Publications

Chakravarty D, Sboner A, Nair SS, Giannopoulou E, Li R, Hennig S, Mosquera JMiguel, Pauwels J, Park K, Kossai M et al..  2014.  The oestrogen receptor alpha-regulated lncRNA NEAT1 is a critical modulator of prostate cancer.. Nat Commun. 5:5383.

Chan CS, Elemento O, Tavazoie S.  2005.  Revealing posttranscriptional regulatory elements through network-level conservation.. PLoS Comput Biol. 1(7):e69.

Chang C-Y, H Pasolli A, Giannopoulou EG, Guasch G, Gronostajski RM, Elemento O, Fuchs E.  2013.  NFIB is a governor of epithelial-melanocyte stem cell behaviour in a shared niche.. Nature. 495(7439):98-102.

Chang S-H, Lu Y-C, Li X, Hsieh W-Y, Xiong Y, Ghosh M, Evans T, Elemento O, Hla T.  2013.  Antagonistic function of the RNA-binding protein HuR and miR-200b in post-transcriptional regulation of vascular endothelial growth factor-A expression and angiogenesis.. J Biol Chem. 288(7):4908-21.

Chang S-H, Elemento O, Zhang J, Zhuang ZW, Simons M, Hla T.  2014.  ELAVL1 regulates alternative splicing of eIF4E transporter to promote postnatal angiogenesis.. Proc Natl Acad Sci U S A. 111(51):18309-14.

Charilaou P, Mohapatra S, Doukas S, Kohli M, Radadiya D, Devani K, Broder A, Elemento O, Lukin DJ, Battat R.  2023.  Predicting inpatient mortality in patients with inflammatory bowel disease: A machine learning approach.. J Gastroenterol Hepatol. 38(2):241-250.

Chatterjee SS, Linares JF, Cid-Diaz T, Duran A, Khan MImran K, Osrodek M, Brady NJ, Reina-Campos M, Marzio A, Venkadakrishnan VBalaji et al..  2024.  Increased translation driven by non-canonical EZH2 creates a synthetic vulnerability in enzalutamide-resistant prostate cancer.. Nat Commun. 15(1):9755.

Chaudhri VK, Salzler GG, Dick SA, Buckman MS, Sordella R, Karoly ED, Mohney R, Stiles BM, Elemento O, Altorki NK et al..  2013.  Metabolic alterations in lung cancer-associated fibroblasts correlated with increased glycolytic metabolism of the tumor.. Mol Cancer Res. 11(6):579-92.

Chaudhry F, Kim TWan, Elemento O, Betel D.  2024.  Machine learning analysis of population-wide plasma proteins identifies hormonal biomarkers of Parkinson's Disease.. medRxiv.

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.

Chen HJoyce, Gardner EE, Shah Y, Zhang K, Thakur A, Zhang C, Elemento O, Varmus H.  2025.  Metastatic small cell lung cancer arises from TP53/RB1-deficient and MYC overproduction hESC-derived PNECs.. Elife. 13

Chen HJoyce, Poran A, Unni AM, Huang SXuelian, Elemento O, Snoeck H-W, Varmus H.  2019.  Generation of pulmonary neuroendocrine cells and SCLC-like tumors from human embryonic stem cells.. J Exp Med. 216(3):674-687.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.