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https://doi.org/10.12688/f1000research.157946.1
Genome Note metrics
A new genome sequence resource for five invasive fruit flies of agricultural concern: Ceratitis capitata, C. quilicii, C. rosa, Zeugodacus cucurbitae and Bactrocera zonata (Diptera, Tephritidae)
[version 1; peer review: 2 approved]
Pablo Deschepper, Sam Vanbergen, Lore Esselens, John S. Terblanche, Minette Karsten, Maxi Snyman, Domingos Cugala, Laura Canhanga, Luis Bota, Maulid Mwatawala, Majubwa Ramadhani, Abdul Kudra, Jenipher Tairo, Jacqueline Bakengesa, Pia Addison, Aruna Manrakhan, Corentin Gledel, Hélène Delatte, Marc De Meyer, Massimiliano Virgilio
Peer Reviewers Craig Wilding; Lucio Navarro Escalante
  • Funders
  • EU-FFIPM (Fruit Flies In-silico prevention and management)
  • the framework agreement 2019-2023 of the Royal Museum for Central Africa – and the Belgian Directorate-General for Development Cooperation and Humanitarian Aid (DGD)
  • DISPEST (Redefining DISpersal potential for adequate fruit fly PEST management)
PUBLISHED 06 Dec 2024
https://doi.org/10.12688/f1000research.155147.1
Genome Note metrics
The complete chloroplast genome of a centennial olive tree (Olea europaea, Oleaceae) from the southern Peruvian coast
[version 1; peer review: 1 approved, 1 approved with reservations]
Carla L. Saldaña, Luz S. Chura-Llanos, Richard Estrada, Elizabeth Fernandez, Franz Zirena Vilca, Juan C. Guerrero-Abad, Carlos A. Amasifuen-Guerra, Dina L. Gutierrez-Reynoso, Pedro Injante, Carlos I Arbizu
Peer Reviewers Jun Kim; Rajagopal Kammara
  • Funders
  • Programa Presupuestal No. 068 of the Peruvian Government
  • Universidad Nacional de Moquegua
PUBLISHED 04 Dec 2024
https://doi.org/10.12688/f1000research.147348.1
Systematic Review metrics
Performance of Forensic Age Estimation by Aspartic Acid Racemization and DNA Methylation: A Systematic Review
[version 1; 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
PUBLISHED 15 Nov 2024
https://doi.org/10.12688/f1000research.147482.2
Systematic Review metrics
Revised
The role of therapeutic MicroRNA in arteriogenesis process in limb ischemia: A systematic review
[version 2; peer review: 1 approved]
Muhamad Taufik Ismail, Dyah Wulan Anggrahini, Sofia Mubarika Haryana, Budi Yuli Setianto
Peer Reviewers Brian H Annex
LATEST VERSION PUBLISHED 14 Nov 2024
https://doi.org/10.12688/f1000research.153949.1
Method Article metrics
A Bioconductor/R Workflow for the Detection and Visualization of Differential Chromatin Loops
[version 1; peer review: 3 approved, 1 approved with reservations]
JP Flores, Eric Davis, Nicole Kramer, Michael I Love, Douglas H Phanstiel
Peer Reviewers Benjamin Soibam; Vanessa Vermeirssen; Raúl de Haro Blázquez; Frank Johannes and Luca Schlegel
  • Funders
  • National Science Foundation Graduate Research Fellowship Program
  • National Institutes of Health
  • Wellcome Trust
  • Chan Zuckerberg Initiative
  • Howard Hughes Medical Institute Gilliam Fellows Program
PUBLISHED 11 Nov 2024
https://doi.org/10.12688/f1000research.154747.1
Research Article metrics AWAITING PEER REVIEW
Hierarchical Genomic Analysis of Susceptibility to Schizophrenia in Sudanese multi-case families
[version 1; peer review: awaiting peer review]
Azza Saeed, Lamees Ahmed, Safa Abuswar, Mudathir Salih, Ayman Hussein, Amel Eltigani, Magdeldin Elgizouli, Muntaser E.Ibrahim
Peer Reviewers Invited
  • Funder
  • The World Academy of Sciences
PUBLISHED 01 Oct 2024
https://doi.org/10.12688/f1000research.154762.1
Software Tool Article metrics
A high-throughput gene expression analysis software tool for developmental time series and gene signature analysis of human cardiomyocyte differentiation
[version 1; peer review: 2 approved with reservations]
Isaiah Bartlett, Jeff Kinne, Grace Martin, Kevin Coombes, Kristopher R. Schwab
Peer Reviewers Qing Liu; Stephanie Agioti and Apostolos Zaravinos
  • Funders
  • Indiana Academy of Science
  • Indiana State University Research Committee
  • National Institute on Minority Health and Health Disparities
PUBLISHED 26 Sep 2024
https://doi.org/10.12688/f1000research.133220.3
Data Note metrics
Revised
The identification of high-performing antibodies for FUS (Uniprot ID: P35637)  for use in western blot, immunoprecipitation, immunofluorescence and flow cytometry
[version 3; peer review: 2 approved]
Walaa Alshalfie, Michael Biddle, Maryam Fotouhi, Carolyn Jones, Riham Ayoubi, Zhipeng You, Kathleen Southern, Peter S. McPherson, Harvinder Virk, Carl Laflamme, NeuroSGC/YCharOS/EDDU collaborative group
Peer Reviewers Ryota Hikiami; Ralph H. Kehlenbach
  • Funders
  • Ontario Genomics
  • Canadian Institutes of Health Research Foundation
  • ALS Society of Canada
  • Institute for Precision Health and Leicester Drug Discovery and Diagnostics (LD3) via the MRC Impact Accelerator Account
  • ALS Association
  • Motor Neurone Disease Association
  • Genome Quebec
  • Mitacs
  • Genome Canda
LATEST VERSION PUBLISHED 24 Sep 2024
https://doi.org/10.12688/f1000research.72896.4
Research Article metrics
Revised
Prediction of the effects of the top 10 synonymous mutations from 26645 SARS-CoV-2 genomes of early pandemic phase
[version 4; peer review: 1 approved, 3 approved with reservations, 2 not approved]
Wan Xin Boon, Boon Zhan Sia, Chong Han Ng
Peer Reviewers Takahiko Koyama; Leyi Wang; Chandran Nithin; Roland Huber; Diego Forni; Tamar Schlick
  • Funder
  • Multimedia University, Malaysia IRFund 2.0
LATEST VERSION PUBLISHED 18 Sep 2024
https://doi.org/10.12688/f1000research.140344.2
Research Article metrics
Revised
NCBench: providing an open, reproducible, transparent, adaptable, and continuous benchmark approach for DNA-sequencing-based variant calling
[version 2; peer review: 2 approved]
Friederike Hanssen, Gisela Gabernet, Famke Bäuerle, Bianca Stöcker, Felix Wiegand, Nicholas H. Smith, Christian Mertes, Avirup Guha Neogi, Leon Brandhoff, Anna Ossowski, Janine Altmueller, Kerstin Becker, Andreas Petzold, Marc Sturm, Tyll Stöcker, Sugirthan Sivalingam, Fabian Brand, Axel Schmidt, Andreas Buness, Alexander J. Probst, Susanne Motameny, Johannes Köster
Peer Reviewers Justin M. Zook; Kez Cleal
  • Funders
  • German Federal Ministry for Education and Research
  • Deutsche Forschungsgemeinschaft
LATEST VERSION PUBLISHED 12 Sep 2024
https://doi.org/10.12688/f1000research.150924.1
Research Article metrics
Detection of yellow mosaic virus resistance in Soybean (Glycine max L.) genotypes for yield and related traits
[version 1; peer review: 3 approved with reservations, 1 not approved]
Nabila Hoque, Md. Ashraful Haque
Peer Reviewers Karupiah Eraivan Arutkani Aiyanathan; Gabriel Madoglio Favara; Wanwisa Siriwan; Shridhar Hiremath
PUBLISHED 30 Aug 2024
https://doi.org/10.12688/f1000research.131134.2
Research Article metrics
Revised
Improving genomic prediction of rhizomania resistance in sugar beet (Beta vulgaris L.) by implementing epistatic effects and feature selection
[version 2; peer review: 1 approved with reservations, 3 not approved]
Thomas Martin Lange, Felix Heinrich, Friedrich Kopisch-Obuch, Harald Keunecke, Mehmet Gültas, Armin O. Schmitt
Peer Reviewers J Mitchell McGrath; Muhammad Massub Tehseen; Daniela Holtgräwe; Chenggen Chu
LATEST VERSION PUBLISHED 28 Aug 2024
https://doi.org/10.12688/f1000research.152392.2
Research Article metrics
Revised
Unraveling the genetic basis of antibiotic resistance in Staphylococcus aureus: Focus on mecA and PVL Genes
[version 2; peer review: 2 approved with reservations]
Be-Hai Nguyen-Thi, Ngoc-Nga Pham-Thi, Hai-Yen Nguyen-Thi, Long-Nguyen Nguyen, Trung-Son Le
Peer Reviewers Heather B. Miller; Xiancai Rao
LATEST VERSION PUBLISHED 27 Aug 2024
https://doi.org/10.12688/f1000research.153922.1
Research Article metrics
Analysis of inbreeding depression in five S1 Cassava families of elite varieties at the seedling nursery and clonal evaluation trial stages.
[version 1; peer review: 1 approved, 1 approved with reservations]
Lydia Jiwuba, Alex Ogbonna, Ugochukwu Ikeogu, Favour Okeakpu, Kenneth Eluwa, Eunice Ekaette, Damian Njoku, Peter Okocha, Chiedozie Egesi, Emmanuel Okogbenin
Peer Reviewers Charles Orek; Karoline Leonard Sichalwe
  • Funders
  • National Root Crops Research Institute, Umudike, Abia State, Nigeria
  • Generation Challenge Programme
PUBLISHED 27 Aug 2024
https://doi.org/10.12688/f1000research.75952.2
Research Article metrics
Revised
A Comparison of Pain Before and After Transfusion in Adult transfusion-dependent thalassemia (TDT) Using BPI-SF
[version 2; peer review: 2 approved, 1 approved with reservations]
Uni Gamayani, Shenny Dianathasari Santoso, Asep Nugraha Hermawan, Pandji Irani Fianza, Ramdan Panigoro
Peer Reviewers Xuemei Zhen; Noor Syahireen Mohammed; Donna Wall
  • Funder
  • This research was funded by Competitive Internal Research Grant Universitas Padjadjaran (Academic Leadership Grant).
LATEST VERSION PUBLISHED 09 Aug 2024
https://doi.org/10.12688/f1000research.150836.2
Genome Note metrics
Revised
The genomes of the aquarium sponges Tethya wilhelma and Tethya minuta (Porifera: Demospongiae)
[version 2; peer review: 2 approved]
Gert Wörheide, Warren R. Francis, Fabian Deister, Stefan Krebs, Dirk Erpenbeck, Sergio Vargas
Peer Reviewers Bernie Degnan; Eric Bautista-Guerrero
  • Funders
  • Deutsche Forschungsgemeinschaft
  • Villum Fonden
  • H2020 Marie Skłodowska-Curie Actions
  • LMUexcellent
LATEST VERSION PUBLISHED 01 Aug 2024
https://doi.org/10.12688/f1000research.149793.2
Brief Report metrics
Revised
Genome assembly catalog for species in the Japanese Red List: unlocking endangered biodiversity through genomic inventory
[version 2; peer review: 2 approved]
Kirill Kryukov, Naoyuki Nakahama, Shigehiro Kuraku
Peer Reviewers James Fleming; Guilherme Borba Neumann
  • Funder
  • “Strategic Research Projects” grant from ROIS (Research Organization of Information and Systems) to Shigehiro Kuraku
LATEST VERSION PUBLISHED 22 Jul 2024
https://doi.org/10.12688/f1000research.139356.2
Research Article metrics
Revised
Scoutknife: A naïve, whole genome informed phylogenetic robusticity metric
[version 2; peer review: 3 approved]
James Fleming, Pia Merete Eriksen, Torsten Hugo Struck
Peer Reviewers Paul Zaharias; Xianzhao Kan; Anthony K. Redmond
  • Funders
  • Norges Forskningsråd
  • Norwegian Metacenter for Computational Science
LATEST VERSION PUBLISHED 10 Jul 2024
https://doi.org/10.12688/f1000research.73115.2
Method Article metrics
Revised
Skin swabbing protocol to collect DNA samples from small-bodied fish species
[version 2; peer review: 2 approved]
Ceinwen Tilley, Iain Barber, William Norton
Peer Reviewers Luigi Margiotta-Casaluci; Errol Cason
  • Funder
  • National Centre for the Replacement Refinement and Reduction of Animals in Research
LATEST VERSION PUBLISHED 27 Jun 2024
https://doi.org/10.12688/f1000research.126044.3
Research Article metrics
Revised
Cloning and characterization of the LvCTL genes encoding C-type lectin from white-leg shrimp (Litopenaeus vannamei)
[version 3; peer review: 2 approved, 2 approved with reservations]
Tran Vinh Phuong, Xuan Huy Nguyen, Nguyen Quang Lich, Ngoc Nguyen Tran, Phuoc Ngoc Nguyen, Nguyen Quang Linh
Peer Reviewers Hieu Tran-Van; Mengqiang Wang; Ta-Hui Lin; Parin Chaivisuthangkura
  • Funders
  • Vietnam program of National Gene Fund
  • National Foundation for Science and Technology Development
LATEST VERSION PUBLISHED 17 Jun 2024
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