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https://doi.org/10.12688/f1000research.52026.2
Method Article metrics
Revised
A deep learning segmentation strategy that minimizes the amount of manually annotated images
[version 2; peer review: 2 approved]
Thierry Pécot, Alexander Alekseyenko, Kristin Wallace
Peer Reviewers Alice Lucas; Romain F Laine
  • Funder
  • Chan Zuckerberg Initiative
LATEST VERSION PUBLISHED 17 Jan 2022
https://doi.org/10.12688/f1000research.26128.2
Method Article metrics
Revised
Space-log: a novel approach to inferring gene-gene net-works using SPACE model with log penalty
[version 2; peer review: 2 approved, 1 approved with reservations]
Qian (Vicky) Wu, Wei Sun, Li Hsu
Peer Reviewers Yuying Xie and Yuning Hao; Chi Song; Jessie Jeng
  • Funder
  • National Institutes of Health
LATEST VERSION PUBLISHED 05 Jan 2022
https://doi.org/10.12688/f1000research.53821.2
Software Tool Article metrics
Revised
snpQT: flexible, reproducible, and comprehensive quality control and imputation of genomic data
[version 2; peer review: 2 approved, 1 approved with reservations]
Christina Vasilopoulou, Benjamin Wingfield, Andrew P. Morris, William Duddy
Peer Reviewers Andries T. Marees; Stephanie M. Gogarten; Anna Ulrich
  • Funders
  • Northern Ireland Public Health Agency (HSC R&D)
  • EU Regional Development Fund (ERDF) EU Sustainable Competitiveness Programme for Northern Ireland
LATEST VERSION PUBLISHED 29 Nov 2021
https://doi.org/10.12688/f1000research.72890.3
Research Article metrics
Revised
Improving the data access control using blockchain for healthcare domain
[version 3; peer review: 2 approved]
Olaosebikan Tahir Yinka, Su-Cheng Haw, Timothy Tzen Vun Yap, Samini Subramaniam
Peer Reviewers Huo Chong Ling; Heru Agus Santoso
LATEST VERSION PUBLISHED 19 Nov 2021
https://doi.org/10.12688/f1000research.54533.2
Software Tool Article metrics
Revised
RNfuzzyApp: an R shiny RNA-seq data analysis app for visualisation, differential expression analysis, time-series clustering and enrichment analysis
[version 2; peer review: 3 approved]
Margaux Haering, Bianca H Habermann
Peer Reviewers Oliver Hahn; Rhonda Bacher; Anita Grigoriadis
  • Funder
  • Agence Nationale de la Recherche
LATEST VERSION PUBLISHED 12 Nov 2021
https://doi.org/10.12688/f1000research.72865.1
Research Article metrics
The impact of testing and treatment on the dynamics of Hepatitis B virus
[version 1; peer review: 2 approved]
Olajumoke Oludoun, Olukayode Adebimpe, James Ndako, Michael Adeniyi, Oluwakemi E. Abiodun, Babatunde Gbadamosi
Peer Reviewers Sulyman Olakunle Salawu; Segun oke
  • Funder
  • There is no funding for this research
PUBLISHED 17 Sep 2021
https://doi.org/10.12688/f1000research.52341.2
Research Article metrics
Revised
Substantial impact of post-vaccination contacts on cumulative infections during viral epidemics
[version 2; peer review: 2 approved]
Nash Rochman, Yuri I Wolf, Eugene V Koonin
Peer Reviewers Sebastian Maximilian Schloer; Fyodor A. Kondrashov
  • Funder
  • U.S. Department of Health and Human Services
LATEST VERSION PUBLISHED 26 Aug 2021
https://doi.org/10.12688/f1000research.54418.1
Software Tool Article metrics
Large-scale quality assessment of prokaryotic genomes with metashot/prok-quality
[version 1; peer review: 2 approved]
Davide Albanese, Claudio Donati
Peer Reviewers Thomas S. B. Schmidt, Anthony Fullam and Askarbek Orakov; Denis Baurain
  • Funder
  • Autonomous Province of Trento (Accordo di Programma)
PUBLISHED 17 Aug 2021
https://doi.org/10.12688/f1000research.54436.1
Research Article metrics
Towards recognizing the mechanisms of effects evoked in living organisms by static magnetic field. Numerically simulated effects of the static magnetic field upon simple inorganic molecules.
[version 1; peer review: 1 approved with reservations]
Wojciech Ciesielski, Tomasz Girek, Zdzisław Oszczęda, Jacek Soroka, Piotr Tomasik
Peer Reviewers Hakki Gurhan
PUBLISHED 20 Jul 2021
https://doi.org/10.12688/f1000research.27868.3
Method Article metrics
Revised
WIND (Workflow for pIRNAs aNd beyonD): a strategy for in-depth analysis of small RNA-seq data
[version 3; peer review: 2 approved]
Konstantinos Geles, Domenico Palumbo, Assunta Sellitto, Giorgio Giurato, Eleonora Cianflone, Fabiola Marino, Daniele Torella, Valeria Mirici Cappa, Giovanni Nassa, Roberta Tarallo, Alessandro Weisz, Francesca Rizzo
Peer Reviewers Juan Pablo Tosar; Wen Yao
  • Funders
  • Italian Association for Cancer Research
  • Ministero dell’Istruzione, dell’Università e della Ricerca
  • Horizon 2020
  • Regione Campania
LATEST VERSION PUBLISHED 12 Jul 2021
https://doi.org/10.12688/f1000research.26977.2
Research Article metrics
Revised
TAPAS: Towards Automated Processing and Analysis of multi-dimensional bioimage data
[version 2; peer review: 2 approved]
Jean-François Gilles, Thomas Boudier
Peer Reviewers Robert Haase; Lit-Hsin Loo
LATEST VERSION PUBLISHED 02 Jul 2021
https://doi.org/10.12688/f1000research.24345.2
Software Tool Article metrics
Update
Interactive exploratory data analysis of Integrative Human Microbiome Project data using Metaviz
[version 2; peer review: 3 approved]
Justin Wagner, Jayaram Kancherla, Domenick Braccia, James Matsumara, Victor Felix, Jonathan Crabtree, Anup Mahurkar, Héctor Corrada Bravo
Peer Reviewers Ekaterina Smirnova; Edoardo Pasolli; Levi Waldron
  • Funder
  • National Institutes of Health
LATEST VERSION PUBLISHED 21 Jun 2021
https://doi.org/10.12688/f1000research.27395.2
Software Tool Article metrics
Revised
GeNePy3D: a quantitative geometry python toolbox for bioimaging
[version 2; peer review: 2 approved]
Minh-Son Phan, Anatole Chessel
Peer Reviewers Virginie Uhlmann; Yizhi Wang
  • Funder
  • Agence Nationale de la Recherche
LATEST VERSION PUBLISHED 17 Jun 2021
https://doi.org/10.12688/f1000research.51613.2
Data Note metrics
Revised
A draft reference assembly of the Psilocybe cubensis genome
[version 2; peer review: 2 approved]
Kevin McKernan, Liam T. Kane, Seth Crawford, Chen-Shan Chin, Aaron Trippe, Stephen McLaughlin
Peer Reviewers Jason C. Slot; Anders Goncalves da Silva and Philippe Henry
LATEST VERSION PUBLISHED 15 Jun 2021
https://doi.org/10.12688/f1000research.20446.2
Method Article metrics
Revised
Unsupervised gene selection for predicting cell spatial positions in the Drosophila embryo
[version 2; peer review: 1 approved, 1 approved with reservations, 3 not approved]
Yang Chen, Disheng Mao, Yuping Zhang, Zhengqing Ouyang
Peer Reviewers Xianwen Ren; Mark S. Cembrowski and Larissa Kraus; Yen-Chung Chen; Saumitra Dey Choudhury; Komal Kumar Bollepogu Raja
  • Funder
  • Univerisity of Connecitcut
LATEST VERSION PUBLISHED 07 Jun 2021
https://doi.org/10.12688/f1000research.53408.1
Editorial metrics NOT PEER REVIEWED
Highlights from the 16th International Society for Computational Biology Student Council Symposium 2020
[version 1; peer review: not peer reviewed]
Wim L. Cuypers, Handan Melike Dönertaş, Jasleen K. Grewal, Nazeefa Fatima, Chase Donnelly, Arvind Singh Mer, Spencer Krieger, Bart Cuypers, Farzana Rahman
PUBLISHED 04 Jun 2021
https://doi.org/10.12688/f1000research.52549.1
Method Article metrics
Supervised topic modeling for predicting molecular substructure from mass spectrometry
[version 1; peer review: 2 approved with reservations]
Gabriel K. Reder, Adamo Young, Jaan Altosaar, Jakub Rajniak, Noémie Elhadad, Michael Fischbach, Susan Holmes
Peer Reviewers Joe Wandy; Hunter N B Moseley
  • Funder
  • National Institutes of Health
PUBLISHED 19 May 2021
https://doi.org/10.12688/f1000research.52954.1
Retraction metrics NOT PEER REVIEWED
RETRACTED: A low-cost in-house HIV integrase strand transfer inhibitor drug resistance test for resource-limited settings
[version 1; peer review: not peer reviewed]
Vera M. Onwong'a, Rachael W. Gachogo, Moses M. Masika, Graeme B. Jacobs, Frank G. Onyambu
  • Funder
  • Interhealth Networks Africa scholarship INA-001
PUBLISHED 20 Apr 2021
https://doi.org/10.12688/f1000research.52531.1
Opinion Article metrics
Developing open-source software for bioimage analysis: opportunities and challenges
[version 1; peer review: 2 approved]
Florian Levet, Anne E. Carpenter, Kevin W. Eliceiri, Anna Kreshuk, Peter Bankhead, Robert Haase
Peer Reviewers Loïc A. Royer; Nico Stuurman
  • Funders
  • Deutsche Forschungsgemeinschaft
  • Institut National de la Santé et de la Recherche Médicale
  • National Institutes of Health
  • Chan Zuckerberg Initiative
PUBLISHED 19 Apr 2021
https://doi.org/10.12688/f1000research.28608.2
Method Article metrics
Revised
ASaiM-MT: a validated and optimized ASaiM workflow for metatranscriptomics analysis within Galaxy framework
[version 2; peer review: 2 approved]
Subina Mehta, Marie Crane, Emma Leith, Bérénice Batut, Saskia Hiltemann, Magnus Ø Arntzen, Benoit J. Kunath, Phillip B. Pope, Francesco Delogu, Ray Sajulga, Praveen Kumar, James E. Johnson, Timothy J. Griffin, Pratik D. Jagtap
Peer Reviewers Caitlin Simopoulos; Won Kyong Cho
  • Funders
  • National Cancer Institute
  • University of Minnesota
  • National Science Foundation
LATEST VERSION PUBLISHED 19 Apr 2021
61-80 of 380 ARTICLES
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