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https://doi.org/10.12688/f1000research.173901.1
Method Article metrics AWAITING PEER REVIEW
From Quality Control to Visualization: scToolkit for Reproducible Single-Cell RNA-Seq
[version 1; peer review: awaiting peer review]
Christopher Krolla, Tonmoy Das, Ariane Metzger, Melanie Boerries, Sajib Chakraborty, Geoffroy Andrieux
Peer Reviewers Invited
  • Funders
  • Bundesministerium für Bildung und Forschung
  • Deutsche Forschungsgemeinschaft
PUBLISHED 28 Jan 2026
https://doi.org/10.12688/f1000research.175373.1
Research Article metrics AWAITING PEER REVIEW
Assessing nonlinearities in the GFP random mutagenesis landscape using the Power Transform
[version 1; peer review: awaiting peer review]
Dmitry A. Petrov, Dmitry N. Ivankov
Peer Reviewers Invited
  • Funder
  • Russian Science Foundation
PUBLISHED 31 Dec 2025
https://doi.org/10.12688/f1000research.172319.1
Method Article metrics AWAITING PEER REVIEW
Using bar-seq as a proxy to study population dynamics of Aspergillus fumigatus deletion libraries during infection of mammalian cells
[version 1; peer review: awaiting peer review]
Kayleigh Earle, Sébastien C. Ortiz, Clara Valero, Margherita Bertuzzi, Paul Bowyer, Michael J Bromley, Sara Gago
Peer Reviewers Invited
  • Funders
  • Medical Research Council
  • National Centre for the Replacement Refinement and Reduction of Animals in Research
  • Wellcome Trust
PUBLISHED 31 Dec 2025
https://doi.org/10.12688/f1000research.175457.1
Brief Report metrics
lncRNA CHASERR Integrates Transcriptional and Post-Transcriptional Gene Regulation
[version 1; peer review: 1 not approved]
Anna Budkina, Anatoliy Zubritskiy, Yulia A. Medvedeva
Peer Reviewers Anna M Krichevsky and Evgeny Deforzh
  • Funder
  • Russian Science Foundation
PUBLISHED 30 Dec 2025
https://doi.org/10.12688/f1000research.172914.1
Genome Note metrics AWAITING PEER REVIEW
The complete genome sequence of the ghost bat, Macroderma gigas
[version 1; peer review: awaiting peer review]
Luke W. Silver, Nicola Hanrahan, Sam C. Banks, Kyle N. Armstrong, Carolyn J. Hogg, Kym M. Ottewell
Peer Reviewers Invited
  • Funders
  • Australian Research Council Linkage Project “The Macroderma initiative: conserving ghost bats and informing development
  • Australian Research Council
  • Australian Government National Collaborative Research Infrastructure Strategy (NCRIS)
PUBLISHED 24 Dec 2025
https://doi.org/10.12688/f1000research.147348.2
Systematic Review metrics
Revised
Performance of Forensic Age Estimation by Aspartic Acid Racemization and DNA Methylation: A Systematic Review
[version 2; peer review: 2 approved with reservations]
Eko Prastyo, Elza Ibrahim Auerkari, Antonius Winoto Suhartono, Roben Suhadi Pasaribu, Achmad Gigih Andy Putra, Pertti Auerkari
Peer Reviewers Bofeng Zhu; Fan Liu
  • Funder
  • Not applicable
LATEST VERSION PUBLISHED 16 Dec 2025
https://doi.org/10.12688/f1000research.145790.3
Genome Note metrics
Revised
Re-sequencing of the complete chloroplast genome of Cinnamomum burmanni (Nees & T.Nees) Blume (Lauraceae) from Indonesia using MinION Oxford Nanopore Technologies
[version 3; peer review: 3 approved, 2 not approved]
Richard Andreas Salindeho, Fifi Gus Dwiyanti, Rahadian Pratama, Deden Derajat Matra, Muhammad Majiidu, Iskandar Z. Siregar
Peer Reviewers Hoang Dang Khoa Do; Jakub Sawicki; Minh Trong Quang; Nawaz Haider Bashir; Zinian WU
  • Funder
  • National Competitive Basic Research 2022-2023
LATEST VERSION PUBLISHED 16 Dec 2025
https://doi.org/10.12688/f1000research.167074.1
Research Article metrics
The Genetic Association of Single Nucleotide Polymorphisms of SERPINE1 (rs6092) and IFNAR2 (rs1051393, rs2229207) Genes Is Related to Post Covid-19 Respiratory Syndrome
[version 1; peer review: 1 approved with reservations, 1 not approved]
Yulia Ariani, Indra Muhiardi, Indra Gunawan, Nadhifa Tazkia Ramadhani, Shafa Talitha Risti, Riyadi Sutarto, Agus Dwi Susanto
Peer Reviewers Shrikant Verma; Abdullah Al Saba
  • Funder
  • Riset Inovasi dan Indonesia Maju–Lembaga Pengelola Dana Pendidikan
PUBLISHED 21 Nov 2025
https://doi.org/10.12688/f1000research.140134.3
Genome Note metrics
Revised
The complete chloroplast genome of Phyllanthus acidus (L.) Skeels (Phyllanthaceae)
[version 3; peer review: 1 approved, 4 approved with reservations]
Hoang Danh Nguyen, Thi Diem Quynh Nguyen, Minh Thiet Vu, Hoang Dang Khoa Do
Peer Reviewers Jessica D. Rey; Qiang Li; Shiou Yih Lee; Yoshinori Fukasawa; Sunil Kumar Sahu
  • Funder
  • Nguyen Tat Thanh University
LATEST VERSION PUBLISHED 21 Nov 2025
https://doi.org/10.12688/f1000research.166849.2
Genome Note metrics
Revised
Reference-guided draft genome assembly of the slender walking catfish, Prophagorus nieuhofii
[version 2; peer review: 1 approved, 2 approved with reservations, 1 not approved]
Imron Imron, Fajar Anggraeni, Rahmat Hidayat, Jadmiko Darmawan, Otong Zenal Arifin, Daniel Frikli Mokodongan, Rosita Rosita, Luthfi Nurhidayat
Peer Reviewers Gulab D. Khedkar; Geoffrey C. Waldbieser; Haiyang Liu; Adauto Cardoso
  • Funder
  • Lembaga Pengelola Dana Pendidikan
LATEST VERSION PUBLISHED 10 Nov 2025
https://doi.org/10.12688/f1000research.171123.1
Research Article metrics
Identification of Pathogenic PKHD1 Variants in Infants with Autosomal Recessive Polycystic Kidney Disease from the Dhofar Region, Oman
[version 1; peer review: 2 approved]
Intisar Al Alawi, Maha Al Awadi, Fatma Al Awaid, Joshua Pillai, Matthew Sampson, Juliana E. Arcila Galvis, Ashwaq Al Maimani, Zainab Al Hashmi, John A. Sayer
Peer Reviewers Hana Yang; Consolato M Sergi
  • Funders
  • Kidney Research UK
  • LifeArc
  • Horizon Europe
  • Medical Research Council
PUBLISHED 05 Nov 2025
https://doi.org/10.12688/f1000research.153918.1
Genome Note metrics
Chromosome-level genome assembly of the hamour (orange-spotted grouper), Epinephelus coioides
[version 1; peer review: 2 approved, 1 approved with reservations]
Razan Khalifa, Tim Bean, Dana Albatesh, Ronny van Aerle, Zenaba Kahtir, Zainab Hizam, Marta Gut, Francisco Câmara, Fernando Cruz, Jèssica Gómez-Garrido, Tyler Alioto, Eduarda Santos, Alexandra Leitão, Diana Minardi
Peer Reviewers Jayan Duminda M Senevirathna; Merly Escalona; Karim Gharbi
  • Funders
  • Spanish Government, Ministry of Science, Innovation and Universities and Generalitat de Catalunya through the Departament de Recerca i Universitats and Departament de Salut
  • Qatar National Research Fund
  • Roslin Institute Strategic Programme Award
PUBLISHED 29 Oct 2025
https://doi.org/10.12688/f1000research.157869.3
Study Protocol metrics
Revised
Comparison of serum vitamin D level and vitamin D receptor gene FokI polymorphism in leprosy patients with and without trophic ulcers: protocol for a case-control study
[version 3; peer review: 3 approved with reservations]
Paulus Anthony Halim, Sondang P. Sirait, Eliza Miranda, Yulia Ariani, Wresti Indriatmi, Hok Bing Thio
Peer Reviewers Khairuddin Djawad; Ravindra Turankar; ANABELL ALVARADO NAVARRO
  • Funder
  • Research and Development, Universitas Indonesia under the Hibah PUTI 2023 scheme
LATEST VERSION PUBLISHED 23 Oct 2025
https://doi.org/10.12688/f1000research.171863.1
Genome Note metrics
Draft genome sequence of a predatory bacterium from northern peatland soil
[version 1; peer review: 1 approved with reservations]
Tatiana Demina, Riina Ihonen, Minna K. Männistö, Jenni Hultman
Peer Reviewers Kai Blin and Judit Szenei
  • Funders
  • Research Council of Finland
  • Kone Foundation
PUBLISHED 21 Oct 2025
https://doi.org/10.12688/f1000research.131600.2
Genome Note metrics
Revised
The complete mitochondrial genome Hainan Gymnure, Neohylomys hainanensis
[version 2; peer review: 3 approved]
Feiyun Tu, Xiaodan Hou, Qiujie Lu, Xiaofei Zhai
Peer Reviewers Michael Allen; Perinçek Seçkinozan Şeker; Kai He
  • Funder
  • Natural Science Foundation of Hainan Province
LATEST VERSION PUBLISHED 20 Oct 2025
https://doi.org/10.12688/f1000research.170090.1
Review metrics
Mechanisms Associated with PINK1 Mutations in Parkinson's Disease
[version 1; peer review: 1 approved, 1 not approved]
Hanliang Dan, Xiaohui Huang, Zheng Liu, Bing Wei, Maslinda Musa
Peer Reviewers Eman Ezzeldien Mohamed; Ryan L Davis
PUBLISHED 20 Oct 2025
https://doi.org/10.12688/f1000research.129581.2
Software Tool Article metrics
Revised
AmpSeqR: an R package for amplicon deep sequencing data analysis
[version 2; peer review: 3 approved]
Jiru Han, Jacob E. Munro, Melanie Bahlo
Peer Reviewers Eduardo Castro-Nallar; Cristian Koepfli and Gustavo Da Silva; Patrick Murigu Kamau Njage
  • Funders
  • Institute Infrastructure Support Scheme (IRIISS)
  • National Health and Medical Research Council
LATEST VERSION PUBLISHED 17 Oct 2025
https://doi.org/10.12688/f1000research.161461.3
Genome Note metrics
Revised
The genome sequence of Tethysbaena scabra (Pretus, 1991), the first known in the peracarid crustacean order Thermosbaenacea.
[version 3; peer review: 2 approved]
Joan Pons, Karen D. Schöninger-Almaraz, Laura Triginer-Llabrés, Carlos Juan, Damià Jaume, José A. Jurado-Rivera
Peer Reviewers Pascal Angst; Martin Schwentner
  • Funders
  • Govern de les Illes Balears
  • Institut d'Estudis Catalans
LATEST VERSION PUBLISHED 19 Sep 2025
https://doi.org/10.12688/f1000research.162894.1
Genome Note metrics
The genome sequence of the red-legged partridge, Alectoris rufa Linnaeus 1758
[version 1; peer review: 2 approved]
Abderrahmane Eleiwa, Pol Mestre, Ana Usie, Ester Vilaprinyo, Alberto Marin-Sanguino, Albert Sorribas, Cristobal Richart, Judit Salces-Ortiz, Rosa Fernández, Mar Biarnés, Noélia Antilles, Jesus Nadal, Rui Alves
Peer Reviewers Marc Palmada-Flores; Greta Bellinzona
  • Funders
  • Departament d'Innovació, Universitats i Empresa, Generalitat de Catalunya
  • Fundação para a Ciência e a Tecnologia
  • Fundacio Rovira i Virgili
  • European Research Council
  • Secretaria d’Universitats i Recerca del Departament d’Economia i Coneixement
PUBLISHED 02 Sep 2025
https://doi.org/10.12688/f1000research.166660.1
Systematic Review metrics AWAITING PEER REVIEW
Association Between Angiotensin Converting Enzyme Insertion / Deletion Genotypes and Diabetic Nephropathy Defined by Urinary Albumin-to-Creatinine Ratio: A Systematic Review and Meta-Analysis
[version 1; peer review: awaiting peer review]
Ritah Kiconco, Robert Kalyesubula, Jazira Tumusiime, Raymond Atwine, Charles Nkubi Bagenda, Simon Peter Rugera, Bosco Bekiita Agaba, Erick Nyakundi Ondari, Deusdedit Tusubira, Martha Lyaka, Moses Ocan, Alison Annet Kinengyere, Ekwaro A. Obuku, Gertrude N. Kiwanuka
Peer Reviewers Invited
  • Funder
  • Fogarty International Center
PUBLISHED 17 Jul 2025
1-20 of 2,038 ARTICLES
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