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1-20 of 39 ARTICLES
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https://doi.org/10.12688/wellcomeopenres.19589.2
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Revised
plastiC: A pipeline for recovery and characterization of plastid genomes from metagenomic datasets
[version 2; peer review: 1 approved, 2 approved with reservations]
Ellen S. Cameron, Mark L. Blaxter, Robert D. Finn
Peer Reviewers Adriana Lopes dos Santos; Yang Ni; Anna Karnkowska and Michał Karlicki
  • Funders
  • Wellcome
  • European Molecular Biology Laboratory
LATEST VERSION PUBLISHED 27 Nov 2024
https://doi.org/10.12688/wellcomeopenres.19959.1
Data Note metrics
The genome sequence of Rhynchonycteris naso, Peters, 1867 (Chiroptera, Emballonuridae, Rhynchonycteris)
[version 1; peer review: 3 approved]
Ine Alvarez van Tussenbroek, Mirjam Knörnschild, Martina Nagy, Brian P. O'Toole, Giulio Formenti, Philip Philge, Ning Zhang, Linelle Abueg, Nadolina Brajuka, Erich D. Jarvis, Thomas L. Volkert, Jonathan L. Gray, Myrtani Pieri, Meike Mai, Emma C. Teeling, Sonja C. Vernes, The Bat Biology Foundation, The Bat1K Consortium
Peer Reviewers Xiuguang Mao; Wenhua Yu; Luciano Chaves Franco Filho
  • Funders
  • Irish Research Council Laureate Award
  • European Research Council
  • ERC Consolidator Grant
  • Max Planck Research Group
  • Science Foundation Ireland Future Frontiers
  • UKRI Future Leaders Fellowship
PUBLISHED 10 Jul 2024
https://doi.org/10.12688/wellcomeopenres.20603.1
Data Note metrics
The genome sequence of Tadarida brasiliensis I. Geoffroy Saint-Hilaire, 1824 [Molossidae; Tadarida]
[version 1; peer review: 2 approved, 2 approved with reservations]
Cara F. Webster, Michael Smotherman, Martin Pippel, Thomas Brown, Sylke Winkler, Myrtani Pieri, Meike Mai, Eugene W. Myers, Emma C. Teeling, Sonja C. Vernes, The Bat1K Consortium
Peer Reviewers Vincent J. Lynch; Graham Etherington; Heliana Dundarova; Lyre Anni E. Murao
  • Funders
  • Irish Research Council Laureate Award
  • US Office of Naval Research
  • ERC Consolidator Grant
  • Max Planck Society
  • Science Foundation Ireland Future Frontiers
  • UKRI Future Leaders Fellowship
PUBLISHED 29 Feb 2024
https://doi.org/10.12688/wellcomeopenres.18724.1
Data Note metrics
The genome sequence of Molossus nigricans (Chiroptera, Molossidae; Miller, 1902)
[version 1; peer review: 2 approved, 1 approved with reservations]
Nancy B. Simmons, Melissa R. Ingala, Myrtani Pieri, Thomas L. Volkert, Larry N. Singh, Philge Philip, Laramie L. Lindsey, Ning Zhang, Jonathan L. Gray, Brian P. O'Toole, Meike Mai, Emma C. Teeling, Sonja C. Vernes, the Bat Biology Foundation, the Bat1K Consortium
Peer Reviewers Vincent J. Lynch; Jamie McGowan; Linelle Ann Lacson Abueg
  • Funders
  • Smithsonian National Museum of Natural History
  • Research Council Laureate Award
  • Max-Planck-Gesellschaft
  • Science Foundation Ireland Future Frontiers
  • UKRI Future Leaders Fellowship
PUBLISHED 05 May 2023
https://doi.org/10.12688/wellcomeopenres.18568.1
Data Note metrics
The genome sequence of the common grass-veneer, Agriphila tristella (Denis & Schiffermüller, 1775)
[version 1; peer review: 3 approved]
Douglas Boyes, University of Oxford and Wytham Woods Genome Acquisition Lab, Darwin Tree of Life Barcoding collective, Wellcome Sanger Institute Tree of Life programme, Wellcome Sanger Institute Scientific Operations: DNA Pipelines collective, Tree of Life Core Informatics collective, Louis Parkerson, Darwin Tree of Life Consortium
Peer Reviewers Sivasankaran Kuppusamy; Annabel Whibley; Wei Zhang
  • Funder
  • Wellcome Trust
PUBLISHED 16 Dec 2022
https://doi.org/10.12688/wellcomeopenres.17987.1
Data Note metrics
Identification of anti-schistosomal, anthelmintic and anti-parasitic compounds curated and text-mined from the scientific literature
[version 1; peer review: 2 approved]
Avril Coghlan, Gilda Padalino, Noel M. O'Boyle, Karl F. Hoffmann, Matthew Berriman
Peer Reviewers Timothy Geary; Josué de Moraes
  • Funder
  • Wellcome Trust
PUBLISHED 19 Jul 2022
https://doi.org/10.12688/wellcomeopenres.17258.2
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Revised
The genome sequence of the Australian filarial nematode, Cercopithifilaria johnstoni
[version 2; peer review: 3 approved]
Kirsty McCann, Warwick Grant, Stephen R. Doyle
Peer Reviewers James Wasmuth; Jane Hodgkinson; Neil David Young
  • Funders
  • Wellcome Trust
  • La Trobe University
  • Illumina
  • UK Research and Innovation
  • Gates Foundation
LATEST VERSION PUBLISHED 03 Dec 2021
https://doi.org/10.12688/wellcomeopenres.16559.1
Research Article metrics
In vivo negative regulation of SARS-CoV-2 receptor, ACE2, by interferons and its genetic control
[version 1; peer review: 2 approved with reservations]
M. Azim Ansari, Emanuele Marchi, Narayan Ramamurthy, Dominik Aschenbrenner, Sophie Morgan, Carl-Philipp Hackstein, STOP-HCV consortium, ISARIC-4C Investigators, Shang-Kuan Lin, Rory Bowden, Eshita Sharma, Vincent Pedergnana, Suresh Venkateswaran, Subra Kugathasan, Angela Mo, Greg Gibson, Graham S. Cooke, John McLauchlan, John Kenneth Baillie, Sarah Teichmann, Alexander Mentzer, Julian Knight, John A. Todd, Timothy Hinks, Eleanor J. Barnes, Holm H. Uhlig, Paul Klenerman
Peer Reviewers Stuart J.D. Neil; Christopher J. McCormick
  • Funders
  • Wellcome Trust
  • Medical Research Council
  • NIHR Oxford Biomedical Research Centre
PUBLISHED 03 Mar 2021
https://doi.org/10.12688/wellcomeopenres.16031.2
Research Article metrics
Revised
Large CRISPR-Cas-induced deletions in the oxamniquine resistance locus of the human parasite Schistosoma mansoni
[version 2; peer review: 4 approved]
Geetha Sankaranarayanan, Avril Coghlan, Patrick Driguez, Magda E. Lotkowska, Mandy Sanders, Nancy Holroyd, Alan Tracey, Matthew Berriman, Gabriel Rinaldi
Peer Reviewers Philip T LoVerde; Arnon Jurberg; Mattie Pawlowic; Patrick J. Skelly
  • Funder
  • Wellcome Trust
LATEST VERSION PUBLISHED 20 Jan 2021
https://doi.org/10.12688/wellcomeopenres.15090.2
Open Letter metrics
Revised
Genomic variant sharing: a position statement
[version 2; peer review: 2 approved]
Caroline F. Wright, James S. Ware, Anneke M. Lucassen, Alison Hall, Anna Middleton, Nazneen Rahman, Sian Ellard, Helen V. Firth
Peer Reviewers Gert Matthijs; Christa Lese Martin, Erin Rooney Riggs and Heidi Rehm
  • Funder
  • Wellcome Trust
LATEST VERSION PUBLISHED 04 Dec 2019
https://doi.org/10.12688/wellcomeopenres.15590.1
Research Article metrics
Evolutionary analysis of the most polymorphic gene family in falciparum malaria
[version 1; peer review: 1 approved, 2 approved with reservations]
Thomas D. Otto, Sammy A. Assefa, Ulrike Böhme, Mandy J. Sanders, Dominic P. Kwiatkowski, Pf3k consortium, Matt Berriman, Chris Newbold
Peer Reviewers Kirk W. Deitsch; Thomas Lavstsen; Daniel B. Larremore
  • Funder
  • Wellcome Trust
PUBLISHED 03 Dec 2019
https://doi.org/10.12688/wellcomeopenres.15487.1
Research Article metrics
Systematic screening of 96 Schistosoma mansoni cell-surface and secreted antigens does not identify any strongly protective vaccine candidates in a mouse model of infection
[version 1; peer review: 3 approved]
Cecile Crosnier, Cordelia Brandt, Gabriel Rinaldi, Catherine McCarthy, Colin Barker, Simon Clare, Matt Berriman, Gavin J. Wright
Peer Reviewers Peter J. Hotez; Henry J. McSorley; John P. Dalton
  • Funder
  • Wellcome Trust
PUBLISHED 16 Oct 2019
https://doi.org/10.12688/wellcomeopenres.15355.2
Software Tool Article metrics
Revised
GeneDB and Wikidata
[version 2; peer review: 2 approved]
Magnus Manske, Ulrike Böhme, Christoph Püthe, Matt Berriman
Peer Reviewers Sebastian Burgstaller-Muehlbacher; Andra Waagmeester
  • Funder
  • Wellcome Trust
LATEST VERSION PUBLISHED 14 Oct 2019
https://doi.org/10.12688/wellcomeopenres.15048.2
Method Article metrics
Revised
Resolving outbreak dynamics using approximate Bayesian computation for stochastic birth–death models
[version 2; peer review: 2 approved]
Jarno Lintusaari, Paul Blomstedt, Brittany Rose, Tuomas Sivula, Michael U. Gutmann, Samuel Kaski, Jukka Corander
Peer Reviewers Olivier Gascuel; Mark Beaumont
  • Funders
  • Wellcome Trust
  • Academy of Finland
  • European Research Council
LATEST VERSION PUBLISHED 30 Aug 2019
https://doi.org/10.12688/wellcomeopenres.15250.1
Research Article metrics
ZMYM2 inhibits NANOG-mediated reprogramming
[version 1; peer review: 2 approved, 1 approved with reservations]
Moyra Lawrence, Thorold W. Theunissen, Patrick Lombard, David J. Adams, José C. R. Silva
Peer Reviewers Andrew Johnson; Tom Burdon; Junjun Ding
  • Funder
  • Wellcome Trust
PUBLISHED 06 Jun 2019
https://doi.org/10.12688/wellcomeopenres.15194.2
Data Note metrics
Revised
Progression of the canonical reference malaria parasite genome from 2002–2019
[version 2; peer review: 3 approved]
Ulrike Böhme, Thomas D. Otto, Mandy J. Sanders, Chris I. Newbold, Matt Berriman
Peer Reviewers Thomas E. Wellems; Anthony A. Holder; Manuel Llinás
  • Funder
  • Wellcome Trust
LATEST VERSION PUBLISHED 28 May 2019
https://doi.org/10.12688/wellcomeopenres.15059.1
Research Article metrics
Rapid transcriptional responses to serum exposure are associated with sensitivity and resistance to antibody-mediated complement killing in invasive Salmonella Typhimurium ST313
[version 1; peer review: 2 approved]
Edna M. Ondari, Elizabeth J. Klemm, Chisomo L. Msefula, Moataz Abd El Ghany, Jennifer N. Heath, Derek J. Pickard, Lars Barquist, Gordon Dougan, Robert A. Kingsley, Calman A. MacLennan
Peer Reviewers Manuela Raffatellu; Mark A. Schembri
  • Funders
  • BBSRC
  • Wellcome
  • European Community
PUBLISHED 25 Apr 2019
https://doi.org/10.12688/wellcomeopenres.14797.2
Research Article metrics
Revised
Genomic and transcriptomic comparisons of closely related malaria parasites differing in virulence and sequestration pattern
[version 2; peer review: 2 approved]
Jing-wen Lin, Adam J. Reid, Deirdre Cunningham, Ulrike Böhme, Irene Tumwine, Sara Keller-Mclaughlin, Mandy J. Sanders, Matt Berriman, Jean Langhorne
Peer Reviewers Xin-zhuan Su; Matthew L. Aardema
  • Funders
  • Wellcome Trust
  • Cancer Research UK
  • Medical Research Council
LATEST VERSION PUBLISHED 06 Dec 2018
https://doi.org/10.12688/wellcomeopenres.12583.3
Research Article metrics
Revised
Meta-analysis of exome array data identifies six novel genetic loci for lung function
[version 3; peer review: 2 approved]
Victoria E. Jackson, Jeanne C. Latourelle, Louise V. Wain, Albert V. Smith, Megan L. Grove, Traci M. Bartz, Ma'en Obeidat, Michael A. Province, Wei Gao, Beenish Qaiser, David J. Porteous, Patricia A. Cassano, Tarunveer S. Ahluwalia, Niels Grarup, Jin Li, Elisabeth Altmaier, Jonathan Marten, Sarah E. Harris, Ani Manichaikul, Tess D. Pottinger, Ruifang Li-Gao, Allan Lind-Thomsen, Anubha Mahajan, Lies Lahousse, Medea Imboden, Alexander Teumer, Bram Prins, Leo-Pekka Lyytikäinen, Gudny Eiriksdottir, Nora Franceschini, Colleen M. Sitlani, Jennifer A. Brody, Yohan Bossé, Wim Timens, Aldi Kraja, Anu Loukola, Wenbo Tang, Yongmei Liu, Jette Bork-Jensen, Johanne M. Justesen, Allan Linneberg, Leslie A. Lange, Rajesh Rawal, Stefan Karrasch, Jennifer E. Huffman, Blair H. Smith, Gail Davies, Kristin M. Burkart, Josyf C. Mychaleckyj, Tobias N. Bonten, Stefan Enroth, Lars Lind, Guy G. Brusselle, Ashish Kumar, Beate Stubbe, Understanding Society Scientific Group, Mika Kähönen, Annah B. Wyss, Bruce M. Psaty, Susan R. Heckbert, Ke Hao, Taina Rantanen, Stephen B. Kritchevsky, Kurt Lohman, Tea Skaaby, Charlotta Pisinger, Torben Hansen, Holger Schulz, Ozren Polasek, Archie I. Campbell, John M. Starr, Stephen S. Rich, Dennis O. Mook-Kanamori, Åsa Johansson, Erik Ingelsson, André G. Uitterlinden, Stefan Weiss, Olli T. Raitakari, Vilmundur Gudnason, Kari E. North, Sina A. Gharib, Don D. Sin, Kent D. Taylor, George T. O'Connor, Jaakko Kaprio, Tamara B. Harris, Oluf Pederson, Henrik Vestergaard, James G. Wilson, Konstantin Strauch, Caroline Hayward, Shona M. Kerr, Ian J. Deary, R. Graham Barr, Renée de Mutsert, Ulf Gyllensten, Andrew P. Morris, M. Arfan Ikram, Nicole Probst-Hensch, Sven Gläser, Eleftheria Zeggini, Terho Lehtimäki, David P. Strachan, Josée Dupuis, Alanna C. Morrison, Ian P. Hall, Martin D. Tobin, Stephanie J. London
Peer Reviewers Rachel M. Freathy and Robin Beaumont; Lisa Strug and Naim Panjwani
  • Funders
  • Wellcome Trust
  • Economic and Social Research Council
  • Netherlands Organization for Scientific Research
  • National Heart, Lung, and Blood Institute
  • Swedish Research Council
  • National Institutes of Health
  • Dutch Science Organisation
  • National Institute on Aging
  • Academy of Finland
  • Ministry of Science, Education and Sports of the Republic of Croatia
  • U.S. Department of Health and Human Services
  • European Commission FP6
  • The Åke Wiberg foundation
  • National Institute of Environmental Health Sciences
  • National Center for Advancing Translational Sciences
  • National Center for Advancing Translation Studies
  • Scottish Funding Council
  • Netherlands Genomics Initiative/Netherlands Consortium for Healthy Aging
  • Scottish Government Health Directorates
  • National Institute of Nursing Research
  • Knut och Alice Wallenberg Foundation
  • National Institute of General Medical Sciences
  • Leids Universitair Medisch Centrum
  • Centre National de Génotypage
  • Swedish Society for Medical Research
  • Federal Ministry of Education and Research
  • National Institute of Diabetes and Digestive and Kidney Disease Diabetes Research Center
  • Age UK
  • Swiss National Science Foundation
  • The Kjell och Märta Beijers Foundation
  • Medical Research Council
  • The Marcus Borgström Foundation
  • The Vleugels Foundation
  • Research Institute for Diseases in the Elderly
  • The Royal Society of Edinburgh
  • Federal State of Mecklenburg-West Pomerania
  • Swedish Heart-Lung Foundation
  • US Environmental Protection Agency
LATEST VERSION PUBLISHED 07 Aug 2018
https://doi.org/10.12688/wellcomeopenres.14694.1
Software Tool Article metrics
RhierBAPS: An R implementation of the population clustering algorithm hierBAPS
[version 1; peer review: 2 approved]
Gerry Tonkin-Hill, John A. Lees, Stephen D. Bentley, Simon D.W. Frost, Jukka Corander
Peer Reviewers Emmanuel Paradis; Sebastian Duchene
  • Funders
  • Wellcome Trust
  • Engineering and Physical Sciences Research Council
PUBLISHED 30 Jul 2018
1-20 of 39 ARTICLES
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