Marc Robinson-Rechavi

发表

Meta-analysis of estrogen response in MCF-7 distinguishes early target genes involved in signaling and cell proliferation from later target genes involved in cell cycle and DNA repair

Vidhya Jagannathan, Marc Robinson-Rechavi, V. Jagannathan, 2011, BMC Systems Biology.

vHOG, a multispecies vertebrate ontology of homologous organs groups

Anne Niknejad, Frederic B. Bastian, Marc Robinson-Rechavi, 2012, Bioinform..

Optimization strategies for fast detection of positive selection on phylogenetic trees

Christoph Pacher, Alexandros Stamatakis, Heinz Stockinger, 2014, Bioinform..

Selectome: a database of positive selection

Sébastien Moretti, Marc Robinson-Rechavi, Estelle Proux-Wéra, 2008, Nucleic Acids Res..

Recent advances in biocuration: Meeting Report from the fifth International Biocuration Conference

Kimberly Van Auken, Robert D. Finn, Cathy H. Wu, 2012, Database J. Biol. Databases Curation.

A protein interaction atlas for the nuclear receptors: properties and quality of a hub-based dimerisation network

Erich Bornberg-Bauer, David L. Robertson, Elgar Pichler, 2007, BMC Systems Biology.

JaDis: computing distances between nucleic acid sequences

Guy Perrière, Marc Robinson-Rechavi, Dominique Mouchiroud, 1999, Bioinform..

Bgee: Integrating and Comparing Heterogeneous Transcriptome Data Among Species

Sébastien Moretti, Frederic B. Bastian, Marc Robinson-Rechavi, 2008, DILS.

Homolonto: generating homology relationships by pairwise alignment of ontologies and application to vertebrate anatomy

Frederic B. Bastian, Marc Robinson-Rechavi, Gilles Parmentier, 2010, Bioinform..

Enabling semantic queries across federated bioinformatics databases

Tarcisio Mendes de Farias, Christophe Dessimoz, Kurt Stockinger, 2019, Database : the journal of biological databases and curation.

Big data and other challenges in the quest for orthologs

Maria Jesus Martin, Toni Gabaldón, Erik L. L. Sonnhammer, 2014, Bioinform..

Enabling semantic queries across federated bioinformatics databases

Maria Anisimova, Christophe Dessimoz, Kurt Stockinger, 2019, bioRxiv.

gcodeml: A Grid-enabled Tool for Detecting Positive Selection in Biological Evolution

Arnold Kuzniar, Sébastien Moretti, Heinz Stockinger, 2012, HealthGrid.

Quality Matters: Biocuration Experts on the Impact of Duplication and Other Data Quality Issues in Biological Databases

Qingyu Chen, Justin Zobel, Arthur Liberzon, 2019, bioRxiv.

Phylogenetic Code in the Cloud - Can it Meet the Expectations?

Sébastien Moretti, Heinz Stockinger, Dean Flanders, 2010, HealthGrid.

IQRray, a new method for Affymetrix microarray quality control, and the homologous organ conservation score, a new benchmark method for quality control metrics

Marc Robinson-Rechavi, Marta Rosikiewicz, Marta Rosikiewicz, 2014, Bioinform..

State aggregation for fast likelihood computations in molecular evolution

Marc Robinson-Rechavi, Nicolas Salamin, Iakov I. Davydov, 2015, bioRxiv.

A benchmark of gene expression tissue-specificity metrics

Marc Robinson-Rechavi, Nadezda Kryuchkova-Mostacci, Nadezda Kryuchkova-Mostacci, 2015, bioRxiv.

OMAmer: tree-driven and alignment-free protein assignment to subfamilies outperforms closest sequence approaches

Alex Warwick Vesztrocy, Christophe Dessimoz, Marc Robinson-Rechavi, 2020, bioRxiv.

Conceptual framework and pilot study to benchmark phylogenomic databases based on reference gene trees

Ioannis Xenarios, Christophe Dessimoz, Brigitte Boeckmann, 2011, Briefings Bioinform..

Selectome update: quality control and computational improvements to a database of positive selection

Arnold Kuzniar, Sébastien Moretti, Heinz Stockinger, 2013, Nucleic Acids Res..

Uncovering hidden duplicated content in public transcriptomics data

Anne Niknejad, Frederic B. Bastian, Marc Robinson-Rechavi, 2013, Database J. Biol. Databases Curation.

Tissue-Specificity of Gene Expression Diverges Slowly between Orthologs, and Rapidly between Paralogs

Marc Robinson-Rechavi, Nadezda Kryuchkova-Mostacci, Nadezda Kryuchkova-Mostacci, 2016, bioRxiv.

SlimCodeML: An Optimized Version of CodeML for the Branch-Site Model

Christoph Pacher, Alexandros Stamatakis, Ziheng Yang, 2012, 2012 IEEE 26th International Parallel and Distributed Processing Symposium Workshops & PhD Forum.

State aggregation for fast likelihood computations in molecular evolution

Marc Robinson-Rechavi, Nicolas Salamin, Iakov I. Davydov, 2016, Bioinform..

Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs

Christophe Dessimoz, Marc Robinson-Rechavi, Adrian M. Altenhoff, 2012, PLoS Comput. Biol..

When orthologs diverge between human and mouse

Marc Robinson-Rechavi, Walid H. Gharib, W. H. Gharib, 2011, Briefings Bioinform..

The Confidence Information Ontology: a step towards a standard for asserting confidence in annotations

Marcus C. Chibucos, Michelle G. Giglio, Sandra E. Orchard, 2015, Database J. Biol. Databases Curation.

RRTree: Relative-Rate Tests between groups of sequences on a phylogenetic tree

Marc Robinson-Rechavi, Dorothée Huchon, D. Huchon, 2000, Bioinform..

Correcting for the bias due to expression specificity improves the estimation of constrained evolution of expression between mouse and human

Sven Bergmann, Marc Robinson-Rechavi, Barbara Piasecka, 2012, Bioinform..

DATABASE, The Journal of Biological Databases and Curation, is now the official journal of the International Society for Biocuration

Claire O'Donovan, Terri K. Attwood, J. Michael Cherry, 2013, Database J. Biol. Databases Curation.

Methods detecting rhythmic gene expression are biologically relevant only for strong signal

Marc Robinson-Rechavi, David Laloum, M. Robinson-Rechavi, 2020, PLoS Comput. Biol..

NUREBASE: database of nuclear hormone receptors

Guy Perrière, Jorge Duarte, Marc Robinson-Rechavi, 2002, Nucleic Acids Res..

Update of NUREBASE: nuclear hormone receptor functional genomics

Guy Perrière, Jorge Duarte, David Ruau, 2004, Nucleic Acids Res..

Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon

Judith A. Blake, Chris Mungall, Melissa Haendel, 2014, Journal of Biomedical Semantics.

OMAmer: tree-driven and alignment-free protein assignment to subfamilies outperforms closest sequence approaches

Alex Warwick Vesztrocy, Christophe Dessimoz, Marc Robinson-Rechavi, 2021, Bioinform..

The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals

Sébastien Moretti, Philippe Moret, Anne Niknejad, 2020, bioRxiv.

Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data

Christophe Dessimoz, Ana Claudia Sima, Marc Robinson-Rechavi, 2021, SSDBM.

Tissue-Specific Evolution of Protein Coding Genes in Human and Mouse

Marc Robinson-Rechavi, Nadezda Kryuchkova-Mostacci, Nadezda Kryuchkova-Mostacci, 2014, bioRxiv.

Rapid divergence of the ecdysone receptor in Diptera and Lepidoptera suggests coevolution between ECR and USP-RXR.

Dominique Zelus, Marc Robinson-Rechavi, Vincent Laudet, 2003, Molecular biology and evolution.

USAGE OPTIMIZATION OF UNEVENLY SAMPLED DATA THROUGH THE COMBINATION OF QUARTET TREES: A EUTHERIAN DRAFT PHYLOGENY BASED ON 640 NUCLEAR AND MITOCHONDRIAL PROTEINS

Dan Graur, Marc Robinson-Rechavi, D. Graur, 2001 .

Evidence for an episodic model of protein sequence evolution.

Marc Robinson-Rechavi, M. Robinson‐Rechavi, R. A. Studer, 2009, Biochemical Society transactions.

BgeeDB, an R package for retrieval of curated expression datasets and for gene list expression localization enrichment tests

Andrea Komljenovic, Frederic B. Bastian, Julien Roux, 2016, F1000Research.

Inference of Evolutionary Forces Acting on Human Biological Pathways

Laurent Excoffier, Josephine T. Daub, Marc Robinson-Rechavi, 2014, bioRxiv.

Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita

Graziano Pesole, Thomas Schiex, Bernard Henrissat, 2008, Nature Biotechnology.

Community-wide plasmid gene mobilization and selection

Ryo Miyazaki, Kerrie Barry, Marc Robinson-Rechavi, 2012 .

An ancestral whole-genome duplication may not have been responsible for the abundance of duplicated fish genes

Marc Robinson-Rechavi, Vincent Laudet, V. Laudet, 2001, Current Biology.

Age-dependent gain of alternative splice forms and biased duplication explain the relation between splicing and duplication.

Julien Roux, Marc Robinson-Rechavi, M. Robinson‐Rechavi, 2011, Genome research.

Explosive Lineage-Specific Expansion of the Orphan Nuclear Receptor HNF4 in Nematodes

Marc Robinson-Rechavi, Vincent Laudet, Claude V. Maina, 2005, Journal of Molecular Evolution.

The Branch-Site Test of Positive Selection Is Surprisingly Robust but Lacks Power under Synonymous Substitution Saturation and Variation in GC

Marc Robinson-Rechavi, W. H. Gharib, Walid H. Gharib, 2013, Molecular biology and evolution.

Evidence for polygenic adaptation to pathogens in the human genome.

Laurent Excoffier, Josephine T Daub, Josephine T. Daub, 2013, Molecular biology and evolution.

Structural genomics of thermotoga maritima proteins shows that contact order is a major determinant of protein thermostability.

Adam Godzik, Marc Robinson-Rechavi, A. Godzik, 2005, Structure.

Comparative modular analysis of gene expression in vertebrate organs

Sven Bergmann, Zoltán Kutalik, Julien Roux, 2012, BMC Genomics.

Contribution of electrostatic interactions, compactness and quaternary structure to protein thermostability: lessons from structural genomics of Thermotoga maritima.

Adam Godzik, Andreu Alibés, Marc Robinson-Rechavi, 2006, Journal of molecular biology.

An ontology to clarify homology-related concepts.

Julien Roux, Marc Robinson-Rechavi, Julien Roux, 2010, Trends in genetics : TIG.