation: Hu S, Liu S, Bian Y, Poddar M, Singh S, Cao C, McGaughey J, Bell A, Blazer LL, Adams JJ, Sidhu SS, Angers S, Monga SP. Single-cell spatial transcriptomics reveals a dynamic control of metabolic zonation and liver regeneration by endothelial cell Wnt2 and Wnt9b. Cell Rep Med. 2022;3(10):100754. PMCID: PMC9588996.. PubMed PMID: 36220068; PMCID: PMC9588996.
. A Druggable Rheostat for Ewing Sarcoma? Clin Cancer Res. 2022-10-14;28(20):4360-4362. doi: 10.1158/1078-0432.CCR-22-1794. nihFormattedCitation: Weiss KR, Bailey KM. A Druggable Rheostat for Ewing Sarcoma? Clin Cancer Res. 2022;28(20):4360-4362. PMCID: PMC9588653.. PubMed PMID: 35921177; PMCID: PMC9588653.
. Brain cancer stem cells: resilience through adaptive plasticity and hierarchical heterogeneity. Nat Rev Cancer. 2022-09-01;22(9):497-514. doi: 10.1038/s41568-022-00486-x. nihFormattedCitation: Gimple RC, Yang K, Halbert ME, Agnihotri S, Rich JN. Brain cancer stem cells: resilience through adaptive plasticity and hierarchical heterogeneity. Nat Rev Cancer. 2022;22(9):497-514.. PubMed PMID: 35710946.
. HuR-dependent SOD2 protein synthesis is an early adaptation to anchorage-independence. Redox Biol. 2022-07-01;53102329. doi: 10.1016/j.redox.2022.102329. nihFormattedCitation: Kim YS, Tang PW, Welles JE, Pan W, Javed Z, Elhaw AT, Mythreye K, Kimball SR, Hempel N. HuR-dependent SOD2 protein synthesis is an early adaptation to anchorage-independence. Redox Biol. 2022;53:102329. PMCID: PMC9121325.. PubMed PMID: 35594792; PMCID: PMC9121325.
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