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Cedric Notredame

Cedric Notredame

D-Index & Metrics

Biology and Biochemistry

D-Index
57
Citations
39749
World Ranking
13493
National Ranking
284

Overview

Cedric Notredame is affiliated with Pompeu Fabra University in Spain. Their research primarily spans the field of Biochemistry, Genetics and Molecular Biology, with a specific focus on Molecular Biology. Their subfields of study also include Ecology, Evolution, Behavior and Systematics, as well as Epidemiology and Information Systems and Management.

Their work covers a range of specialized topics including:

  • Genomics and Phylogenetic Studies
  • Machine Learning in Bioinformatics
  • RNA and protein synthesis mechanisms
  • RNA modifications and cancer
  • Trypanosoma species research and implications
  • Scientific Computing and Data Management
  • Research Data Management Practices

Cedric Notredame's research has been published in multiple venues, with frequent contributions to:

  • Zenodo (CERN European Organization for Nuclear Research)
  • bioRxiv (Cold Spring Harbor Laboratory)
  • Bioinformatics
  • Science Advances
  • PLoS Pathogens

Recent papers include:

  • Highly significant improvement of protein sequence alignments with AlphaFold2, 2022, Bioinformatics
  • A long noncoding RNA promotes parasite differentiation in African trypanosomes, 2022, Science Advances
  • Empowering bioinformatics communities with Nextflow and nf-core, 2024, bioRxiv (Cold Spring Harbor Laboratory)
  • Four layer multi-omics reveals molecular responses to aneuploidy in Leishmania, 2022, PLoS Pathogens
  • A long non-coding RNA controls parasite differentiation in African trypanosomes, 2020, bioRxiv (Cold Spring Harbor Laboratory)

Cedric Notredame collaborates frequently with several researchers, including:

  • Athanasios Baltzis
  • Leila Mansouri
  • Björn E. Langer
  • Ionas Erb
  • Cedrik Magis

Best Publications

  • T-Coffee: A novel method for fast and accurate multiple sequence alignment.

    Cédric Notredame;Cédric Notredame;Cédric Notredame;Desmond G Higgins;Jaap Heringa

  • The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression.

    Thomas Derrien;Rory Johnson;Giovanni Bussotti;Andrea Tanzer

  • An integrated encyclopedia of DNA elements in the human genome

    Ian Dunham;Anshul Kundaje;Shelley F. Aldred;Patrick J. Collins

  • Nextflow enables reproducible computational workflows

    Paolo Di Tommaso;Maria Chatzou;Evan W Floden;Pablo Prieto Barja

  • A comparative encyclopedia of DNA elements in the mouse genome

    Feng Yue;Feng Yue;Yong Cheng;Alessandra Breschi;Jeff Vierstra

  • Long Noncoding RNAs with Enhancer-like Function in Human Cells

    Ulf Andersson Ørom;Thomas Derrien;Malte Beringer;Kiranmai Gumireddy

  • T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension

    Paolo Di Tommaso;Sebastien Moretti;Ioannis Xenarios;Miquel Orobitg

  • SAGA: sequence alignment by genetic algorithm.

    Cédric Notredame;Desmond G. Higgins

  • M-Coffee : Combining multiple sequence alignment methods with T-Coffee

    Iain M. Wallace;Orla O'Sullivan;Desmond G. Higgins;Cedric Notredame

  • Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee

    Fabrice Armougom;Sébastien Moretti;Olivier Poirot;Stéphane Audic

  • Recent progress in multiple sequence alignment: a survey.

    Cédric Notredame

  • Multi-Platform Next-Generation Sequencing of the Domestic Turkey (Meleagris gallopavo): Genome Assembly and Analysis

    Rami A. Dalloul;Julie A Long;Aleksey V. Zimin;Luqman Aslam

  • Epistasis as the primary factor in molecular evolution

    Michael S. Breen;Carsten Kemena;Peter K. Vlasov;Cedric Notredame

  • 3DCoffee: combining protein sequences and structures within multiple sequence alignments.

    Orla O'Sullivan;Karsten Suhre;Chantal Abergel;Desmond G Higgins

  • Bioinformatics For Dummies

    Jean-Michel Claverie;Cedric Notredame

  • Coordinated international action to accelerate genome-to-phenome with FAANG, the Functional Annotation of Animal Genomes project

    Leif Andersson;Leif Andersson;Alan L. Archibald;Cynthia D. Bottema;Rudiger Brauning

  • Tcoffee@igs: a web server for computing, evaluating and combining multiple sequence alignments

    Olivier Poirot;Eamonn O'Toole;Cedric Notredame

  • COFFEE: an objective function for multiple sequence alignments.

    Cédric Notredame;Liisa Holm;Desmond G. Higgins

  • Recent evolutions of multiple sequence alignment algorithms.

    Cédric Notredame

  • MULTICHANNEL SEQUENCE ANALYSIS APPLIED TO SOCIAL SCIENCE DATA

    Jacques-Antoine Gauthier;Eric D. Widmer;Philipp Bucher;Cédric Notredame

Frequent Co-Authors

Desmond G. Higgins
Desmond G. Higgins University College Dublin
Philipp Bucher
Philipp Bucher École Polytechnique Fédérale de Lausanne
Roderic Guigó
Roderic Guigó Pompeu Fabra University
Javier Herrero
Javier Herrero University College London
Thomas R. Gingeras
Thomas R. Gingeras Cold Spring Harbor Laboratory
Paul Flicek
Paul Flicek The Jackson Laboratory
Mara Dierssen
Mara Dierssen Centre for Genomic Regulation
Mark Groudine
Mark Groudine Fred Hutchinson Cancer Research Center
Fyodor A. Kondrashov
Fyodor A. Kondrashov Institute of Science and Technology Austria

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