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https://doi.org/10.12688/f1000research.7428.1
Method Article metrics
Detecting “protein words” through unsupervised word segmentation
[version 1; peer review: 1 approved with reservations, 1 not approved]
Wang Liang, Zhao Kaiyong
Peer Reviewers Rahul Banerjee; Judith Klein-Seetharaman
PUBLISHED 30 Dec 2015
https://doi.org/10.12688/f1000research.6804.3
Software Tool Article metrics
Revised
Social Network: a Cytoscape app for visualizing co-authorship networks
[version 3; peer review: 1 approved, 2 approved with reservations]
Victor Kofia, Ruth Isserlin, Alison M.J. Buchan, Gary D. Bader
Peer Reviewers Michael Bales and Terrie Wheeler; Jiang Bian; Shahadat Uddin
LATEST VERSION PUBLISHED 23 Dec 2015
https://doi.org/10.12688/f1000research.7181.1
Review metrics
Management and Prevention of Anaphylaxis
[version 1; peer review: 2 approved]
Anne-Marie Irani, Elias G. Akl
Peer Reviewers Victòria Cardona; Sally E. Wenzel and Merritt Fajt
PUBLISHED 22 Dec 2015
https://doi.org/10.12688/f1000research.6866.1
Review metrics
Getting to the core of cadherin complex function in Caenorhabditis elegans
[version 1; peer review: 3 approved]
Jeff Hardin
Peer Reviewers Albert Reynolds; David Sherwood; Carien Niessen
PUBLISHED 18 Dec 2015
https://doi.org/10.12688/f1000research.7536.1
Software Tool Article metrics
BioShaDock: a community driven bioinformatics shared Docker-based tools registry
[version 1; peer review: 2 approved]
François Moreews, Olivier Sallou, Hervé Ménager, Yvan Le bras, Cyril Monjeaud, Christophe Blanchet, Olivier Collin
Peer Reviewers Rodrigo Lopez; Björn A. Grüning
PUBLISHED 14 Dec 2015
https://doi.org/10.12688/f1000research.7453.1
Software Tool Article metrics
Crambled: A Shiny application to enable intuitive resolution of conflicting cellularity estimates
[version 1; peer review: 2 approved]
Andy G. Lynch
Peer Reviewers Jan Oosting; Ingrid Lönnstedt
PUBLISHED 07 Dec 2015
https://doi.org/10.12688/f1000research.6896.1
Review metrics
Advances in understanding and managing bullous pemphigoid
[version 1; peer review: 2 approved]
Cathy Y. Zhao, Dedee F. Murrell
Peer Reviewers Zhi Liu; Cassian Sitaru
PUBLISHED 20 Nov 2015
https://doi.org/10.12688/f1000research.7334.1
Software Tool Article metrics
HiCUP: pipeline for mapping and processing Hi-C data
[version 1; peer review: 2 approved, 1 approved with reservations]
Steven W. Wingett, Philip Ewels, Mayra Furlan-Magaril, Takashi Nagano, Stefan Schoenfelder, Peter Fraser, Simon Andrews
Peer Reviewers Ferhat Ay; Juan M. Vaquerizas and Kruse Kai; Nicola Neretti
PUBLISHED 20 Nov 2015
https://doi.org/10.12688/f1000research.6972.1
Review metrics
Advances in understanding and managing atopic dermatitis
[version 1; peer review: 2 approved]
Michael Barton, Robert Sidbury
Peer Reviewers Lawrence F Eichenfield; Peter A. Lio
PUBLISHED 19 Nov 2015
https://doi.org/10.12688/f1000research.5754.2
Software Tool Article metrics
Revised
G-Links: a gene-centric link acquisition service
[version 2; peer review: 2 approved]
Kazuki Oshita, Masaru Tomita, Kazuharu Arakawa
Peer Reviewers Mark A. Ragan and Sriganesh Srihari; Kenji Satou
LATEST VERSION PUBLISHED 18 Nov 2015
https://doi.org/10.12688/f1000research.6617.2
Research Article metrics
Revised
YeATS - a tool suite for analyzing RNA-seq derived transcriptome identifies a highly transcribed putative extensin in heartwood/sapwood transition zone in black walnut
[version 2; peer review: 3 approved]
Sandeep Chakraborty, Monica Britton, Jill Wegrzyn, Timothy Butterfield, Pedro José Martínez-García, Russell L. Reagan, Basuthkar J. Rao, Charles A. Leslie, Mallikarjuna Aradhaya, David Neale, Keith Woeste, Abhaya M. Dandekar
Peer Reviewers Varodom Charoensawan; Michael I. Love; Binay Panda
LATEST VERSION PUBLISHED 06 Nov 2015
https://doi.org/10.12688/f1000research.6656.2
Software Tool Article metrics
Revised
NetMatchStar: an enhanced Cytoscape network querying app
[version 2; peer review: 2 approved]
Fabio Rinnone, Giovanni Micale, Vincenzo Bonnici, Gary D. Bader, Dennis Shasha, Alfredo Ferro, Alfredo Pulvirenti, Rosalba Giugno
Peer Reviewers Xifeng Yan; Shaillay Dogra
LATEST VERSION PUBLISHED 03 Nov 2015
https://doi.org/10.12688/f1000research.6030.2
Software Tool Article metrics
Revised
AGA: Interactive pipeline for reproducible gene expression and DNA methylation data analyses
[version 2; peer review: 2 approved]
Michael Considine, Hilary Parker, Yingying Wei, Xaio Xia, Leslie Cope, Michael Ochs, Elana Fertig
Peer Reviewers Subha Madhavan; Matthew McCall
LATEST VERSION PUBLISHED 21 Oct 2015
https://doi.org/10.12688/f1000research.7146.1
Method Article metrics
AnalogExplorer2 – Stereochemistry sensitive graphical analysis of large analog series
[version 1; peer review: 2 approved]
Ye Hu, Bijun Zhang, Martin Vogt, Jürgen Bajorath
Peer Reviewers Peter Ertl; Carleton Sage
PUBLISHED 09 Oct 2015
https://doi.org/10.12688/f1000research.6924.1
Software Tool Article metrics
The khmer software package: enabling efficient nucleotide sequence analysis
[version 1; peer review: 2 approved, 1 approved with reservations]
Michael R. Crusoe, Hussien F. Alameldin, Sherine Awad, Elmar Boucher, Adam Caldwell, Reed Cartwright, Amanda Charbonneau, Bede Constantinides, Greg Edvenson, Scott Fay, Jacob Fenton, Thomas Fenzl, Jordan Fish, Leonor Garcia-Gutierrez, Phillip Garland, Jonathan Gluck, Iván González, Sarah Guermond, Jiarong Guo, Aditi Gupta, Joshua R. Herr, Adina Howe, Alex Hyer, Andreas Härpfer, Luiz Irber, Rhys Kidd, David Lin, Justin Lippi, Tamer Mansour, Pamela McA'Nulty, Eric McDonald, Jessica Mizzi, Kevin D. Murray, Joshua R. Nahum, Kaben Nanlohy, Alexander Johan Nederbragt, Humberto Ortiz-Zuazaga, Jeramia Ory, Jason Pell, Charles Pepe-Ranney, Zachary N. Russ, Erich Schwarz, Camille Scott, Josiah Seaman, Scott Sievert, Jared Simpson, Connor T. Skennerton, James Spencer, Ramakrishnan Srinivasan, Daniel Standage, James A. Stapleton, Susan R. Steinman, Joe Stein, Benjamin Taylor, Will Trimble, Heather L. Wiencko, Michael Wright, Brian Wyss, Qingpeng Zhang, en zyme, C. Titus Brown
Peer Reviewers Ewan Birney; Daniel S. Katz; Rob Patro
PUBLISHED 25 Sep 2015
https://doi.org/10.12688/f1000research.6773.1
Software Tool Article metrics
SLiMScape 3.x: a Cytoscape 3 app for discovery of Short Linear Motifs in protein interaction networks
[version 1; peer review: 2 approved]
Emily Olorin, Kevin T. O'Brien, Nicolas Palopoli, Åsa Pérez-Bercoff, Denis C. Shields, Richard J. Edwards
Peer Reviewers Ulrich Stelzl; Srikrishna Subramanian and Gurmeet Kaur
PUBLISHED 05 Aug 2015
https://doi.org/10.12688/f1000research.4477.2
Software Tool Article metrics
Revised
Biological network analysis with CentiScaPe: centralities and experimental dataset integration
[version 2; peer review: 2 approved]
Giovanni Scardoni, Gabriele Tosadori, Mohammed Faizan, Fausto Spoto, Franco Fabbri, Carlo Laudanna
Peer Reviewers Ferenc Jordan; Ankush Sharma
LATEST VERSION PUBLISHED 07 Jul 2015
https://doi.org/10.12688/f1000research.6679.1
Data Note metrics
High-resolution 7-Tesla fMRI data on the perception of musical genres – an extension to the studyforrest dataset
[version 1; peer review: 2 approved with reservations]
Michael Hanke, Richard Dinga, Christian Häusler, J. Swaroop Guntupalli, Michael Casey, Falko R. Kaule, Jörg Stadler
Peer Reviewers Cristiano Micheli and Jochem Rieger; Karsten Müller
PUBLISHED 29 Jun 2015
https://doi.org/10.12688/f1000research.6238.2
Software Tool Article metrics
Revised
Kvik: three-tier data exploration tools for flexible analysis of genomic data in epidemiological studies
[version 2; peer review: 1 approved, 2 approved with reservations]
Bjørn Fjukstad, Karina Standahl Olsen, Mie Jareid, Eiliv Lund, Lars Ailo Bongo
Peer Reviewers Paul Klemm; Zhenjun Hu; Lilit Nersisyan
LATEST VERSION PUBLISHED 16 Jun 2015
https://doi.org/10.12688/f1000research.6271.2
Method Article metrics
Revised
Follow-up: Prospective compound design using the ‘SAR Matrix’ method and matrix-derived conditional probabilities of activity
[version 2; peer review: 4 approved]
Disha Gupta-Ostermann, Yoichiro Hirose, Takenao Odagami, Hiroyuki Kouji, Jürgen Bajorath
Peer Reviewers Hans Matter; Georgia B. McGaughey; Stefan A Laufer; Dragos Horvath
LATEST VERSION PUBLISHED 15 Apr 2015
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