Searching journal content for articles similar to Cook-Deegan and McGuire 27 (6): 897.

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  1. Perspective: Why community consultation matters in genomic research benefit-sharing models
    • Sarah LeBaron von Baeyer,
    • Rebecca Crocker,
    • Rindra Rakotoarivony,
    • Jean Freddy Ranaivoarisoa,
    • Germain Jules Spiral,
    • Stephane Castel,
    • Andrew Farnum,
    • Holly Vance,
    • Noah Collins,
    • Keolu Fox,
    • and Kaja Wasik
    Genome Res. January 2024 34: 1-6; Published in Advance January 31, 2024, doi:10.1101/gr.278308.123
    ...of benefit-sharing outcomes. However, by building extensive relationships with local researchers and partner communities around the world, the company continues to informally track the outcomes of the projects it funds. A more formal way of measuring and monitoring benefit-sharing outcomes could...
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  2. Resource: High-coverage nanopore sequencing of samples from the 1000 Genomes Project to build a comprehensive catalog of human genetic variation
    • Jonas A. Gustafson,
    • Sophia B. Gibson,
    • Nikhita Damaraju,
    • Miranda P.G. Zalusky,
    • Kendra Hoekzema,
    • David Twesigomwe,
    • Lei Yang,
    • Anthony A. Snead,
    • Phillip A. Richmond,
    • Wouter De Coster,
    • Nathan D. Olson,
    • Andrea Guarracino,
    • Qiuhui Li,
    • Angela L. Miller,
    • Joy Goffena,
    • Zachary B. Anderson,
    • Sophie H.R. Storz,
    • Sydney A. Ward,
    • Maisha Sinha,
    • Claudia Gonzaga-Jauregui,
    • Wayne E. Clarke,
    • Anna O. Basile,
    • André Corvelo,
    • Catherine Reeves,
    • Adrienne Helland,
    • Rajeeva Lochan Musunuri,
    • Mahler Revsine,
    • Karynne E. Patterson,
    • Cate R. Paschal,
    • Christina Zakarian,
    • Sara Goodwin,
    • Tanner D. Jensen,
    • Esther Robb,
    • The 1000 Genomes ONT Sequencing Consortium,
    • University of Washington Center for Rare Disease Research (UW-CRDR),
    • Genomics Research to Elucidate the Genetics of Rare Diseases (GREGoR) Consortium,
    • William Richard McCombie,
    • Fritz J. Sedlazeck,
    • Justin M. Zook,
    • Stephen B. Montgomery,
    • Erik Garrison,
    • Mikhail Kolmogorov,
    • Michael C. Schatz,
    • Richard N. McLaughlin, Jr.,
    • Harriet Dashnow,
    • Michael C. Zody,
    • Matt Loose,
    • Miten Jain,
    • Evan E. Eichler,
    • and Danny E. Miller
    Genome Res. November 2024 34: 2061-2073; Published in Advance October 2, 2024, doi:10.1101/gr.279273.124
    ...single nucleotide and indel variants outside of homopolymer regions. Using multiple structural variant (SV) callers, we identify an average of 24,543 high-confidence SVs per , including shared and private SVs likely to disrupt gene function as well as pathogenic expansions within disease...
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  3. Resource: The Planemo toolkit for developing, deploying, and executing scientific data analyses in Galaxy and beyond
    • Simon Bray,
    • John Chilton,
    • Matthias Bernt,
    • Nicola Soranzo,
    • Marius van den Beek,
    • Bérénice Batut,
    • Helena Rasche,
    • Martin Čech,
    • Peter J.A. Cock,
    • Björn Grüning,
    • and Anton Nekrutenko
    Genome Res. February 2023 33: 261-268; Published in Advance February 24, 2023, doi:10.1101/gr.276963.122
    ...interface by connecting the component tools. Workflows can thus be thought of as complex structures built from the same fundamental building blocks, which can be constructed without knowledge of the internal functionality of the individual tools. This has several advantages with regard to the user...
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  4. Method: An efficient method to identify, date, and describe admixture events using haplotype information
    • Pongsakorn Wangkumhang,
    • Matthew Greenfield,
    • and Garrett Hellenthal
    Genome Res. August 2022 32: 1553-1564; Published in Advance July 6, 2022, doi:10.1101/gr.275994.121
    ...information beyond the country level, so we cannot assess whether our clusters have fine-scale geographic interpretability. Instead, we view them as convenient units meant to capture relatively genetically homogeneous groupings, although we acknowledge that cluster assignments are sometimes uncertain...
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  5. Perspective: The first five years of single-cell cancer genomics and beyond
    • Nicholas E. Navin
    Genome Res. October 2015 25: 1499-1507; doi:10.1101/gr.191098.115
    ...The first five years of single-cell cancer genomics and beyond Nicholas E. Navin 1 , 2 , 3 1Department of Genetics, University of Texas, MD Anderson Cancer Center, Houston, Texas 77030, USA; 2Department of Bioinformatics and Computational Biology...
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  6. COMMENTARY: The Responsibility to Share: Sharing the Responsibility
    • Martin Yuille,
    • Bernhard Korn,
    • Troy Moore,
    • Andrew A. Farmer,
    • John Carrino,
    • Christa Prange,
    • and Yoshihide Hayashizaki
    Genome Res. October 15, 2004 14: 2015-2019; doi:10.1101/gr.2677304
    ...co-operation and development. Biological resource centres underpinning the future of life sciences and biotechnology. SourceOECD Science & Information Technology . No. 7, pp. 1 -68. WEB SITE REFERENCES http://www.mged.org/index.html ; Web site of the Microarray Expression Data Society. http://www.mrc.ac.uk/index/strategystrategy/strategy-science_strategy/strategy-strategy_implementation/strategy-other_initiatives/strategydata_sharing...
  7. Method: End Sequence Analysis Toolkit (ESAT) expands the extractable information from single-cell RNA-seq data
    • Alan Derr,
    • Chaoxing Yang,
    • Rapolas Zilionis,
    • Alexey Sergushichev,
    • David M. Blodgett,
    • Sambra Redick,
    • Rita Bortell,
    • Jeremy Luban,
    • David M. Harlan,
    • Sebastian Kadener,
    • Dale L. Greiner,
    • Allon Klein,
    • Maxim N. Artyomov,
    • and Manuel Garber
    Genome Res. October 2016 26: 1397-1410; Published in Advance July 28, 2016, doi:10.1101/gr.207902.116
    ...End Sequence Analysis Toolkit (ESAT) expands the extractable information from single-cell RNA-seq data Alan Derr 1 , Chaoxing Yang 2 , 10 , Rapolas Zilionis 3 , 4 , 10 , Alexey Sergushichev 5 , 6 , David M. Blodgett 7 , Sambra...
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  8. Insight/Outlook: Ethical and practical challenges of sharing data from genome-wide association studies: The eMERGE Consortium experience
    • Amy L. McGuire,
    • Melissa Basford,
    • Lynn G. Dressler,
    • Stephanie M. Fullerton,
    • Barbara A. Koenig,
    • Rongling Li,
    • Cathy A. McCarty,
    • Erin Ramos,
    • Maureen E. Smith,
    • Carol P. Somkin,
    • Carol Waudby,
    • Wendy A. Wolf,
    • and Ellen Wright Clayton
    Genome Res. July 2011 21: 1001-1007; Published in Advance June 1, 2011, doi:10.1101/gr.120329.111
    ...of the major ethical and administrative challenges for the eMERGE Consortium has been complying with existing data-sharing policies. This paper discusses the challenges of sharing genomic data linked to health information in the electronic medical record (EMR) and explores the issues as they relate to sharing...
  9. Mini-Review: Revisiting models of enhancer–promoter communication in gene regulation
    • Gilad Barshad and
    • Charles G. Danko
    Genome Res. June 2025 35: 1277-1286; doi:10.1101/gr.278389.123
    ...enhancer–promoter pairs do come into close proximity during transcriptional activation, these interactions are highly transient, and the precise distances remain challenging to measure. Moving forward, resolving the distinctions between these models will require novel techniques to more precisely measure...
  10. LETTER: Comparative genomics beyond sequence-based alignments: RNA structures in the ENCODE regions
    • Elfar Torarinsson,
    • Zizhen Yao,
    • Eric D. Wiklund,
    • Jesper B. Bramsen,
    • Claus Hansen,
    • Jørgen Kjems,
    • Niels Tommerup,
    • Walter L. Ruzzo,
    • and Jan Gorodkin
    Genome Res. February 2008 18: 242-251; Published in Advance December 20, 2007, doi:10.1101/gr.6887408
    ...Comparative genomics beyond sequence-based alignments: RNA structures in the ENCODE regions Elfar Torarinsson 1 , 2 , Zizhen Yao 3 , Eric D. Wiklund 4 , Jesper B. Bramsen 4 , Claus Hansen 5 , Jørgen Kjems 4 , Niels Tommerup...
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