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https://doi.org/10.12688/f1000research.159115.2
Genome Note metrics
Revised
The first mitochondrial genome of Haemagogus equinus from Jamaica
[version 2; peer review: 2 approved, 1 approved with reservations]
Simone L. Sandiford, Simmoy A. A. Noble, Samra A. Pierre, Douglas E. Norris, Renee Ali
Peer Reviewers Din Syafruddin and Puji Budi Setia Asih; Craig Wilding; Alexey Makunin
  • Funders
  • NSF-Accelerator Project D-688: Computing the Biome
  • Global Infectious Diseases Research Training Program
  • Johns Hopkins Malaria Research Institute and Bloomberg Philanthropies
  • University at Buffalo Clinical and Translational Science Institute
LATEST VERSION PUBLISHED 02 Jul 2025
https://doi.org/10.12688/f1000research.164319.1
Software Tool Article metrics
Improving rigor and reproducibility in chromatin immunoprecipitation assay data analysis workflows with Rocketchip
[version 1; peer review: 1 approved, 1 approved with reservations]
Viktoria Haghani, Aditi Goyal, Alan Zhang, Osman Sharifi, Natasha Mariano, Dag Yasui, Ian Korf, Janine LaSalle
Peer Reviewers Zhengyao Shao; Karol Bomsztyk
  • Funders
  • Rett Syndrome Research Trust
  • Autism Science Foundation
  • National Institutes of Health
PUBLISHED 25 Jun 2025
https://doi.org/10.12688/f1000research.163152.1
Research Article metrics
Leveraging Synthetic Data to Validate a Benchmark Study for Differential Abundance Tests for 16S Microbiome Sequencing Data 
[version 1; peer review: 2 approved with reservations]
Eva Kohnert, Clemens Kreutz
Peer Reviewers Aaron W Miller; Graziano Pesole and Giuseppe Defazio
PUBLISHED 25 Jun 2025
https://doi.org/10.12688/f1000research.162911.2
Research Article metrics
Revised
Region-wise landmarks-based feature extraction employing SIFT, SURF, and ORB feature descriptors to recognize Monozygotic twins from 2D/3D Facial Images
[version 2; peer review: 3 approved]
Gangothri Sanil, Krishna Prakasha K, Srikanth Prabhu, Vinod Nayak, Aparna Jayakala
Peer Reviewers Dhimas Tribuana; Muhammad Arslan Rauf; Siew Chin Chong
LATEST VERSION PUBLISHED 20 Jun 2025
https://doi.org/10.12688/f1000research.164918.1
Systematic Review metrics AWAITING PEER REVIEW
Impact of industrial wastewater on the microbiome and resistome of waterbodies: a systematic review
[version 1; peer review: awaiting peer review]
Olukayode Adebola Ibitoye, Abdulganiy Babatunde Agbaje, Chinyere Anyanwu, Ilemobayo Victor Fasogbon, Reuben Samson Dangana, Saheed Adekunle Akinola, Reuben S. Magehembe
Peer Reviewers Invited
PUBLISHED 19 Jun 2025
https://doi.org/10.12688/f1000research.160217.2
Data Note metrics
Revised
A guide to selecting high-performing antibodies for Stearoyl-CoA desaturase (SCD1) (UniProt ID: O00767) for use in western blot, immunoprecipitation, and immunofluorescence
[version 2; peer review: 1 approved, 2 approved with reservations]
Vera Ruíz Moleón, Charles Alende, Maryam Fotouhi, Sara González Bolívar, Riham Ayoubi, Carl Laflamme, NeuroSGC/YCharOS/EDDU collaborative group, ABIF consortium
Peer Reviewers Cecilia Williams and Matilda Holm; Michael L. Garelja; Deborah Moshinsky
  • Funders
  • Ontario Genomics
  • Michael J. Fox Foundation for Parkinson's Research
  • Génome Québec
  • Mitacs
  • Genome Canada
LATEST VERSION PUBLISHED 13 Jun 2025
https://doi.org/10.12688/f1000research.162496.1
Method Article metrics
Generation of human iPSC-derived pancreatic organoids to study pancreas development and disease
[version 1; peer review: 2 approved, 3 approved with reservations]
Jean-Francois Darrigrand, Abigail Isaacson, Francesca Maria Spagnoli
Peer Reviewers Christof Westenfelder; Ilse Rooman; Maria Cristina Nostro; Mostafa Bakhti and Christos Karampelias; Naoki Tanimizu
  • Funders
  • National Centre for the Replacement, Refinement and Reduction of Animals in Research
  • Wellcome Trust PhD programme PhD studentship
PUBLISHED 10 Jun 2025
https://doi.org/10.12688/f1000research.155223.2
Review metrics
Revised
Selecting differential splicing methods: Practical considerations for short-read RNA sequencing
[version 2; peer review: 2 approved, 3 approved with reservations]
Ben J. Draper, Mark J. Dunning, David C. James
Peer Reviewers Stefano Donega; Charlotte Capitanchik; Julia Olivieri; Zhaoqi Liu; Monica Salinas and Juan Valcarcel
  • Funders
  • Lonza Biologics plc
  • University of Sheffield
LATEST VERSION PUBLISHED 30 May 2025
https://doi.org/10.12688/f1000research.163843.1
Research Article metrics
Differences between human male and female neutrophils with respect to which RNAs are present in polysomes
[version 1; peer review: 1 not approved]
Darrell Pilling, Kristen M. Consalvo, Sara A. Kirolos, Richard H. Gomer
Peer Reviewers Sebastian Korste
  • Funder
  • National Institutes of Health
PUBLISHED 30 May 2025
https://doi.org/10.12688/f1000research.160304.2
Research Article metrics
Revised
A highly sensitive enzyme‑linked immunosorbent assay allows accurate measurements of brain‑derived neurotrophic factor levels in human saliva
[version 2; peer review: 2 approved, 1 approved with reservations, 1 not approved]
Fumie Akutsu, Shiro Sugino, Mitsuo Watanabe, Yves-Alain Barde, Masaaki Kojima
Peer Reviewers Bijorn Omar Balzamino; Elizabeth A Thomas; Sedat Yildiz; Emad Al-Dujaili
  • Funder
  • FUJIFILM Wako Pure Chemical Corporation
LATEST VERSION PUBLISHED 22 May 2025
https://doi.org/10.12688/f1000research.160839.2
Research Article metrics
Revised
Vitamin D binding protein rs7041 and rs4588 gene polymorphisms in Ugandan tuberculosis patients and household contacts: A pilot study
[version 2; peer review: 2 approved, 1 approved with reservations]
Acen L. Ester, Joloba L. Moses, Ashraf Akintola, Rizwana Begum Syed Nabi, Irene Andia Biraro, William Worodria, Alfred Okeng, Kelvin Bwambale, Mudarshiru Bbuye, David Patrick Kateete
Peer Reviewers Dina Keumala Sari; Ramalingam Bethunaickan; Habtamu Milkias Wolde
  • Funder
  • The Africa Center of Excellence in Materials, Product Development and Nanotechnology (MAPRONANO ACE) Makerere University
LATEST VERSION PUBLISHED 21 May 2025
https://doi.org/10.12688/f1000research.163124.1
Systematic Review metrics
Systematic identification of P48 as an advantageous diagnostic protein for Mycoplasma bovis infections: A literature survey and computational insight
[version 1; peer review: 1 approved with reservations, 2 not approved]
Ilemobayo Victor Fasogbon, Erick Nyakundi Ondari, Deusdedit Tusubira, Angela Mumbua Musyoka, Bashiru Ibrahim, Kabiru Haliru Ahmad, Tonny Kabuuka, Loganathan Rangasamy, Patrick Maduabuchi Aja
Peer Reviewers Glenn F Browning; Milan Ninković; Khalid Mehmood
  • Funder
  • African-German Network of Excellence in Science
PUBLISHED 15 May 2025
https://doi.org/10.12688/f1000research.162088.1
Study Protocol metrics
Efficacy of auditory-visual attentional training in adults with chronic tinnitus: A study protocol for a randomized controlled trial
[version 1; peer review: 1 approved with reservations, 1 not approved]
Hossein Namvar Arefi, Farnoush Jarollahi, Samer Mohsen, Shohreh Jalaie
Peer Reviewers Eser Sendesen; Patrick Neff
  • Funder
  • Iran University of Medical Sciences
PUBLISHED 12 May 2025
https://doi.org/10.12688/f1000research.123591.2
Data Note metrics
Revised
Squalomix: shark and ray genome analysis consortium and its data sharing platform
[version 2; peer review: 2 approved]
Osamu Nishimura, John Rozewicki, Kazuaki Yamaguchi, Kaori Tatsumi, Yuta Ohishi, Tazro Ohta, Masaru Yagura, Taiki Niwa, Chiharu Tanegashima, Akinori Teramura, Shotaro Hirase, Akane Kawaguchi, Milton Tan, Salvatore D'Aniello, Filipe Castro, André Machado, Mitsumasa Koyanagi, Akihisa Terakita, Ryo Misawa, Masayuki Horie, Junna Kawasaki, Takashi Asahida, Atsuko Yamaguchi, Kiyomi Murakumo, Rui Matsumoto, Iker Irisarri, Norio Miyamoto, Atsushi Toyoda, Sho Tanaka, Tatsuya Sakamoto, Yasuko Semba, Shinya Yamauchi, Kazuyuki Yamada, Kiyonori Nishida, Itsuki Kiyatake, Keiichi Sato, Susumu Hyodo, Mitsutaka Kadota, Yoshinobu Uno, Shigehiro Kuraku
Peer Reviewers Mélanie Debiais-Thibaud; Dan Larhammar and David Lagman
  • Funders
  • RIKEN Center for Biosystems Dynamics Research
  • National Institute of Genetics
  • Japan Society for the Promotion of Science
LATEST VERSION PUBLISHED 08 May 2025
https://doi.org/10.12688/f1000research.157311.3
Genome Note metrics
Revised
The complete mitogenome of an unidentified Oikopleura species
[version 3; peer review: 3 approved, 1 approved with reservations]
Johannes Nicolaus Wibisana, Charles Plessy, Nicolas Dierckxsens, Aki Masunaga, Jiashun Miao, Nicholas M. Luscombe
Peer Reviewers Carmela Gissi; Ayelet Voskoboynik; Daniel M Chourrout; Thomas Stach
  • Funder
  • Japan Society for the Promotion of Science
LATEST VERSION PUBLISHED 06 May 2025
https://doi.org/10.12688/f1000research.149948.3
Research Article metrics
Revised
A long tail of truth and beauty: A zigzag pattern of feather formation determines the symmetry, complexity, and beauty of the peacock’s tail
[version 3; peer review: 2 approved, 1 approved with reservations]
Rama Singh, Santosh Jagadeeshan
Peer Reviewers Joseph Jordania; Joao Menezes; Jutta Schneider
  • Funders
  • Natural Sciences and Engineering Research Council of Canada
  • McMaster University
LATEST VERSION PUBLISHED 06 May 2025
https://doi.org/10.12688/f1000research.140273.3
Research Article metrics
Revised
Predicting gene expression changes upon epigenomic drug treatment
[version 3; peer review: 4 approved, 2 not approved]
Piyush Agrawal, Vishaka Gopalan, Monjura Afrin Rumi, Sridhar Hannenhalli
Peer Reviewers Angelika Merkel; Daiqing Liao and Zhiguang Huo; Sukhen Das Mandal; Indrakant K. Singh; Vivek Dhar Dwivedi; Ashwini Kumar
  • Funder
  • National Cancer Institute
LATEST VERSION PUBLISHED 02 May 2025
https://doi.org/10.12688/f1000research.156703.2
Research Article metrics
Revised
Associations Between Factors Affecting Itching and Quality of Life in Thai Patients with Psoriasis: A Cross-Sectional Study
[version 2; peer review: 2 approved, 1 approved with reservations]
Phurichaya Teyateeti, Chanita Autchayawat, Wiriya Mahikul, Rithee Smithrithee
Peer Reviewers Napatra Tovanabutra; Narumol Silpa-archa; Adam Reich
  • Funder
  • Chulabhorn Royal Academy
LATEST VERSION PUBLISHED 25 Apr 2025
https://doi.org/10.12688/f1000research.109236.2
Research Article metrics
Revised
Evidence of SARS-CoV-2 bacteriophage potential in human gut microbiota
[version 2; peer review: 1 approved, 2 approved with reservations]
Mauro Petrillo, Maddalena Querci, Carlo Brogna, Jessica Ponti, Simone Cristoni, Peter V Markov, Andrea Valsesia, Gabriele Leoni, Alessandro Benedetti, Thierry Wiss, Guy Van den Eede
Peer Reviewers M. Anwar Hossain and Md. Shaminur Rahman; Didier Raoult; Zhonghan Sun
  • Funder
  • Joint Research Centre
LATEST VERSION PUBLISHED 23 Apr 2025
https://doi.org/10.12688/f1000research.158264.3
Method Article metrics
Revised
Using text-mining to measure the scientific impact and legacy of ELIXIR, a distributed research infrastructure for life science data
[version 3; peer review: 2 approved, 1 approved with reservations]
Francesca De Leo, Erika Balsyte, Robert Petryszak, Marilena D’Ambrosio, Chiara Bruno, Martin Cook, Ivan Mičetić, Corinne S. Martin
Peer Reviewers Helen M. Berman; Shuichi Kawashima; Alfonso Valencia
  • Funders
  • Italian Ministry for Universities and Research (National Recovery and Resilience Plan M4C2)
  • European Union (Horizon Programmes)
  • ELIXIR, the research infrastructure for life science data
LATEST VERSION PUBLISHED 22 Apr 2025
161-180 of 4,600 ARTICLES
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