Publications

Cyrta J, Rosiene J, Bareja R, Kudman S, Zoughbi WAl, Motanagh S, Wilkes DC, Eng K, Zhang T, Sticca E et al..  2022.  Whole-genome characterization of myoepithelial carcinomas of the soft tissue.. Cold Spring Harb Mol Case Stud. 8(7)

Curchoe CLynn, Malmsten J, Bormann C, Shafiee H, Farias AFlores-Sai, Mendizabal G, Chavez-Badiola A, Sigaras A, Alshubbar H, Chambost J et al..  2020.  Predictive modeling in reproductive medicine: Where will the future of artificial intelligence research take us? Fertil Steril. 114(5):934-940.

Cuppen E, Elemento O, Rosenquist R, Nikic S, IJzerman M, Zaleski IDurand, Frederix G, Levin L-Å, Mullighan CG, Buettner R et al..  2022.  Implementation of Whole-Genome and Transcriptome Sequencing Into Clinical Cancer Care.. JCO Precis Oncol. 6:e2200245.

Culjkovic-Kraljacic B, Fernando TM, Marullo R, Calvo-Vidal N, Verma A, Yang SN, Tabbò F, Gaudiano M, Zahreddine H, Goldstein RL et al..  2016.  Combinatorial targeting of nuclear export and translation of RNA inhibits aggressive B-cell lymphomas.. Blood. 127(7):858-68.

Crowley MJP, Scognamiglio T, Liu Y-F, Kleiman DA, Beninato T, Aronova A, Liu H, Jhanwar YS, Molina A, Tagawa ST et al..  2016.  Prostate-Specific Membrane Antigen Is a Potential Antiangiogenic Target in Adrenocortical Carcinoma.. J Clin Endocrinol Metab. 101(3):981-7.

Crowley MJP, Bhinder B, Markowitz GJ, Martin M, Verma A, Sandoval TA, Chae C-S, Yomtoubian S, Hu Y, Chopra S et al..  2023.  Tumor-intrinsic IRE1α signaling controls protective immunity in lung cancer.. Nat Commun. 14(1):120.

Croker JA, Patel R, Campbell KS, Barton-Baxter M, Wallet S, Firestein GS, Kimberly RP, Elemento O.  2021.  Building biorepositories in the midst of a pandemic.. J Clin Transl Sci. 5(1):e92.

Cox N, Crozet L, Holtman IR, Loyher P-L, Lazarov T, White JB, Mass E, E Stanley R, Elemento O, Glass CK et al..  2021.  Diet-regulated production of PDGFcc by macrophages controls energy storage.. Science. 373(6550)

Courtiol P, Maussion C, Moarii M, Pronier E, Pilcer S, Sefta M, Manceron P, Toldo S, Zaslavskiy M, Le Stang N et al..  2019.  Deep learning-based classification of mesothelioma improves prediction of patient outcome.. Nat Med. 25(10):1519-1525.

Conteduca V, Ku S-Y, Puca L, Slade M, Fernandez L, Hess J, Bareja R, Vlachostergios PJ, Sigouros M, Mosquera JMiguel et al..  2020.  SLFN11 Expression in Advanced Prostate Cancer and Response to Platinum-based Chemotherapy.. Mol Cancer Ther. 19(5):1157-1164.

Conteduca V, Oromendia C, Eng KW, Bareja R, Sigouros M, Molina A, Faltas BM, Sboner A, Mosquera JMiguel, Elemento O et al..  2019.  Clinical features of neuroendocrine prostate cancer.. Eur J Cancer. 121:7-18.

Claridge SE, Nath S, Baum A, Farias R, Cavallo J-A, Rizvi NM, De Boni L, Park E, Granados GLara, Hauesgen M et al..  2025.  Functional genomics pipeline identifies CRL4 inhibition for the treatment of ovarian cancer.. Clin Transl Med. 15(2):e70078.

Circosta P, Elia ARita, Landra I, Machiorlatti R, Todaro M, Aliberti S, Brusa D, Deaglio S, Chiaretti S, Bruna R et al..  2018.  Tailoring CD19xCD3-DART exposure enhances T-cells to eradication of B-cell neoplasms.. Oncoimmunology. 7(4):e1341032.

Ciani Y, Fedrizzi T, Prandi D, Lorenzin F, Locallo A, Gasperini P, Franceschini GMarco, Benelli M, Elemento O, Fava LL et al..  2022.  Allele-specific genomic data elucidate the role of somatic gain and copy-number neutral loss of heterozygosity in cancer.. Cell Syst. 13(2):183-193.e7.

Ci W, Polo JM, Cerchietti L, Shaknovich R, Wang L, Yang SNing, Ye K, Farinha P, Horsman DE, Gascoyne RD et al..  2009.  The BCL6 transcriptional program features repression of multiple oncogenes in primary B cells and is deregulated in DLBCL.. Blood. 113(22):5536-48.

Chu C-S, Hellmuth JC, Singh R, Ying H-Y, Skrabanek L, Teater MR, Doane AS, Elemento O, Melnick AM, Roeder RG.  2020.  Unique Immune Cell Coactivators Specify Locus Control Region Function and Cell Stage.. Mol Cell. 80(5):845-861.e10.

Choi S, Wang D, Chen X, Tang LH, Verma A, Chen Z, Kim BJung, Selesner L, Robzyk K, Zhang G et al..  2019.  Function and clinical relevance of RHAMM isoforms in pancreatic tumor progression.. Mol Cancer. 18(1):92.

Choi H, Sheng J, Gao D, Li F, Durrans A, Ryu S, Lee SB, Narula N, Rafii S, Elemento O et al..  2015.  Transcriptome analysis of individual stromal cell populations identifies stroma-tumor crosstalk in mouse lung cancer model.. Cell Rep. 10(7):1187-201.

Choi S, Whitman MA, Shimpi AA, Sempertegui ND, Chiou AE, Druso JE, Verma A, Lux SC, Cheng Z, Paszek M et al..  2023.  Bone-matrix mineralization dampens integrin-mediated mechanosignalling and metastatic progression in breast cancer.. Nat Biomed Eng. 7(11):1455-1472.

Chiron D, Di Liberto M, Martin P, Huang X, Sharman J, Blecua P, Mathew S, Vijay P, Eng K, Ali S et al..  2014.  Cell-cycle reprogramming for PI3K inhibition overrides a relapse-specific C481S BTK mutation revealed by longitudinal functional genomics in mantle cell lymphoma.. Cancer Discov. 4(9):1022-35.

Chiaretti S, Messina M, Grammatico S, Piciocchi A, Fedullo AL, Di Giacomo F, Peragine N, Gianfelici V, Lauretti A, Bareja R et al..  2018.  Rapid identification of BCR/ABL1-like acute lymphoblastic leukaemia patients using a predictive statistical model based on quantitative real time-polymerase chain reaction: clinical, prognostic and therapeutic implications.. Br J Haematol. 181(5):642-652.

Cheong J-G, Ravishankar A, Sharma S, Parkhurst CN, Grassmann SA, Wingert CK, Laurent P, Ma S, Paddock L, Miranda IC et al..  2023.  Epigenetic memory of coronavirus infection in innate immune cells and their progenitors.. Cell. 186(18):3882-3902.e24.

Cheng APellan, Rusinek I, Sossin A, Widman AJ, Meiri E, Krieger G, Hirschberg O, Tov DShem, Gilad S, Jaimovich A et al..  2025.  Paired plus-minus sequencing is an ultra-high throughput and accurate method for dual strand sequencing of DNA molecules.. bioRxiv.

Cheng APellan, Widman AJ, Arora A, Rusinek I, Sossin A, Rajagopalan S, Midler N, Hooper WF, Murray RM, Halmos D et al..  2025.  Error-corrected flow-based sequencing at whole-genome scale and its application to circulating cell-free DNA profiling.. Nat Methods. 22(5):973-981.

Chen HJoyce, Gardner EE, Shah Y, Zhang K, Thakur A, Zhang C, Elemento O, Varmus H.  2024.  FORMATION OF MALIGNANT, METASTATIC SMALL CELL LUNG CANCERS THROUGH OVERPRODUCTION OF cMYC PROTEIN IN TP53 AND RB1 DEPLETED PULMONARY NEUROENDOCRINE CELLS DERIVED FROM HUMAN EMBRYONIC STEM CELLS.. bioRxiv.