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https://doi.org/10.12688/f1000research.16613.2
Research Article metrics
Revised
False signals induced by single-cell imputation
[version 2; peer review: 4 approved]
Tallulah S. Andrews, Martin Hemberg
Peer Reviewers Simone Tiberi; Jean Fan; Charlotte Soneson; Stephanie C Hicks
  • Funders
  • Chan Zuckerberg Initiative
  • Wellcome Trust
LATEST VERSION PUBLISHED 05 Mar 2019
https://doi.org/10.12688/f1000research.15949.2
Software Tool Article metrics
Revised
The Mega2R package: R tools for accessing and processing genetic data in common formats
[version 2; peer review: 3 approved]
Robert V. Baron, Justin R. Stickel, Daniel E. Weeks
Peer Reviewers Dajiang J. Lui; Alejandro Q. Nato, Jr.; Derek Gordon
  • Funders
  • The University of Pittsburgh
  • National Institutes of Health
LATEST VERSION PUBLISHED 25 Feb 2019
https://doi.org/10.12688/f1000research.17916.1
Method Article metrics
Relative Abundance of Transcripts (RATs): Identifying differential isoform abundance from RNA-seq
[version 1; peer review: 1 approved, 2 approved with reservations]
Kimon Froussios, Kira Mourão, Gordon Simpson, Geoffrey J. Barton, Nicholas Schurch
Peer Reviewers Sophie Shaw; James P. B. Lloyd; Michael I. Love
  • Funders
  • Wellcome Trust
  • Biotechnology and Biological Sciences Research Council
PUBLISHED 24 Feb 2019
https://doi.org/10.12688/f1000research.14591.2
Research Article metrics
Clinical trial
Revised
A study update newsletter or Post-it® note did not increase postal questionnaire response rates in a falls prevention trial: an embedded randomised factorial trial
[version 2; peer review: 2 approved]
Sara Rodgers, Illary Sbizzera, Sarah Cockayne, Caroline Fairhurst, Sarah E. Lamb, Wesley Vernon, Judith Watson, Catherine Hewitt, David J. Torgerson
Peer Reviewers Shaun P. Treweek; Phil J. Edwards and Benjamin Woolf
  • Funders
  • National Institute for Health Research
  • York Trials Unit
LATEST VERSION PUBLISHED 19 Feb 2019
https://doi.org/10.12688/f1000research.17693.1
Research Note metrics
Massive open online courses on biomedical informatics
[version 1; peer review: 2 not approved]
Cender Udai Quispe-Juli, Victor Hugo Moquillaza-Alcántara, Katherine Arapa-Apaza
Peer Reviewers Edward Meinert; Tharindu Liyanagunawardena
  • Funder
  • Fondo Nacional de Desarrollo Científico y Tecnológico
PUBLISHED 14 Feb 2019
https://doi.org/10.12688/f1000research.16877.1
Review metrics
Chain reaction: LINC complexes and nuclear positioning
[version 1; peer review: 3 approved]
Brian Burke
Peer Reviewers Didier Hodzic; Wolfram Antonin; Daniel A Starr
  • Funder
  • National Medical Research Council, Singapore
PUBLISHED 31 Jan 2019
https://doi.org/10.12688/f1000research.16903.1
Review metrics
Recent advances in proximity-based labeling methods for interactome mapping
[version 1; peer review: 2 approved]
Laura Trinkle-Mulcahy
Peer Reviewers Arnaud Poterszman; Francois-Michel Boisvert
  • Funder
  • NSERC Discovery Grant-funded project
PUBLISHED 31 Jan 2019
https://doi.org/10.12688/f1000research.17228.1
Review metrics
Recent advances in understanding necrotizing enterocolitis
[version 1; peer review: 2 approved]
Mashriq Alganabi, Carol Lee, Edoardo Bindi, Bo Li, Agostino Pierro
Peer Reviewers Denis A. Cozzi; Jörn-Hendrik Weitkamp
  • Funders
  • Canadian Institutes of Health Research (CIHR) Foundation Grant
  • Robert M. Filler Chair of Surgery, The Hospital for Sick Children, University of Toronto
PUBLISHED 25 Jan 2019
https://doi.org/10.12688/f1000research.16450.2
Software Tool Article metrics
Revised
Improve your Galaxy text life: The Query Tabular Tool
[version 2; peer review: 3 approved]
James E. Johnson, Praveen Kumar, Caleb Easterly, Mark Esler, Subina Mehta, Arthur C. Eschenlauer, Adrian D. Hegeman, Pratik D. Jagtap, Timothy J. Griffin
Peer Reviewers Daniel Blankenberg; Maria A. Doyle; Margaret E Staton
  • Funders
  • National Institutes of Health
  • National Science Foundation
LATEST VERSION PUBLISHED 09 Jan 2019
https://doi.org/10.12688/f1000research.17518.1
Software Tool Article metrics
restfulSE: A semantically rich interface for cloud-scale genomics with Bioconductor
[version 1; peer review: 2 approved]
Shweta Gopaulakrishnan, Samuela Pollack, BJ Stubbs, Hervé Pagès, John Readey, Sean Davis, Levi Waldron, Martin Morgan, Vincent Carey
Peer Reviewers Dennis J. Hazelett; Sheila Reynolds
  • Funders
  • National Institutes of Health
  • Chan Zuckerberg Initiative
PUBLISHED 07 Jan 2019
https://doi.org/10.12688/f1000research.16255.2
Research Article metrics
Revised
Functional proteomic profiling reveals KLK13 and TMPRSS11D as active proteases in the lower female reproductive tract
[version 2; peer review: 2 approved]
Carla M.J. Muytjens, Yijing Yu, Eleftherios P. Diamandis
Peer Reviewers Georgios Pampalakis; Céline Deraison
LATEST VERSION PUBLISHED 31 Dec 2018
https://doi.org/10.12688/f1000research.17315.1
Method Article metrics
Rapid identification of novel protein families using similarity searches
[version 1; peer review: 2 approved]
Matt Jeffryes, Alex Bateman
Peer Reviewers Daniel J. Rigden; Desmond G Higgins
  • Funder
  • European Molecular Biology Laboratory
PUBLISHED 24 Dec 2018
https://doi.org/10.12688/f1000research.16245.1
Review metrics
Recent advances in managing lower urinary tract infections
[version 1; peer review: 2 approved]
Seung-Ju Lee
Peer Reviewers Linda Cardozo; Florian Wagenlehner
PUBLISHED 21 Dec 2018
https://doi.org/10.12688/f1000research.17456.1
Software Tool Article metrics
pdb-tools: a swiss army knife for molecular structures
[version 1; peer review: 2 approved]
João P. G. L. M. Rodrigues, João M.C. Teixeira, Mikaël Trellet, Alexandre M. J. J. Bonvin
Peer Reviewers Bruno L. Victor; Peter W. Rose
  • Funders
  • Niels-Stensen Fellowship
  • Horizon 2020
PUBLISHED 20 Dec 2018
https://doi.org/10.12688/f1000research.15809.2
Research Article metrics
Revised
Comparison of clustering tools in R for medium-sized 10x Genomics single-cell RNA-sequencing data
[version 2; peer review: 3 approved]
Saskia Freytag, Luyi Tian, Ingrid Lönnstedt, Milica Ng, Melanie Bahlo
Peer Reviewers Joshua W. K. Ho; Shila Ghazanfar; Stephanie C Hicks
  • Funder
  • National Health and Medical Research Council
LATEST VERSION PUBLISHED 19 Dec 2018
https://doi.org/10.12688/f1000research.17199.1
Research Article metrics
Intra-canal medication containing silver nanoparticle versus calcium hydroxide in reducing postoperative pain: A randomized clinical trial
[version 1; peer review: 1 approved, 1 approved with reservations]
Fatma El Zahraa El Abbasy, Salsabyl Ibrahim, Olfat Shaker, Geraldine Ahmed
Peer Reviewers Reham Hassan; Mothanna K. Al Rahabi
PUBLISHED 18 Dec 2018
https://doi.org/10.12688/f1000research.14509.2
Opinion Article metrics
Revised
The challenges of designing a benchmark strategy for bioinformatics pipelines in the identification of antimicrobial resistance determinants using next generation sequencing technologies
[version 2; peer review: 2 approved]
Alexandre Angers-Loustau, Mauro Petrillo, Johan Bengtsson-Palme, Thomas Berendonk, Burton Blais, Kok-Gan Chan, Teresa M. Coque, Paul Hammer, Stefanie Heß, Dafni M. Kagkli, Carsten Krumbiegel, Val F. Lanza, Jean-Yves Madec, Thierry Naas, Justin O'Grady, Valentina Paracchini, John W.A. Rossen, Etienne Ruppé, Jessica Vamathevan, Vittorio Venturi, Guy Van den Eede
Peer Reviewers Enrico Lavezzo and Giorgio Palù; Jason C. Kwong
  • Funder
  • European Commission
LATEST VERSION PUBLISHED 07 Dec 2018
https://doi.org/10.12688/f1000research.14633.1
Review metrics
Systemic instruction of cell-mediated immunity by the intestinal microbiome
[version 1; peer review: 2 approved]
John Grainger, Rufus Daw, Kelly Wemyss
Peer Reviewers Luis Vitetta; Jonathan Braun
  • Funders
  • Engineering and Physical Sciences Research Council
  • Medical Research Council (MRC) Doctoral Training Programme at The University of Manchester
  • The Wellcome Trust
PUBLISHED 07 Dec 2018
https://doi.org/10.12688/f1000research.16905.1
Software Tool Article metrics
ProbeSpec: batch specificity testing and visualization of oligonucleotide probe sets implemented in ARB
[version 1; peer review: 2 approved with reservations]
Tim Kahlke, Paavo Jumppanen, Ralf Westram, Guy C.G. Abell, Levente Bodrossy
Peer Reviewers Michael Dondrup; Jizhong Zhou and Naijia Xiao
  • Funder
  • Commonwealth Scientific and Industrial Research Organisation
PUBLISHED 06 Dec 2018
https://doi.org/10.12688/f1000research.16338.1
Software Tool Article metrics
An accessible GenePattern notebook for the copy number variation analysis of Illumina Infinium DNA methylation arrays
[version 1; peer review: 2 approved]
Clarence K. Mah, Jill P. Mesirov, Lukas Chavez
Peer Reviewers Robert  Ivanek; Aris Floratos
  • Funder
  • National Institutes of Health
PUBLISHED 05 Dec 2018
321-340 of 631 ARTICLES
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