All Research Articles

Home Browse Articles
341-360 of 638 ARTICLES
Previous Next
 in 
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
https://doi.org/10.12688/f1000research.9227.2
Research Article metrics
Revised
NG-Tax, a highly accurate and validated pipeline for analysis of 16S rRNA amplicons from complex biomes
[version 2; peer review: 2 approved, 1 approved with reservations, 1 not approved]
Javier Ramiro-Garcia, Gerben D. A. Hermes, Christos Giatsis, Detmer Sipkema, Erwin G. Zoetendal, Peter J. Schaap, Hauke Smidt
Peer Reviewers Thomas S. B. Schmidt; Julien Tremblay; Fiona Fouhy; George Watts and Bonnie L Hurwitz
  • Funders
  • Top Institute Food and Nutrition
  • European Community’s Seventh Framework Program
LATEST VERSION PUBLISHED 23 Nov 2018
https://doi.org/10.12688/f1000research.15486.2
Method Article metrics
Revised
Identifying communities from multiplex biological networks by randomized optimization of modularity
[version 2; peer review: 3 approved, 1 approved with reservations]
Gilles Didier, Alberto Valdeolivas, Anaïs Baudot
Peer Reviewers Emre Guney; Lenore J. Cowen; Yasir Suhail; Arda Halu
  • Funders
  • Excellence Initiative of Aix- Marseille University
  • French “Plan Cancer 2009–2013”
  • Centre National de la Recherche Scientifique
LATEST VERSION PUBLISHED 22 Nov 2018
https://doi.org/10.12688/f1000research.16409.2
Software Tool Article metrics
Revised
gganatogram: An R package for modular visualisation of anatograms and tissues based on ggplot2
[version 2; peer review: 2 approved]
Jesper L.V. Maag
Peer Reviewers Helder I. Nakaya; Saskia Freytag
LATEST VERSION PUBLISHED 20 Nov 2018
https://doi.org/10.12688/f1000research.15868.1
Review metrics
Making progress in a rare disease: emerging therapeutics in soft tissue sarcomas
[version 1; peer review: 2 approved]
Jennifer Choe, Richard Riedel
Peer Reviewers Shreyaskumar Patel; Bernd Kasper
PUBLISHED 02 Nov 2018
https://doi.org/10.12688/f1000research.16680.1
Software Tool Article metrics
ranacapa: An R package and Shiny web app to explore environmental DNA data with exploratory statistics and interactive visualizations
[version 1; peer review: 1 approved, 2 approved with reservations]
Gaurav S. Kandlikar, Zachary J. Gold, Madeline C. Cowen, Rachel S. Meyer, Amanda C. Freise, Nathan J.B. Kraft, Jordan Moberg-Parker, Joshua Sprague, David J. Kushner, Emily E. Curd
Peer Reviewers Tristan Cordier; Holly M. Bik; Niklaus J. Grünwald and Zach Foster
  • Funders
  • University of California President’s Research Catalyst Awards
  • National Science Foundation
PUBLISHED 01 Nov 2018
https://doi.org/10.12688/f1000research.13349.2
Method Article metrics PEER REVIEW DISCONTINUED
Revised
Fast P(RMNE): Fast forensic DNA probability of random man not excluded calculation
[version 2; peer review: peer review discontinued]
Darrell O. Ricke, Steven Schwartz
Peer Reviewers Invited
  • Funder
  • Assistant Secretary of Defense for Research & Engineering
LATEST VERSION PUBLISHED 31 Oct 2018
https://doi.org/10.12688/f1000research.16301.2
Software Tool Article metrics
Revised
Increasing workflow development speed and reproducibility with Vectools
[version 2; peer review: 2 approved]
Tyler Weirick, Raphael Müller, Shizuka Uchida
Peer Reviewers Yutaka Saito; Dimitar Vassilev
  • Funders
  • Deutsche Forschungsgemeinschaft
  • Gheens Foundation
  • University of Louisville
LATEST VERSION PUBLISHED 23 Oct 2018
https://doi.org/10.12688/f1000research.15393.1
Review metrics
Recent advances in lung transplantation
[version 1; peer review: 2 approved]
Keith C Meyer
Peer Reviewers Donald Hayes; Matthew G Hartwig
  • Funder
  • Partial support from George and Julie Mosher Pulmonary Research Fund
PUBLISHED 23 Oct 2018
https://doi.org/10.12688/f1000research.14385.1
Review metrics
What is the hologenome concept of evolution?
[version 1; peer review: 2 approved]
J. Jeffrey Morris
Peer Reviewers Seth Bordenstein; Kevin R Theis
  • Funder
  • National Science Foundation
PUBLISHED 19 Oct 2018
https://doi.org/10.12688/f1000research.16516.1
Method Article metrics
Orchestrating a community-developed computational workshop and accompanying training materials
[version 1; peer review: 2 approved]
Sean Davis, Marcel Ramos, Lori Shepherd, Nitesh Turaga, Ludwig Geistlinger, Martin T. Morgan, Benjamin Haibe-Kains, Levi Waldron
Peer Reviewers Ewy Mathe; Kevin Blighe
  • Funders
  • Horizon 2020
  • National Cancer Institute
  • National Human Genome Research Institute
PUBLISHED 17 Oct 2018
https://doi.org/10.12688/f1000research.13197.2
Software Tool Article metrics
Revised
Explicit interaction information from WikiPathways in RDF facilitates drug discovery in the Open PHACTS Discovery Platform
[version 2; peer review: 2 approved]
Ryan A. Miller, Peter Woollard, Egon L. Willighagen, Daniela Digles, Martina Kutmon, Antonis Loizou, Andra Waagmeester, Stefan Senger, Chris T. Evelo
Peer Reviewers Augustin Luna; Yi-An Chen
  • Funder
  • Innovative Medicines Initiative Joint Undertaking
LATEST VERSION PUBLISHED 12 Oct 2018
https://doi.org/10.12688/f1000research.15398.3
Method Article metrics
Revised
Swimming downstream: statistical analysis of differential transcript usage following Salmon quantification
[version 3; peer review: 3 approved]
Michael I. Love, Charlotte Soneson, Rob Patro
Peer Reviewers Kristoffer Vitting-Seerup and Malte Thodberg; Alicia Oshlack and Marek Cmero; Nick Schurch
  • Funders
  • National Institute of Environmental Health Sciences
  • National Cancer Institute
  • National Human Genome Research Institute
  • National Science Foundation
LATEST VERSION PUBLISHED 01 Oct 2018
https://doi.org/10.12688/f1000research.15789.2
Software Tool Article metrics
Revised
TRGAted: A web tool for survival analysis using protein data in the Cancer Genome Atlas.
[version 2; peer review: 2 approved]
Nicholas Borcherding, Nicholas L. Bormann, Andrew P. Voigt, Weizhou Zhang
Peer Reviewers Jean Claude Zenklusen; Austin Gillen
  • Funder
  • National Cancer Institute
LATEST VERSION PUBLISHED 01 Oct 2018
341-360 of 638 ARTICLES
Previous Next
PUBLISH YOUR RESEARCH
Articles
We publish a wide range of article types in science, engineering, medicine, social sciences and humanities, with no editorial biases.
SUBMIT AN ARTICLE
See guidelines and policies.
Sign In
If you've forgotten your password, please enter your email address below and we'll send you instructions on how to reset your password.

The email address should be the one you originally registered with F1000.
Email address not valid, please try again

You registered with F1000 via Google, so we cannot reset your password.

To sign in, please click here.

If you still need help with your Google account password, please click here.

You registered with F1000 via Facebook, so we cannot reset your password.

To sign in, please click here.

If you still need help with your Facebook account password, please click here.

Code not correct, please try again
Email us for further assistance.
Server error, please try again.