Olivier Elemento

Institute for Computational Biomedicine, Weill Cornell Medical College

Affiliated withWeill Cornell Medical College Englander Institute for Precision Medicine, Weill Cornell Medicine Institute for Computational Biomedicine, Weill Cornell Medicine

Research Area

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JoVE Journal Publications

ArticleTotal : 3	Year
Publication title Cited by 19	2015
Publication title Cited by 9	2017
Publication title	2026

Other Publications

Article	Year
Reconstructing the duplication history of tandemly repeated genes. Molecular biology and evolution\| PubMed ID: 11861887	2002
An efficient and accurate distance based algorithm to reconstruct tandem duplication trees. Bioinformatics (Oxford, England)\| PubMed ID: 12385990	2002
IMGT/PhyloGene: an on-line tool for comparative analysis of immunoglobulin and T cell receptor genes. Developmental and comparative immunology\| PubMed ID: 12818634	2003
Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach. Genome biology\| PubMed ID: 15693947	2005
Revealing posttranscriptional regulatory elements through network-level conservation. PLoS computational biology\| PubMed ID: 16355253	2005
Ab initio genotype-phenotype association reveals intrinsic modularity in genetic networks. Molecular systems biology\| PubMed ID: 16732191	2006
Unmasking activation of the zygotic genome using chromosomal deletions in the Drosophila embryo. PLoS biology\| PubMed ID: 17456005	2007
Developing a systems-level understanding of gene expression. Genome biology\| PubMed ID: 17472736	2007
A universal framework for regulatory element discovery across all genomes and data types. Molecular cell\| PubMed ID: 17964271	2007
Fastcompare: a nonalignment approach for genome-scale discovery of DNA and mRNA regulatory elements using network-level conservation. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 17993685	2007
let-7 Overexpression leads to an increased fraction of cells in G2/M, direct down-regulation of Cdc34, and stabilization of Wee1 kinase in primary fibroblasts. The Journal of biological chemistry\| PubMed ID: 19126550	2009
The BCL6 transcriptional program features repression of multiple oncogenes in primary B cells and is deregulated in DLBCL. Blood\| PubMed ID: 19307668	2009
Coupling of zygotic transcription to mitotic control at the Drosophila mid-blastula transition. Development (Cambridge, England)\| PubMed ID: 19465600	2009
DISPARE: DIScriminative PAttern REfinement for Position Weight Matrices. BMC bioinformatics\| PubMed ID: 19941641	2009
Revealing global regulatory perturbations across human cancers. Molecular cell\| PubMed ID: 20005852	2009
DNA methylation signatures define molecular subtypes of diffuse large B-cell lymphoma. Blood\| PubMed ID: 20610814	2010
EZH2-mediated epigenetic silencing in germinal center B cells contributes to proliferation and lymphomagenesis. Blood\| PubMed ID: 20736451	2010
Identification and genome-wide prediction of DNA binding specificities for the ApiAP2 family of regulators from the malaria parasite. PLoS pathogens\| PubMed ID: 21060817	2010
Mutations in FLVCR1 cause posterior column ataxia and retinitis pigmentosa. American journal of human genetics\| PubMed ID: 21070897	2010
Large-scale discovery and characterization of protein regulatory motifs in eukaryotes. PloS one\| PubMed ID: 21206902	2010
An integrated ChIP-seq analysis platform with customizable workflows. BMC bioinformatics\| PubMed ID: 21736739	2011
DNA methyltransferase 1 and DNA methylation patterning contribute to germinal center B-cell differentiation. Blood\| PubMed ID: 21828137	2011
Using transcriptome sequencing to identify mechanisms of drug action and resistance. Nature chemical biology\| PubMed ID: 22327403	2012
A panel of four miRNAs accurately differentiates malignant from benign indeterminate thyroid lesions on fine needle aspiration. Clinical cancer research : an official journal of the American Association for Cancer Research\| PubMed ID: 22351693	2012
Faster sequencers, larger datasets, new challenges. Genome biology\| PubMed ID: 22452984	2012
Calcimimetics versus parathyroidectomy for treatment of primary hyperparathyroidism: retrospective chart analysis of a prospective database. Annals of surgery\| PubMed ID: 22470074	2012
Identification of functionally active, low frequency copy number variants at 15q21.3 and 12q21.31 associated with prostate cancer risk. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 22496589	2012
Concordant signaling pathways produced by pesticide exposure in mice correspond to pathways identified in human Parkinson's disease. PloS one\| PubMed ID: 22563483	2012
Comprehensive analysis of mRNA methylation reveals enrichment in 3' UTRs and near stop codons. Cell\| PubMed ID: 22608085	2012
Oncogene-mediated alterations in chromatin conformation. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 22615383	2012
Genome-wide detection of genes targeted by non-Ig somatic hypermutation in lymphoma. PloS one\| PubMed ID: 22808135	2012
Oncogenic transcription factors as master regulators of chromatin topology: a new role for ERG in prostate cancer. Cell cycle (Georgetown, Tex.)\| PubMed ID: 22918253	2012
Efficient direct reprogramming of mature amniotic cells into endothelial cells by ETS factors and TGFβ suppression. Cell\| PubMed ID: 23084400	2012
Integrative epigenomic analysis identifies biomarkers and therapeutic targets in adult B-acute lymphoblastic leukemia. Cancer discovery\| PubMed ID: 23107779	2012
Human ESC-derived hemogenic endothelial cells undergo distinct waves of endothelial to hematopoietic transition. Blood\| PubMed ID: 23169780	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. The Journal of biological chemistry\| PubMed ID: 23223443	2013
Epigenetic repression of miR-31 disrupts androgen receptor homeostasis and contributes to prostate cancer progression. Cancer research\| PubMed ID: 23233736	2013
Aberration in DNA methylation in B-cell lymphomas has a complex origin and increases with disease severity. PLoS genetics\| PubMed ID: 23326238	2013
NFIB is a governor of epithelial-melanocyte stem cell behaviour in a shared niche. Nature\| PubMed ID: 23389444	2013
Metabolic alterations in lung cancer-associated fibroblasts correlated with increased glycolytic metabolism of the tumor. Molecular cancer research : MCR\| PubMed ID: 23475953	2013
Inferring chromatin-bound protein complexes from genome-wide binding assays. Genome research\| PubMed ID: 23554462	2013
Epigenomic alterations in localized and advanced prostate cancer. Neoplasia (New York, N.Y.)\| PubMed ID: 23555183	2013
Downregulation of FOXP1 is required during germinal center B-cell function. Blood\| PubMed ID: 23580662	2013
Punctuated evolution of prostate cancer genomes. Cell\| PubMed ID: 23622249	2013
A novel approach for characterizing microsatellite instability in cancer cells. PloS one\| PubMed ID: 23671654	2013
EZH2 is required for germinal center formation and somatic EZH2 mutations promote lymphoid transformation. Cancer cell\| PubMed ID: 23680150	2013
AID stabilizes stem-cell phenotype by removing epigenetic memory of pluripotency genes. Nature\| PubMed ID: 23803762	2013
A stable transcription factor complex nucleated by oligomeric AML1-ETO controls leukaemogenesis. Nature\| PubMed ID: 23812588	2013
The fat mass and obesity associated gene (Fto) regulates activity of the dopaminergic midbrain circuitry. Nature neuroscience\| PubMed ID: 23817550	2013
Molecular signatures of tissue-specific microvascular endothelial cell heterogeneity in organ maintenance and regeneration. Developmental cell\| PubMed ID: 23871589	2013
A hybrid mechanism of action for BCL6 in B cells defined by formation of functionally distinct complexes at enhancers and promoters. Cell reports\| PubMed ID: 23911289	2013
Akt suppression of TGFβ signaling contributes to the maintenance of vascular identity in embryonic stem cell-derived endothelial cells. Stem cells (Dayton, Ohio)\| PubMed ID: 23963623	2014
Synergistic activation of inflammatory cytokine genes by interferon-γ-induced chromatin remodeling and toll-like receptor signaling. Immunity\| PubMed ID: 24012417	2013
EZH2 mutations are frequent and represent an early event in follicular lymphoma. Blood\| PubMed ID: 24052547	2013
Genetic regulation of vesiculogenesis and immunomodulation in Mycobacterium tuberculosis. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 24248369	2013
Molecular diagnosis of autosomal dominant polycystic kidney disease using next-generation sequencing. The Journal of molecular diagnostics : JMD\| PubMed ID: 24374109	2014
Double-stranded DNA in exosomes: a novel biomarker in cancer detection. Cell research\| PubMed ID: 24710597	2014
Histone variant H3.3 is an essential maternal factor for oocyte reprogramming. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 24799717	2014
Silencing of UCHL1 by CpG promoter hyper-methylation is associated with metastatic gastroenteropancreatic well-differentiated neuroendocrine (carcinoid) tumors. Annals of surgical oncology\| PubMed ID: 24854489	2014
DrugTargetSeqR: a genomics- and CRISPR-Cas9-based method to analyze drug targets. Nature chemical biology\| PubMed ID: 24929528	2014
Impact of ERBB2 mutations on in vitro sensitivity of bladder cancer to lapatinib. Cancer biology & therapy\| PubMed ID: 24971884	2014
Reprogramming human endothelial cells to haematopoietic cells requires vascular induction. Nature\| PubMed ID: 25030167	2014
Cell-cycle reprogramming for PI3K inhibition overrides a relapse-specific C481S BTK mutation revealed by longitudinal functional genomics in mantle cell lymphoma. Cancer discovery\| PubMed ID: 25082755	2014
Deep sequencing reveals clonal evolution patterns and mutation events associated with relapse in B-cell lymphomas. Genome biology\| PubMed ID: 25123191	2014
Tracing the roots of cancer evolution. Cancer discovery\| PubMed ID: 25185189	2014
Histone methyltransferase MMSET/NSD2 alters EZH2 binding and reprograms the myeloma epigenome through global and focal changes in H3K36 and H3K27 methylation. PLoS genetics\| PubMed ID: 25188243	2014
Tbx5 is required for avian and Mammalian epicardial formation and coronary vasculogenesis. Circulation research\| PubMed ID: 25245104	2014
Differentiation of human pluripotent stem cells to cells similar to cord-blood endothelial colony-forming cells. Nature biotechnology\| PubMed ID: 25306246	2014
The oestrogen receptor alpha-regulated lncRNA NEAT1 is a critical modulator of prostate cancer. Nature communications\| PubMed ID: 25415230	2014
ELAVL1 regulates alternative splicing of eIF4E transporter to promote postnatal angiogenesis. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 25422430	2014
Dicer expression and microRNA dysregulation associate with aggressive features in thyroid cancer. Surgery\| PubMed ID: 25456905	2014
Flow sorting and exome sequencing reveal the oncogenome of primary Hodgkin and Reed-Sternberg cells. Blood\| PubMed ID: 25488972	2015
Lymphoblastic transformation of follicular lymphoma: a clinicopathologic and molecular analysis of 7 patients. Human pathology\| PubMed ID: 25529125	2015
ELAVL1 modulates transcriptome-wide miRNA binding in murine macrophages. Cell reports\| PubMed ID: 25533351	2014
Vascular niche promotes hematopoietic multipotent progenitor formation from pluripotent stem cells. The Journal of clinical investigation\| PubMed ID: 25664855	2015
Transcriptome analysis of individual stromal cell populations identifies stroma-tumor crosstalk in mouse lung cancer model. Cell reports\| PubMed ID: 25704820	2015
Selective inhibition of protein arginine methyltransferase 5 blocks initiation and maintenance of B-cell transformation. Blood\| PubMed ID: 25742700	2015
The BRAF pseudogene functions as a competitive endogenous RNA and induces lymphoma in vivo. Cell\| PubMed ID: 25843629	2015
Epigenomic evolution in diffuse large B-cell lymphomas. Nature communications\| PubMed ID: 25891015	2015
The chromatin Remodeler CHD8 is required for activation of progesterone receptor-dependent enhancers. PLoS genetics\| PubMed ID: 25894978	2015
CCMCL1: a new model of aggressive mantle cell lymphoma. Blood\| PubMed ID: 25907904	2015
Integrative clinical genomics of advanced prostate cancer. Cell\| PubMed ID: 26000489	2015
Identification of Reprogrammed Myeloid Cell Transcriptomes in NSCLC. PloS one\| PubMed ID: 26046767	2015
A primer on precision medicine informatics. Briefings in bioinformatics\| PubMed ID: 26048401	2015
Mechanosensitive pannexin-1 channels mediate microvascular metastatic cell survival. Nature cell biology\| PubMed ID: 26098574	2015
Deficiency of UBE2T, the E2 Ubiquitin Ligase Necessary for FANCD2 and FANCI Ubiquitination, Causes FA-T Subtype of Fanconi Anemia. Cell reports\| PubMed ID: 26119737	2015
Use of RNA sequencing to evaluate rheumatic disease patients. Arthritis research & therapy\| PubMed ID: 26126608	2015
Whole-Exome Sequencing of Metastatic Cancer and Biomarkers of Treatment Response. JAMA oncology\| PubMed ID: 26181256	2015
Obesity-dependent changes in interstitial ECM mechanics promote breast tumorigenesis. Science translational medicine\| PubMed ID: 26290412	2015
DNA Methylation Dynamics of Germinal Center B Cells Are Mediated by AID. Cell reports\| PubMed ID: 26365193	2015
The histone lysine methyltransferase KMT2D sustains a gene expression program that represses B cell lymphoma development. Nature medicine\| PubMed ID: 26366710	2015
Vascular Platform to Define Hematopoietic Stem Cell Factors and Enhance Regenerative Hematopoiesis. Stem cell reports\| PubMed ID: 26441307	2015
Transcriptome sequencing reveals thousands of novel long non-coding RNAs in B cell lymphoma. Genome medicine\| PubMed ID: 26521025	2015
Vitamin C selectively kills KRAS and BRAF mutant colorectal cancer cells by targeting GAPDH. Science (New York, N.Y.)\| PubMed ID: 26541605	2015
Prediction of Genetic Interactions Using Machine Learning and Network Properties. Frontiers in bioengineering and biotechnology\| PubMed ID: 26579514	2015
5' UTR m(6)A Promotes Cap-Independent Translation. Cell\| PubMed ID: 26593424	2015
Combinatorial targeting of nuclear export and translation of RNA inhibits aggressive B-cell lymphomas. Blood\| PubMed ID: 26603836	2015
Prostate-Specific Membrane Antigen Is a Potential Antiangiogenic Target in Adrenocortical Carcinoma. The Journal of clinical endocrinology and metabolism\| PubMed ID: 26771706	2016
Divergent clonal evolution of castration-resistant neuroendocrine prostate cancer. Nature medicine\| PubMed ID: 26855148	2016
Nuclear envelope expansion is crucial for proper chromosomal segregation during a closed mitosis. Journal of cell science\| PubMed ID: 26869222	2016
Practical Analysis of Genome Contact Interaction Experiments. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 27008015	2016
Predictive features of ligand-specific signaling through the estrogen receptor. Molecular systems biology\| PubMed ID: 27107013	2016
Epigenetic profiles signify cell fate plasticity in unipotent spermatogonial stem and progenitor cells. Nature communications\| PubMed ID: 27117588	2016
Disruption of Adipose Rab10-Dependent Insulin Signaling Causes Hepatic Insulin Resistance. Diabetes\| PubMed ID: 27207531	2016
A Computational Drug Repositioning Approach for Targeting Oncogenic Transcription Factors. Cell reports\| PubMed ID: 27264179	2016
Inherited DNA-Repair Gene Mutations in Men with Metastatic Prostate Cancer. The New England journal of medicine\| PubMed ID: 27433846	2016
Single-cell TCRseq: paired recovery of entire T-cell alpha and beta chain transcripts in T-cell receptors from single-cell RNAseq. Genome medicine\| PubMed ID: 27460926	2016
Rationally designed BCL6 inhibitors target activated B cell diffuse large B cell lymphoma. The Journal of clinical investigation\| PubMed ID: 27482887	2016
KLF4: A new player in plasma cell development. Cell cycle (Georgetown, Tex.)\| PubMed ID: 27485539	2016
EZH2 and BCL6 Cooperate to Assemble CBX8-BCOR Complex to Repress Bivalent Promoters, Mediate Germinal Center Formation and Lymphomagenesis. Cancer cell\| PubMed ID: 27505670	2016
Deep Sequencing of T-cell Receptor DNA as a Biomarker of Clonally Expanded TILs in Breast Cancer after Immunotherapy. Cancer immunology research\| PubMed ID: 27587469	2016
An Epigenomic Approach to Improving Response to Neoadjuvant Cisplatin Chemotherapy in Bladder Cancer. Biomolecules\| PubMed ID: 27598218	2016
Discovery and clinical introduction of first-in-class imipridone ONC201. Oncotarget\| PubMed ID: 27602582	2016
Multi-tiered Reorganization of the Genome during B Cell Affinity Maturation Anchored by a Germinal Center-Specific Locus Control Region. Immunity\| PubMed ID: 27637145	2016
A Data-Driven Approach to Predicting Successes and Failures of Clinical Trials. Cell chemical biology\| PubMed ID: 27642066	2016
N-Myc Induces an EZH2-Mediated Transcriptional Program Driving Neuroendocrine Prostate Cancer. Cancer cell\| PubMed ID: 27728805	2016
CREBBP Inactivation Promotes the Development of HDAC3-Dependent Lymphomas. Cancer discovery\| PubMed ID: 27733359	2017
Clonal evolution of chemotherapy-resistant urothelial carcinoma. Nature genetics\| PubMed ID: 27749842	2016
The cancer precision medicine knowledge base for structured clinical-grade mutations and interpretations. Journal of the American Medical Informatics Association : JAMIA\| PubMed ID: 27789569	2017
Therapeutic efficacy of the bromodomain inhibitor OTX015/MK-8628 in ALK-positive anaplastic large cell lymphoma: an alternative modality to overcome resistant phenotypes. Oncotarget\| PubMed ID: 27793034	2016
Systematic Discovery of Chromatin-Bound Protein Complexes from ChIP-seq Datasets. Methods in molecular biology (Clifton, N.J.)\| PubMed ID: 27832531	2017
Mechanisms of Acquired Drug Resistance to the HDAC6 Selective Inhibitor Ricolinostat Reveals Rational Drug-Drug Combination with Ibrutinib. Clinical cancer research : an official journal of the American Association for Cancer Research\| PubMed ID: 27993968	2016
Endothelial-specific inhibition of NF-κB enhances functional haematopoiesis. Nature communications\| PubMed ID: 28000664	2016
Reversible methylation of m(6)Am in the 5' cap controls mRNA stability. Nature\| PubMed ID: 28002401	2017
Role of RPL39 in Metaplastic Breast Cancer. Journal of the National Cancer Institute\| PubMed ID: 28040796	2017
Systems Structural Biology Analysis of Ligand Effects on ERα Predicts Cellular Response to Environmental Estrogens and Anti-hormone Therapies. Cell chemical biology\| PubMed ID: 28042045	2017
A Computational Approach for Identifying Synergistic Drug Combinations. PLoS computational biology\| PubMed ID: 28085880	2017
Sox17 drives functional engraftment of endothelium converted from non-vascular cells. Nature communications\| PubMed ID: 28091527	2017
Regulatory elements in molecular networks. Wiley interdisciplinary reviews. Systems biology and medicine\| PubMed ID: 28093886	2017
Effective Combination Therapies for B-cell Lymphoma Predicted by a Virtual Disease Model. Cancer research\| PubMed ID: 28130226	2017
Melanoma genome evolution across species. BMC genomics\| PubMed ID: 28173755	2017
BCL6 Antagonizes NOTCH2 to Maintain Survival of Human Follicular Lymphoma Cells. Cancer discovery\| PubMed ID: 28232365	2017
Cabozantinib Eradicates Advanced Murine Prostate Cancer by Activating Anti-Tumor Innate Immunity. Cancer discovery\| PubMed ID: 28274958	2017
Personalized In Vitro and In Vivo Cancer Models to Guide Precision Medicine. Cancer discovery\| PubMed ID: 28331002	2017
Oncogenic BRAF disrupts thyroid morphogenesis and function via twist expression. eLife\| PubMed ID: 28350298	2017
EthSEQ: ethnicity annotation from whole exome sequencing data. Bioinformatics (Oxford, England)\| PubMed ID: 28369222	2017
Epigenetic Identity in AML Depends on Disruption of Non-promoter Regulatory Elements and is Affected by Antagonistic Effects of Mutations in Epigenetic Modifiers. Cancer discovery\| PubMed ID: 28408400	2017
Stem Cell Lineage Infidelity Drives Wound Repair and Cancer. Cell\| PubMed ID: 28434617	2017
Global miRNA expression analysis identifies novel key regulators of plasma cell differentiation and malignant plasma cell. Nucleic acids research\| PubMed ID: 28459970	2017
Identification of a nucleoside analog active against adenosine kinase-expressing plasma cell malignancies. The Journal of clinical investigation\| PubMed ID: 28504647	2017
An integrated model for detecting significant chromatin interactions from high-resolution Hi-C data. Nature communications\| PubMed ID: 28513628	2017
Conversion of adult endothelium to immunocompetent haematopoietic stem cells. Nature\| PubMed ID: 28514438	2017
Widespread Mitotic Bookmarking by Histone Marks and Transcription Factors in Pluripotent Stem Cells. Cell reports\| PubMed ID: 28514649	2017
Concerted regulation of retinal pigment epithelium basement membrane and barrier function by angiocrine factors. Nature communications\| PubMed ID: 28524846	2017
Lymphatic endothelial S1P promotes mitochondrial function and survival in naive T cells. Nature\| PubMed ID: 28538737	2017