Author details

Full Name

Roded Sharan

Affiliation

Tel Aviv University

ORCID

Career Start Year

2000

Papers

183

H Index

Expertise

CM4AI Collaborator

Trey Ideker (CM4AI)

PMID	Paper Title	Journal Title	Published Year
36900390	A Biterm Topic Model for Sparse Mutation Data.	Cancers (Basel)	2023
37738970	SARS-CoV-2 variants evolve convergent strategies to remodel the host response.	Cell	2023
37287709	From Leiden to Tel-Aviv University (TAU): exploring clustering solutions via a genetic algorithm.	PNAS Nexus	2023
36900390	A Biterm Topic Model for Sparse Mutation Data.	Cancers (Basel)	2023
37276234	A mutation-level covariate model for mutational signatures.	PLoS Comput Biol	2023
37448813	BERTwalk for integrating gene networks to predict gene- to pathway-level properties.	Bioinform Adv	2023
37738970	SARS-CoV-2 variants evolve convergent strategies to remodel the host response.	Cell	2023
37287709	From Leiden to Tel-Aviv University (TAU): exploring clustering solutions via a genetic algorithm.	PNAS Nexus	2023
37448813	BERTwalk for integrating gene networks to predict gene- to pathway-level properties.	Bioinform Adv	2023
37276234	A mutation-level covariate model for mutational signatures.	PLoS Comput Biol	2023
34986026	ScalpelSig Designs Targeted Genomic Panels from Data to Detect Activity of Mutational Signatures.	J Comput Biol	2022
36180493	Exosomal telomerase transcripts reprogram the microRNA transcriptome profile of fibroblasts and partially contribute to CAF formation.	Sci Rep	2022
36035121	Multi-task learning for predicting SARS-CoV-2 antibody escape.	Front Genet	2022
36406126	A comparative analysis of telomere length maintenance circuits in fission and budding yeast.	Front Genet	2022
36530386	Predicting genetic interactions, cell line dependencies and drug sensitivities with variational graph auto-encoder.	Front Bioinform	2022
34986029	Deep Unfolding for Non-Negative Matrix Factorization with Application to Mutational Signature Analysis.	J Comput Biol	2022
34986026	ScalpelSig Designs Targeted Genomic Panels from Data to Detect Activity of Mutational Signatures.	J Comput Biol	2022
35182478	Gene architecture directs splicing outcome in separate nuclear spatial regions.	Mol Cell	2022
36406126	A comparative analysis of telomere length maintenance circuits in fission and budding yeast.	Front Genet	2022
36530386	Predicting genetic interactions, cell line dependencies and drug sensitivities with variational graph auto-encoder.	Front Bioinform	2022
36180493	Exosomal telomerase transcripts reprogram the microRNA transcriptome profile of fibroblasts and partially contribute to CAF formation.	Sci Rep	2022
36035121	Multi-task learning for predicting SARS-CoV-2 antibody escape.	Front Genet	2022
35182478	Gene architecture directs splicing outcome in separate nuclear spatial regions.	Mol Cell	2022
34986029	Deep Unfolding for Non-Negative Matrix Factorization with Application to Mutational Signature Analysis.	J Comput Biol	2022
33135031	Prediction of cancer dependencies from expression data using deep learning.	Mol Omics	2021
34169837	Evolution of fibroblasts in the lung metastatic microenvironment is driven by stage-specific transcriptional plasticity.	Elife	2021
34223192	Few-shot learning creates predictive models of drug response that translate from high-throughput screens to individual patients.	Nat Cancer	2021
34252972	Long reads capture simultaneous enhancer-promoter methylation status for cell-type deconvolution.	Bioinformatics	2021
33135031	Prediction of cancer dependencies from expression data using deep learning.	Mol Omics	2021
34465178	Mutational Signatures: From Methods to Mechanisms.	Annu Rev Biomed Data Sci	2021
34724984	A mixture model for signature discovery from sparse mutation data.	Genome Med	2021
34665813	A data-driven approach for constructing mutation categories for mutational signature analysis.	PLoS Comput Biol	2021
34706638	ANAT 3.0: a framework for elucidating functional protein subnetworks using graph-theoretic and machine learning approaches.	BMC Bioinformatics	2021
34706638	ANAT 3.0: a framework for elucidating functional protein subnetworks using graph-theoretic and machine learning approaches.	BMC Bioinformatics	2021
34465178	Mutational Signatures: From Methods to Mechanisms.	Annu Rev Biomed Data Sci	2021
34665813	A data-driven approach for constructing mutation categories for mutational signature analysis.	PLoS Comput Biol	2021
34724984	A mixture model for signature discovery from sparse mutation data.	Genome Med	2021
34252972	Long reads capture simultaneous enhancer-promoter methylation status for cell-type deconvolution.	Bioinformatics	2021
34223192	Few-shot learning creates predictive models of drug response that translate from high-throughput screens to individual patients.	Nat Cancer	2021
34169837	Evolution of fibroblasts in the lung metastatic microenvironment is driven by stage-specific transcriptional plasticity.	Elife	2021
32471470	Network-based approaches elucidate differences within APOBEC and clock-like signatures in breast cancer.	Genome Med	2020
31797602	DNA Repair Footprint Uncovers Contribution of DNA Repair Mechanism to Mutational Signatures.	Pac Symp Biocomput	2020
32419903	G2G: A web-server for the prediction of human synthetic lethal interactions.	Comput Struct Biotechnol J	2020
31770006	A Robustness Analysis of Dynamic Boolean Models of Cellular Circuits.	J Comput Biol	2020
32088392	A Sticky Multinomial Mixture Model of Strand-Coordinated Mutational Processes in Cancer.	iScience	2020
32471470	Network-based approaches elucidate differences within APOBEC and clock-like signatures in breast cancer.	Genome Med	2020
32819971	Identification of Essential Genes and Fluconazole Susceptibility Genes in <i>Candida glabrata</i> by Profiling <i>Hermes</i> Transposon Insertions.	G3 (Bethesda)	2020
32814053	Interactome Mapping Provides a Network of Neurodegenerative Disease Proteins and Uncovers Widespread Protein Aggregation in Affected Brains.	Cell Rep	2020
32681306	Comparing the utility of in vivo transposon mutagenesis approaches in yeast species to infer gene essentiality.	Curr Genet	2020
32088392	A Sticky Multinomial Mixture Model of Strand-Coordinated Mutational Processes in Cancer.	iScience	2020

1 - 50 of 366

Anthony Gitter

University of Wisconsin

Career Start Year 2007

Number of shared co-authors 0

Anna Ritz

Reed College

Career Start Year 2007

Number of shared co-authors 1

Alberto Paccanaro

University of London

Career Start Year 2005

Number of shared co-authors 3

Chad L Myers

University of Minnesota - Twin Cities

Career Start Year 2004

Number of shared co-authors 3

Tanusya M Murali

Yong Loo Lin School of Medicine, National University of Singapore

Career Start Year 2003

Number of shared co-authors 0

Quaid Morris

Sloan Kettering Institute

Career Start Year 2003

Number of shared co-authors 2

Roland Krause

University of Luxembourg

Career Start Year 2002

Number of shared co-authors 1

Chen-Hsiang Yeang

Institute of Statistical Science

Career Start Year 2001

Number of shared co-authors 2

Daphne Koller

Stanford University

Career Start Year 2001

Number of shared co-authors 6

Haiyuan Yu

Weill Institute for Cell and Molecular Biology, Cornell University

Career Start Year 2001

Number of shared co-authors 4

Olga G Troyanskaya

Lewis-Sigler Institute for Integrative Genomics, Princeton University

Career Start Year 2001

Number of shared co-authors 9

Gary D Bader

University of Toronto

Career Start Year 2000

Number of shared co-authors 17

Frank Emmert-Streib

Tampere University

Career Start Year 2000

Number of shared co-authors 1

Stefan Wuchty

University of Miami

Career Start Year 1999

Number of shared co-authors 1

Frederick P Roth

University of Toronto

Career Start Year 1998

Number of shared co-authors 5

Igor Jurisica

Schroeder Arthritis Institute

Career Start Year 1998

Number of shared co-authors 1

Lars Juhl Jensen

Novo Nordisk Foundation Center for Protein Research, University of Copenhagen

Career Start Year 1998

Number of shared co-authors 4

Patrick Aloy

Institucio Catalana de Recerca i Estudis Avancats (ICREA)

Career Start Year 1997

Number of shared co-authors 4

Panayiotis V Benos

University of Florida

Career Start Year 1996

Number of shared co-authors 2

Ralf Zimmer

Ludwig-Maximilians-Universitat Munchen

Career Start Year 1995

Number of shared co-authors 5

Hiroshi Mamitsuka

Institute for Chemical Research, Kyoto University

Career Start Year 1994

Number of shared co-authors 1

Dennis Shasha

Courant Institute of Mathematical Sciences, New York University

Career Start Year 1994

Number of shared co-authors 1

Ioannis Xenarios

University of Lausanne

Career Start Year 1994

Number of shared co-authors 2

Simon Kasif

Boston University

Career Start Year 1993

Number of shared co-authors 2

Joel S Bader

Johns Hopkins University

Career Start Year 1993

Number of shared co-authors 7

Edward M Marcotte

University of Texas

Career Start Year 1993

Number of shared co-authors 1

Tommi S Jaakkola

Massachusetts Institute of Technology

Career Start Year 1992

Number of shared co-authors 3

Mark Gerstein

Yale University

Career Start Year 1991

Number of shared co-authors 13

Andreas Beyer

University of Cologne

Career Start Year 1991

Number of shared co-authors 5

Robert Gentleman

Center for Computational Biomedicine, Harvard Medical School

Career Start Year 1991

Number of shared co-authors 2

row(s) 1 - 30 of 30

Eytan Ruppin

National Cancer Institute

Co-authored papers 46

Ron Shamir

Tel Aviv University

Co-authored papers 20

Trey Ideker (CM4AI)

University of California San Diego

Co-authored papers 16

Nir Yosef

Center for Computational Biology, University of California berkeley

Co-authored papers 15

Tomer Shlomi

Technion-Israel Institute of Technology

Co-authored papers 14

Richard M Karp

University of California at Berkeley and International Computer Science Institute

Co-authored papers 10

Dana Silverbush

Broad Institute of Harvard and MIT

Co-authored papers 8

Assaf Gottlieb

Center for Precision Health, University of Texas Health Science Center at Houston

Co-authored papers 7

Amos Tanay

Weizmann Institute of Science

Co-authored papers 5

Vessela N Kristensen

Faculty of Clinical Medicine, University of Oslo

Co-authored papers 4

Anne-Lise B??rresen-Dale

Institute for Cancer Research, Oslo University Hospital

Co-authored papers 4

Ruth Nussinov

Sackler School of Medicine, Tel Aviv University

Co-authored papers 4

Vineet Bafna

University of California San Diego

Co-authored papers 3

Benjamin J Raphael

Princeton University

Co-authored papers 3

Tamar Geiger

Tel Aviv University

Co-authored papers 3

Sorin Istrail

Center for Computational Molecular Biology, Brown University

Co-authored papers 3

Igor Ulitsky

Weizmann Institute of Science

Co-authored papers 3

Brian P Kelley

Novartis Institutes for BioMedical Research Inc.

Co-authored papers 3

Taylor Sittler

University of California san francisco

Co-authored papers 2

Samson H Fong

University of California San Diego

Co-authored papers 2

Niko Beerenwinkel

ETH Zurich

Co-authored papers 2

Brent R Stockwell

Columbia University

Co-authored papers 2

Jianzhu Ma

Purdue University

Co-authored papers 2

Dorit S Hochbaum

University of California berkeley

Co-authored papers 2

Asa Ben-Hur

Colorado State University

Co-authored papers 2

Simona Cristea

Dana-Farber Cancer Institute

Co-authored papers 2

Jian Peng

University of Illinois

Co-authored papers 2

Silpa Suthram

Stanford Center for Biomedical Informatics Research, Stanford University

Co-authored papers 2

Nevan J Krogan (CM4AI)

University of California San Francisco

Co-authored papers 2

Michael Ku Yu

University of California San Diego

Co-authored papers 2

1 - 30

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