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https://doi.org/10.12688/f1000research.28033.2
Software Tool Article metrics
Revised
HGNChelper: identification and correction of invalid gene symbols for human and mouse
[version 2; peer review: 3 approved]
Sehyun Oh, Jasmine Abdelnabi, Ragheed Al-Dulaimi, Ayush Aggarwal, Marcel Ramos, Sean Davis, Markus Riester, Levi Waldron
Peer Reviewers Mikhail G. Dozmorov; Susan Tweedie; Marcin Cieślik
  • Funder
  • National Institutes of Health
LATEST VERSION PUBLISHED 09 Jun 2022
https://doi.org/10.12688/f1000research.121637.1
Genome Note metrics
The complete genome sequence of elite bread wheat cultivar, “Sonmez”
[version 1; peer review: 3 approved]
Bala Ani Akpinar, Philippe Leroy, Nathan Watson-Haigh, Ute Baumann, Valerie Barbe, Hikmet Budak
Peer Reviewers Søren K. Rasmussen; Zahide Neslihan Öztürk Gökçe; Gabriel Doredo Perez
  • Funder
  • Budak Family Foundation (BFF)
PUBLISHED 06 Jun 2022
https://doi.org/10.12688/f1000research.121706.1
Genome Note metrics
Genome of the lepidopleurid chiton Hanleya hanleyi (Mollusca, Polyplacophora)
[version 1; peer review: 2 approved]
Rebecca M. Varney, Meghan K. Yap-Chiongco, Nina T. Mikkelsen, Kevin M. Kocot
Peer Reviewers Vanessa L. Gonzalez; Samuel Abalde
  • Funders
  • The Norwegian Biodiversity Information Centre
  • National Science Foundation
PUBLISHED 23 May 2022
https://doi.org/10.12688/f1000research.109080.2
Opinion Article metrics
Revised
Recommendations for the formatting of Variant Call Format (VCF) files to make plant genotyping data FAIR
[version 2; peer review: 2 approved]
Sebastian Beier, Anne Fiebig, Cyril Pommier, Isuru Liyanage, Matthias Lange, Paul J. Kersey, Stephan Weise, Richard Finkers, Baron Koylass, Timothee Cezard, Mélanie Courtot, Bruno Contreras-Moreira, Guy Naamati, Sarah Dyer, Uwe Scholz
Peer Reviewers Boas Pucker and Alenka Hafner; Micha M. Bayer
  • Funders
  • ELIXIR
  • Bundesministerium für Bildung und Forschung
  • Horizon 2020 Framework Programme
LATEST VERSION PUBLISHED 19 May 2022
https://doi.org/10.12688/f1000research.26709.2
Research Article metrics
Revised
Thank Martin Luther that ciprofloxacin could cure your gonorrhoea? Ecological association between Protestantism and antimicrobial consumption in 30 European countries
[version 2; peer review: 1 approved, 2 approved with reservations]
Chris Kenyon, Geoffrey Fatti
Peer Reviewers Christoph M. Tang; Peter J Collignon; Harvey Morgan Scott
LATEST VERSION PUBLISHED 06 May 2022
https://doi.org/10.12688/f1000research.110726.1
Research Article metrics
Associations among smoking, IDH mutations, MGMT promoter methylation, and grading in glioma: a cross-sectional study
[version 1; peer review: 1 approved with reservations, 1 not approved]
Rusdy Ghazali Malueka, Rachmat Andi Hartanto, Maria Alethea, Christina Megawimanti Sianipar, Adiguno Suryo Wicaksono, Endro Basuki, Kusumo Dananjoyo, Ahmad Asmedi, Ery Kus Dwianingsih
Peer Reviewers I. Putu Eka Widyadharma; Alberto Picca
  • Funder
  • PDUPT Grant from the Indonesian Ministry of Education, Culture, Research, and Technology
PUBLISHED 29 Apr 2022
https://doi.org/10.12688/f1000research.108549.1
Genome Note metrics PEER REVIEW DISCONTINUED
The complete genome sequences of Erythroxylum coca and Erythroxylum novogranatense
[version 1; peer review: peer review discontinued]
Dawson M. White, Lyndel Meinhardt, Bryan Bailey, Stacy Pirro
Peer Reviewers Invited
  • Funder
  • IRIDIAN GENOMES
PUBLISHED 25 Apr 2022
https://doi.org/10.12688/f1000research.110799.1
Genome Note metrics
The complete mitochondrial genome sequencing of the Asian lesser white-toothed shrew (Crocidura shantungensis Miller, 1901; Eulipotyphla: Soricidae) from Jeju of Korea
[version 1; peer review: 2 approved with reservations]
Seo-Jin Lee, Dong-Hee Kim, Hang Lee
Peer Reviewers Rogelio Rosas-Valdez; Sadık Demirtaş
  • Funder
  • National Research Foundation of Korea
PUBLISHED 22 Apr 2022
https://doi.org/10.12688/f1000research.51018.2
Brief Report metrics
Revised
Overlap of vitamin A and vitamin D target genes with CAKUT-related processes
[version 2; peer review: 2 approved, 2 approved with reservations]
Ozan Ozisik, Friederike Ehrhart, Chris T. Evelo, Alberto Mantovani, Anaı̈s Baudot
Peer Reviewers Elena Menegola; Matias Simons; Olivia Angelin-Bonnet; Sean Eddy
  • Funders
  • Horizon 2020
  • The Excellence Initiative of Aix-Marseille University - A*Midex
LATEST VERSION PUBLISHED 21 Apr 2022
https://doi.org/10.12688/f1000research.110936.1
Research Article metrics
TReNCo: Topologically associating domain (TAD) aware regulatory network construction
[version 1; peer review: 2 not approved]
Christopher Bennett, Viren Amin, Daehwan Kim, Murat Can Cobanoglu, Venkat Malladi
Peer Reviewers Junbai Wang; Sonika Tyagi
  • Funders
  • National Institute of General Medical Sciences
  • Cancer Prevention and Research Institute of Texas
PUBLISHED 14 Apr 2022
https://doi.org/10.12688/f1000research.73112.2
Study Protocol metrics
Revised
A study protocol for the cardiac effects of a single dose of either oxytocin 2.5 IU or carbetocin 100 µg after caesarean delivery: a prospective randomized controlled multi-centre trial in Norway
[version 2; peer review: 2 approved]
Maria Bekkenes, Marte Morin Jørgensen, Anne Flem Jacobsen, Morten Wang Fagerland, Helene Rakstad-Larsen, Ole Geir Solberg, Lars Aaberge, Olav Klingenberg, Trude Steinsvik, Leiv Arne Rosseland
Peer Reviewers Pamela J. Angle; Kim Ekelund and Kim Lindelof
  • Funders
  • Akershus Universitetssykehus
  • Ferring Pharmaceuticals
  • Oslo University Hospital
LATEST VERSION PUBLISHED 14 Apr 2022
https://doi.org/10.12688/f1000research.54449.2
Research Article metrics
Revised
Philympics 2021: Prophage Predictions Perplex Programs
[version 2; peer review: 1 approved, 1 approved with reservations]
Michael J. Roach, Katelyn McNair, Maciej Michalczyk, Sarah K Giles, Laura K Inglis, Evan Pargin, Jakub Barylski, Simon Roux, Przemysław Decewicz, Robert A. Edwards
Peer Reviewers Franklin Nobrega; Karthik Anantharaman and Kristopher Kieft
  • Funder
  • NIH National Institute Of Diabetes And Digestive And Kidney Diseases
LATEST VERSION PUBLISHED 08 Apr 2022
https://doi.org/10.12688/f1000research.108799.1
Brief Report metrics
A Sanger sequencing-based method for a rapid and economic generation of SARS-CoV-2 epidemiological data: A proof of concept study to assess the prevalence of the A23403G SNP (D614G) mutation in Quito, Ecuador.
[version 1; peer review: 1 approved with reservations, 1 not approved]
Paula Leoro-Garzón, Galo Leoro-Monroy, David Ortega-Paredes, Marco Larrea-Álvarez, Gabriel Molina-Cuasapaz, Pablo González-Andrade, Gabriela Sevillano, Camilo Zurita-Salinas, Jeannete Zurita
Peer Reviewers Fernanda de-Paris and Grazielle Motta Rodrigues; Anissa Chouikha
  • Funders
  • Unidad de Investigaciones en Biomedicina. Zurita & Zurita Laboratorios
  • Laboratorio Clinico Inmunolab
  • VetNAAT Laboratory
PUBLISHED 31 Mar 2022
https://doi.org/10.12688/f1000research.76154.1
Software Tool Article metrics
IsoAligner: dynamic mapping of amino acid positions across protein isoforms
[version 1; peer review: 2 approved with reservations]
Jacob Hanimann, Holger Moch, Martin Zoche, Abdullah Kahraman
Peer Reviewers James D Stephenson; Laurens van de Wiel
PUBLISHED 31 Mar 2022
https://doi.org/10.12688/f1000research.51494.2
Method Article metrics
Revised
The National Ecological Observatory Network’s soil metagenomes: assembly and basic analysis
[version 2; peer review: 1 approved, 2 approved with reservations]
Zoey R. Werbin, Briana Hackos, Jorge Lopez-Nava, Michael C. Dietze, Jennifer M. Bhatnagar
Peer Reviewers Naupaka Zimmerman; William Nelson; Olubukola Oluranti Babalola
  • Funder
  • National Science Foundation
LATEST VERSION PUBLISHED 23 Mar 2022
https://doi.org/10.12688/f1000research.84360.1
Review metrics
Automated human chromosome segmentation and feature extraction: Current trends and prospects
[version 1; peer review: 2 approved with reservations]
Umaya Bhashini Balagalla, Jagath Samarabandu, Akila Subasinghe
Peer Reviewers Mousami Munot; Lamiaa Elrefae
PUBLISHED 11 Mar 2022
https://doi.org/10.12688/f1000research.54864.2
Research Article metrics
Revised
The need to reassess single-cell RNA sequencing datasets: the importance of biological sample processing
[version 2; peer review: 2 approved]
Alex M. Ascensión, Marcos J. Araúzo-Bravo, Ander Izeta
Peer Reviewers Xiao Long and Zhujun Li; (Jo) Huiqing Zhou
  • Funders
  • Hezkuntza, Hizkuntza Politika Eta Kultura Saila, Eusko Jaurlaritza
  • Instituto de Salud Carlos III
  • Horizon 2020
  • European Regional Development Fund
LATEST VERSION PUBLISHED 08 Mar 2022
https://doi.org/10.12688/f1000research.27657.2
Research Article metrics
Revised
First report of Serratia marcescens associated with black rot of Citrus sinensis fruit, and evaluation of its biological control measures in Bangladesh
[version 2; peer review: 2 approved, 1 approved with reservations]
Mohammed Faruk Hasan, Mohammed Asadul Islam, Biswanath Sikdar
Peer Reviewers Kator Liamngee; Mapotso Kena; Ciamak Ghazaei
  • Funder
  • Ministry of Education, Government of the People's Republic of Bangladesh
LATEST VERSION PUBLISHED 04 Mar 2022
https://doi.org/10.12688/f1000research.83714.1
Software Tool Article metrics
pTITAN2: Permutation of treatment labels and Threshold Indicator Taxa ANalysis
[version 1; peer review: 1 approved, 1 not approved]
Stephanie Figary, Peter DeWitt, Naomi Detenbeck
Peer Reviewers Cajo J. F. ter Braak; Jonathan A Walter
  • Funder
  • U.S. Environmental Protection Agency
PUBLISHED 02 Mar 2022
https://doi.org/10.12688/f1000research.23790.2
Method Article metrics
Revised
How to build phylogenetic species trees with OMA
[version 2; peer review: 2 approved]
David Dylus, Yannis Nevers, Adrian M. Altenhoff, Antoine Gürtler, Christophe Dessimoz, Natasha M. Glover
Peer Reviewers Jianbo Xie; Denis Baurain
  • Funders
  • Swiss National Science Foundation
  • Swiss Institute of Bioinformatics
LATEST VERSION PUBLISHED 28 Feb 2022
141-160 of 2,028 ARTICLES
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