Bioinformatics

Bioinformatics

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281-300 of 378 ARTICLES
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 in 
https://doi.org/10.12688/f1000research.13463.1
Editorial metrics NOT PEER REVIEWED
Highlights of the second ISCB Student Council Symposium in Africa, 2017
[version 1; peer review: not peer reviewed]
Candice N. Rafael, Efejiro Ashano, Yumna Moosa, Sayane Shome, Dan DeBlasio
  • Funders
  • Gordon and Betty Moore Foundation
  • International Society for Computational Biology
  • National Institutes of Health
  • National Science Foundation
PUBLISHED 28 Dec 2017
https://doi.org/10.12688/f1000research.11352.2
Research Article metrics
Revised
New chimeric RNAs in acute myeloid leukemia
[version 2; peer review: 2 approved]
Florence Rufflé, Jerome Audoux, Anthony Boureux, Sacha Beaumeunier, Jean-Baptiste Gaillard, Elias Bou Samra, Andre Megarbane, Bruno Cassinat, Christine Chomienne, Ronnie Alves, Sebastien Riquier, Nicolas Gilbert, Jean-Marc Lemaitre, Delphine Bacq-Daian, Anne Laure Bougé, Nicolas Philippe, Therese Commes
Peer Reviewers Hui Li; Charles Gawad
  • Funders
  • Agence Nationale de la Recherche
  • Fondation pour la Recherche Médicale
  • Ligue Nationale Contre le Cancer
  • Le Cancéropôle Grand Sud-Ouest (GSO)
LATEST VERSION PUBLISHED 19 Dec 2017
https://doi.org/10.12688/f1000research.12974.1
Software Tool Article metrics
Using bio.tools to generate and annotate workbench tool descriptions
[version 1; peer review: 4 approved]
Kenzo-Hugo Hillion, Ivan Kuzmin, Anton Khodak, Eric Rasche, Michael Crusoe, Hedi Peterson, Jon Ison, Hervé Ménager
Peer Reviewers Michael L. Heuer; Christopher J. Fields; Manuel Corpas; Brian O'Connor
  • Funder
  • Horizon 2020
PUBLISHED 30 Nov 2017
https://doi.org/10.12688/f1000research.12544.1
Software Tool Article metrics
Easy and efficient ensemble gene set testing with EGSEA
[version 1; peer review: 1 approved, 3 approved with reservations]
Monther Alhamdoosh, Charity W. Law, Luyi Tian, Julie M. Sheridan, Milica Ng, Matthew E. Ritchie
Peer Reviewers Robert Castelo; Jenny Drnevich; Weijun Luo; Pekka Kohonen and Roland Grafström
  • Funders
  • NHMRC IRIISS
  • NHMRC
  • Victorian State Government Operational Infrastructure Support
PUBLISHED 14 Nov 2017
https://doi.org/10.12688/f1000research.12342.2
Opinion Article metrics
Revised
The future of metabolomics in ELIXIR
[version 2; peer review: 3 approved]
Merlijn van Rijswijk, Charlie Beirnaert, Christophe Caron, Marta Cascante, Victoria Dominguez, Warwick B. Dunn, Timothy M. D. Ebbels, Franck Giacomoni, Alejandra Gonzalez-Beltran, Thomas Hankemeier, Kenneth Haug, Jose L. Izquierdo-Garcia, Rafael C. Jimenez, Fabien Jourdan, Namrata Kale, Maria I. Klapa, Oliver Kohlbacher, Kairi Koort, Kim Kultima, Gildas Le Corguillé, Pablo Moreno, Nicholas K. Moschonas, Steffen Neumann, Claire O’Donovan, Martin Reczko, Philippe Rocca-Serra, Antonio Rosato, Reza M. Salek, Susanna-Assunta Sansone, Venkata Satagopam, Daniel Schober, Ruth Shimmo, Rachel A. Spicer, Ola Spjuth, Etienne A. Thévenot, Mark R. Viant, Ralf J. M. Weber, Egon L. Willighagen, Gianluigi Zanetti, Christoph Steinbeck
Peer Reviewers Charles F. Burant; Carl Brunius; Emmanuel Mikros
  • Funder
  • Horizon 2020 Framework Programme
LATEST VERSION PUBLISHED 30 Oct 2017
https://doi.org/10.12688/f1000research.9703.1
Research Article metrics
A putative role for genome-wide epigenetic regulatory mechanisms in Huntington’s disease: A computational assessment
[version 1; peer review: 1 approved, 1 not approved]
Eleni Mina, Willeke van Roon-Mom, Pernette Verschure, Peter A.C. 't Hoen, Mark Thompson, Rajaram Kaliyaperumal, Kristina Hettne, Erik Schultes, Barend Mons, Marco Roos
Peer Reviewers Núria Queralt-Rosinach; Andreas R. Pfenning and Irene Kaplow
  • Funders
  • Netherlands Bioinformatics Centre
  • Seventh Framework Programme
  • Innovative Medicines Initiative Joint Undertaking
PUBLISHED 25 Oct 2017
https://doi.org/10.12688/f1000research.12929.1
Editorial metrics NOT PEER REVIEWED
The 2017 Bioinformatics Open Source Conference (BOSC)
[version 1; peer review: not peer reviewed]
Nomi L. Harris, Peter J.A. Cock, Brad Chapman, Christopher J. Fields, Karsten Hokamp, Hilmar Lapp, Monica Munoz-Torres, Bastian Greshake Tzovaras, Heather Wiencko
PUBLISHED 19 Oct 2017
https://doi.org/10.12688/f1000research.12757.1
Research Article metrics
Impact of effective contact rate and post treatment immune status on population tuberculosis infection and disease using a mathematical model
[version 1; peer review: 1 approved with reservations, 1 not approved]
Chacha M. Issarow, Nicola Mulder, Robin Wood
Peer Reviewers M. Gabriela M. Gomes; James M. Trauer
  • Funders
  • South African Medical Research Council
  • Gates Foundation
PUBLISHED 09 Oct 2017
https://doi.org/10.12688/f1000research.12223.1
Method Article metrics
recount workflow: Accessing over 70,000 human RNA-seq samples with Bioconductor
[version 1; peer review: 1 approved, 2 approved with reservations]
Leonardo Collado-Torres, Abhinav Nellore, Andrew E. Jaffe
Peer Reviewers Davide Risso; Alejandro Reyes; Nick Schurch
  • Funder
  • National Institutes of Health
PUBLISHED 24 Aug 2017
https://doi.org/10.12688/f1000research.12332.1
Opinion Article metrics
The ELIXIR-EXCELERATE Train-the-Trainer pilot programme: empower researchers to deliver high-quality training
[version 1; peer review: 2 approved]
Sarah L Morgan, Patricia M Palagi, Pedro L Fernandes, Eija Koperlainen, Jure Dimec, Diana Marek, Lee Larcombe, Gabriella Rustici, Teresa K Attwood, Allegra Via
Peer Reviewers Jason J. Williams; Kim T. Gurwitz
  • Funder
  • ELIXIR-EXCELERATE
PUBLISHED 24 Aug 2017
https://doi.org/10.12688/f1000research.12321.1
Editorial metrics NOT PEER REVIEWED
Second ISCB Latin American Student Council Symposium (LA-SCS) 2016
[version 1; peer review: not peer reviewed]
Alexander Miguel Monzon, Marcia A. Hasenahuer, Estefanía Mancini, Nilson Coimbra, Fiorella Cravero, Javier Cáceres-Molina, César A. Ramírez-Sarmiento, Nicolas Palopoli, Pieter Meysman, R. Gonzalo Parra
  • Funders
  • European Molecular Biology Organization
  • uBiome
  • Universidad Nacional de San Martin
  • Consejo Nacional de Investigaciones Científicas y Técnicas
  • Asociación Argentina de Bioinformática y Biología Computacional
PUBLISHED 16 Aug 2017
https://doi.org/10.12688/f1000research.12168.1
Method Article metrics
Systematically linking tranSMART, Galaxy and EGA for reusing human translational research data
[version 1; peer review: 2 approved]
Chao Zhang, Jochem Bijlard, Christine Staiger, Serena Scollen, David van Enckevort, Youri Hoogstrate, Alexander Senf, Saskia Hiltemann, Susanna Repo, Wibo Pipping, Mariska Bierkens, Stefan Payralbe, Bas Stringer, Jaap Heringa, Andrew Stubbs, Luiz Olavo Bonino Da Silva Santos, Jeroen Belien, Ward Weistra, Rita Azevedo, Kees van Bochove, Gerrit Meijer, Jan-Willem Boiten, Jordi Rambla, Remond Fijneman, J. Dylan Spalding, Sanne Abeln
Peer Reviewers Hervé Ménager; Gilbert S. Omenn
  • Funders
  • CTMM-TraIT
  • Horizon 2020
PUBLISHED 16 Aug 2017
https://doi.org/10.12688/f1000research.12122.1
Method Article metrics
Bioconductor workflow for single-cell RNA sequencing: Normalization, dimensionality reduction, clustering, and lineage inference
[version 1; peer review: 1 approved, 2 approved with reservations]
Fanny Perraudeau, Davide Risso, Kelly Street, Elizabeth Purdom, Sandrine Dudoit
Peer Reviewers Stephanie C. Hicks; Andrew McDavid; Michael I. Love
  • Funders
  • National Institutes of Health
  • National Human Genome Research Institute
PUBLISHED 21 Jul 2017
https://doi.org/10.12688/f1000research.10750.2
Review metrics
Revised
General guidelines for biomedical software development
[version 2; peer review: 2 approved]
Luis Bastiao Silva, Rafael C. Jimenez, Niklas Blomberg, José Luis Oliveira
Peer Reviewers João P. G. L. M.  Rodrigues; Victor Maojo
  • Funders
  • European Federation of Pharmaceutical Industries and Associations
  • Horizon 2020
LATEST VERSION PUBLISHED 12 Jul 2017
https://doi.org/10.12688/f1000research.9751.2
Software Tool Article metrics
Revised
dot-app: a Graphviz-Cytoscape conversion plug-in
[version 2; peer review: 4 approved]
Braxton Fitts, Ziran Zhang, Massoud Maher, Barry Demchak
Peer Reviewers Eric Bonnet; Matthias König; David J. Lynn and John Salamon; Giovanni Scardoni
  • Funder
  • National Institutes of Health
LATEST VERSION PUBLISHED 10 Jul 2017
https://doi.org/10.12688/f1000research.11718.1
Opinion Article metrics
Developing a strategy for computational lab skills training through Software and Data Carpentry: Experiences from the ELIXIR Pilot action
[version 1; peer review: 3 approved]
Aleksandra Pawlik, Celia W.G. van Gelder, Aleksandra Nenadic, Patricia M. Palagi, Eija Korpelainen, Philip Lijnzaad, Diana Marek, Susanna-Assunta Sansone, John Hancock, Carole Goble
Peer Reviewers Erin A. Becker; Anelda P. van der Walt and Juan Steyn; Laurent Gatto
  • Funders
  • Horizon 2020
  • Biotechnology and Biological Sciences Research Council
PUBLISHED 03 Jul 2017
https://doi.org/10.12688/f1000research.9416.3
Research Article metrics
Revised
Protein domain architectures provide a fast, efficient and scalable alternative to sequence-based methods for comparative functional genomics
[version 3; peer review: 1 approved, 2 approved with reservations]
Jasper J. Koehorst, Edoardo Saccenti, Peter J. Schaap, Vitor A. P. Martins dos Santos, Maria Suarez-Diez
Peer Reviewers Antonio Rosato; Robert D. Finn; David M. Kristensen
LATEST VERSION PUBLISHED 27 Jun 2017
https://doi.org/10.12688/f1000research.11588.1
Editorial metrics NOT PEER REVIEWED
2017 ISCB Accomplishment by a Senior Scientist Award: Pavel Pevzner
[version 1; peer review: not peer reviewed]
Christiana N. Fogg, Diane E. Kovats, Bonnie Berger
PUBLISHED 26 Jun 2017
https://doi.org/10.12688/f1000research.11587.1
Editorial metrics NOT PEER REVIEWED
2017 Outstanding Contributions to ISCB Award: Fran Lewitter
[version 1; peer review: not peer reviewed]
Christiana N. Fogg, Diane E. Kovats, Bonnie Berger
PUBLISHED 26 Jun 2017
https://doi.org/10.12688/f1000research.11586.1
Editorial metrics NOT PEER REVIEWED
2017 ISCB Overton Prize: Christoph Bock
[version 1; peer review: not peer reviewed]
Christiana N. Fogg, Diane E. Kovats, Bonnie Berger
PUBLISHED 26 Jun 2017
281-300 of 378 ARTICLES
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  • Methods and Tools
    The Methods and Tools Gateway Area will allow researchers to publish outputs concerning both the application and research into the use of various computational methods to analyse quantities of biological data for a range of different results, including predictions and discoveries. Read more keyboard_arrow_right
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    The Genetics & Genomics Gateway Area will enable researchers to publish content related to the analysis, storage and accessibility of DNA, RNA and protein sequences. This analysis can be conducted in a variety of ways, including comparison of sequences and relationships, identification of functions, and recognition of patterns across the samples. Read more keyboard_arrow_right
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