Author details

Full Name

Fidel Ram??rez

Affiliation

Max Planck Institute of Immunobiology and Epigenetics

ORCID

Career Start Year

2007

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
32745185	pyGenomeTracks: reproducible plots for multivariate genomic datasets.	Bioinformatics	2021
33079170	A single-cell RNA-sequencing training and analysis suite using the Galaxy framework.	Gigascience	2020
31601616	Hi-C guided assemblies reveal conserved regulatory topologies on X and autosomes despite extensive genome shuffling.	Genes Dev	2019
31213602	CAPRI enables comparison of evolutionarily conserved RNA interacting regions.	Nat Commun	2019
29335486	High-resolution TADs reveal DNA sequences underlying genome organization in flies.	Nat Commun	2018
30022098	GOATOOLS: A Python library for Gene Ontology analyses.	Sci Rep	2018
29901812	Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization.	Nucleic Acids Res	2018
29953864	Community-Driven Data Analysis Training for Biology.	Cell Syst	2018
30266094	A comprehensive analysis of 195 DNA methylomes reveals shared and cell-specific features of partially methylated domains.	Genome Biol	2018
30534606	RELACS nuclei barcoding enables high-throughput ChIP-seq.	Commun Biol	2018
27079975	deepTools2: a next generation web server for deep-sequencing data analysis.	Nucleic Acids Res	2016
27183194	Functional interplay between MSL1 and CDK7 controls RNA polymerase II Ser5 phosphorylation.	Nat Struct Mol Biol	2016
26431028	High-Affinity Sites Form an Interaction Network to Facilitate Spreading of the MSL Complex across the X Chromosome in Drosophila.	Mol Cell	2015
24799436	deepTools: a flexible platform for exploring deep-sequencing data.	Nucleic Acids Res	2014
24981170	Suv39h-dependent H3K9me3 marks intact retrotransposons and silences LINE elements in mouse embryonic stem cells.	Mol Cell	2014
24842875	MOF-associated complexes ensure stem cell identity and Xist repression.	Elife	2014
23746450	The genomic landscape of the somatic linker histone subtypes H1.1 to H1.5 in human cells.	Cell Rep	2013
22180409	Novel search method for the discovery of functional relationships.	Bioinformatics	2012
22821591	Functional characterization of human genes from exon expression and RNA interference results.	Methods Mol Biol	2012
21238945	Recruitment and activation of a lipid kinase by hepatitis C virus NS5A is essential for integrity of the membranous replication compartment.	Cell Host Microbe	2011
20005715	Finding scaffold proteins in interactomes.	Trends Cell Biol	2010
19502495	DASMIweb: online integration, analysis and assessment of distributed protein interaction data.	Nucleic Acids Res	2009
19420069	DASMI: exchanging, annotating and assessing molecular interaction data.	Bioinformatics	2009
18006545	Computing topological parameters of biological networks.	Bioinformatics	2008
17456608	Functional evaluation of domain-domain interactions and human protein interaction networks.	Bioinformatics	2007
17372197	The implications of alternative splicing in the ENCODE protein complement.	Proc Natl Acad Sci U S A	2007
17647236	Computational analysis of human protein interaction networks.	Proteomics	2007

1 - 27 of 27

Alan P Boyle

University of Michigan ann arbor

Career Start Year 2008

Number of shared co-authors 4

Oriol Fornes

BC Children's Hospital Research Institute, University of British Columbia

Career Start Year 2008

Number of shared co-authors 0

Nathan Sheffield (CM4AI)

University of Virginia

Career Start Year 2007

Number of shared co-authors 5

Geir Kjetil Sandve

University of Oslo

Career Start Year 2006

Number of shared co-authors 2

Michael M Hoffman

University of Toronto

Career Start Year 2004

Number of shared co-authors 5

Arnaud Ceol

European Institute of Oncology IRCCS

Career Start Year 2004

Number of shared co-authors 6

Zhaolei Zhang

University of Toronto

Career Start Year 2002

Number of shared co-authors 0

Olga G Troyanskaya

Lewis-Sigler Institute for Integrative Genomics, Princeton University

Career Start Year 2001

Number of shared co-authors 2

Haiyuan Yu

Weill Institute for Cell and Molecular Biology, Cornell University

Career Start Year 2001

Number of shared co-authors 0

Gary D Bader

University of Toronto

Career Start Year 2000

Number of shared co-authors 8

Wei Wang

IBM Thomas J Watson Research Center, University of California Los Angeles, University of North Carolina at Chapel Hill

Career Start Year 1999

Number of shared co-authors 2

Lars Juhl Jensen

Novo Nordisk Foundation Center for Protein Research, University of Copenhagen

Career Start Year 1998

Number of shared co-authors 8

Sarah J Wheelan

National Human Genome Research Institute, National Institutes of Health

Career Start Year 1998

Number of shared co-authors 2

Melissa S Cline

Genomics Institute, University of California Santa Cruz

Career Start Year 1997

Number of shared co-authors 13

Jessica Severin

Center for Integrative Medical Sciences

Career Start Year 1996

Number of shared co-authors 4

Trey Ideker (CM4AI)

University of California San Diego

Career Start Year 1996

Number of shared co-authors 6

Ralf Zimmer

Ludwig-Maximilians-Universitat Munchen

Career Start Year 1995

Number of shared co-authors 2

Ron Shamir

Tel Aviv University

Career Start Year 1995

Number of shared co-authors 0

Steven J M Jones

University of British Columbia

Career Start Year 1995

Number of shared co-authors 6

Ioannis Xenarios

University of Lausanne

Career Start Year 1994

Number of shared co-authors 11

Finn Drabl??s

NTNU - Norwegian University of Science and Technology

Career Start Year 1994

Number of shared co-authors 1

Joel S Bader

Johns Hopkins University

Career Start Year 1993

Number of shared co-authors 4

Zhiping Weng

University of Massachusetts Medical School

Career Start Year 1992

Number of shared co-authors 7

Erik L L Sonnhammer

Stockholm University

Career Start Year 1992

Number of shared co-authors 4

Robert Gentleman

Center for Computational Biomedicine, Harvard Medical School

Career Start Year 1991

Number of shared co-authors 5

Mark Gerstein

Yale University

Career Start Year 1991

Number of shared co-authors 10

Miguel A Andrade-Navarro

Institute of Organismic and Molecular Evolution, Johannes Gutenberg University

Career Start Year 1991

Number of shared co-authors 5

Emmanuel Barillot

Institut Curie, Universite PSL

Career Start Year 1991

Number of shared co-authors 7

Lincoln Stein

Ontario Institute for Cancer Research, University Avenue

Career Start Year 1986

Number of shared co-authors 8

John H Morris

University of California san francisco

Career Start Year 1985

Number of shared co-authors 3

row(s) 1 - 30 of 30

Mario Albrecht

Institute for Knowledge Discovery, Graz University of Technology

Co-authored papers 10

Asifa Akhtar

Max Planck Institute of Immunobiology and Epigenetics

Co-authored papers 6

Hagen Blankenburg

Institute for Biomedicine, Affiliated Institute of the University of Lubeck

Co-authored papers 5

Yassen Assenov

German Cancer Research Center (DKFZ)

Co-authored papers 3

Anton Nekrutenko

The Pennsylvania State University, University Park

Co-authored papers 2

Hans-Rudolf Hotz

Friedrich Miescher Institute for Biomedical Research

Co-authored papers 2

Dave Clements

Johns Hopkins University

Co-authored papers 2

James Taylor

Johns Hopkins University

Co-authored papers 2

Dorothea Emig

Departments of Bioinformatics and Clinical Genomics, Illumina Inc.

Co-authored papers 2

JÃ¶rn Walter

Co-authored papers 2

Liangsheng Zhang

College of Agriculture and Biotechnology, Zhejiang University

Co-authored papers 1

S??ren Brunak

Novo Nordisk Foundation Center for Protein Research, University of Copenhagen

Co-authored papers 1

Peter Schirmacher

Institute of Pathology, University Hospital Heidelberg

Co-authored papers 1

Christophe Dessimoz

University of Lausanne

Co-authored papers 1

Andreas Prli??

University of California

Co-authored papers 1

Rita Casadio

Department of Pharmacy and Biotechnology, University of Bologna

Co-authored papers 1

Pratik D Jagtap

University of Minnesota

Co-authored papers 1

Youri Hoogstrate

Erasmus MC Cancer Institute

Co-authored papers 1

Lars M Steinmetz

Stanford University

Co-authored papers 1

Maria A Doyle

Peter MacCallum Cancer Centre

Co-authored papers 1

Ho-Ryun Chung

Institute of Medical Bioinformatics and Biostatistics, Philipps University of Marburg

Co-authored papers 1

David T Jones

University College London

Co-authored papers 1

Job Dekker

University of Massachusetts Chan Medical School

Co-authored papers 1

D V Klopfenstein

Drexel University

Co-authored papers 1

Mark Weigel

Co-authored papers 1

Gilles Gasparoni

Co-authored papers 1

Mallory A Freeberg

EMBL's European Bioinformatics Institute (EMBL-EBI)

Co-authored papers 1

Pier Luigi Martelli

Department of Pharmacy and Biotechnology, University of Bologna

Co-authored papers 1

Edith Heard

Institut Curie, PSL Research University, CNRS UMR 5, INSERM U934

Co-authored papers 1

Irene Papatheodorou

Co-authored papers 1

1 - 30

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