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1
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update
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The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update

Nucleic acids research, 2018-07, Vol.46 (W1), p.W537-W544 [Peer Reviewed Journal]

The Author(s) 2018. Published by Oxford University Press on behalf of Nucleic Acids Research. 2018 ;ISSN: 0305-1048 ;EISSN: 1362-4962 ;DOI: 10.1093/nar/gky379 ;PMID: 29790989

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2
Flexible statistical methods for estimating and testing effects in genomic studies with multiple conditions
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Flexible statistical methods for estimating and testing effects in genomic studies with multiple conditions

Nature genetics, 2019-01, Vol.51 (1), p.187-195 [Peer Reviewed Journal]

Copyright Nature Publishing Group Jan 2019 ;ISSN: 1061-4036 ;EISSN: 1546-1718 ;DOI: 10.1038/s41588-018-0268-8 ;PMID: 30478440

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3
Integrating Hi-C links with assembly graphs for chromosome-scale assembly
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Integrating Hi-C links with assembly graphs for chromosome-scale assembly

PLoS computational biology, 2019-08, Vol.15 (8), p.e1007273-e1007273 [Peer Reviewed Journal]

COPYRIGHT 2019 Public Library of Science ;COPYRIGHT 2019 Public Library of Science ;This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication: https://creativecommons.org/publicdomain/zero/1.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;ISSN: 1553-7358 ;ISSN: 1553-734X ;EISSN: 1553-7358 ;DOI: 10.1371/journal.pcbi.1007273 ;PMID: 31433799

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4
Genomic Risk Prediction of Coronary Artery Disease in 480,000 Adults: Implications for Primary Prevention
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Genomic Risk Prediction of Coronary Artery Disease in 480,000 Adults: Implications for Primary Prevention

Journal of the American College of Cardiology, 2018-10, Vol.72 (16), p.1883-1893 [Peer Reviewed Journal]

Copyright © 2018 The Authors. Published by Elsevier Inc. All rights reserved. ;Copyright Elsevier Limited Oct 16, 2018 ;2018 The Authors 2018 ;ISSN: 0735-1097 ;EISSN: 1558-3597 ;DOI: 10.1016/j.jacc.2018.07.079 ;PMID: 30309464

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5
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021
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Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021

Nucleic Acids Research, 2021-01, Vol.49 (D1), p.D18-D28 [Peer Reviewed Journal]

The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research. 2021 ;The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research. ;2020. This work is licensed under http://creativecommons.org/licenses/by-nc/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;ISSN: 0305-1048 ;EISSN: 1362-4962 ;DOI: 10.1093/nar/gkaa1022 ;PMID: 33175170

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6
Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration
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Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

Briefings in bioinformatics, 2013-03, Vol.14 (2), p.178-192 [Peer Reviewed Journal]

The Author(s) 2012. Published by Oxford University Press. 2012 ;ISSN: 1467-5463 ;EISSN: 1477-4054 ;DOI: 10.1093/bib/bbs017 ;PMID: 22517427

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7
Visualizing and comparing circular genomes using the CGView family of tools
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Visualizing and comparing circular genomes using the CGView family of tools

Briefings in bioinformatics, 2019-07, Vol.20 (4), p.1576-1582 [Peer Reviewed Journal]

The Author 2017. Published by Oxford University Press. 2017 ;The Author 2017. Published by Oxford University Press. ;ISSN: 1467-5463 ;EISSN: 1477-4054 ;DOI: 10.1093/bib/bbx081 ;PMID: 28968859

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8
Nanopore sequencing technology and tools for genome assembly: computational analysis of the current state, bottlenecks and future directions
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Nanopore sequencing technology and tools for genome assembly: computational analysis of the current state, bottlenecks and future directions

Briefings in bioinformatics, 2019-07, Vol.20 (4), p.1542-1559 [Peer Reviewed Journal]

The Author(s) 2018. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com 2018 ;The Author(s) 2018. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com. ;The Author(s) 2018. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com ;ISSN: 1467-5463 ;EISSN: 1477-4054 ;DOI: 10.1093/bib/bby017 ;PMID: 29617724

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9
Microbial genome analysis: the COG approach
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Microbial genome analysis: the COG approach

Briefings in bioinformatics, 2019-07, Vol.20 (4), p.1063-1070 [Peer Reviewed Journal]

Published by Oxford University Press 2017. This work is written by US Government employees and is in the public domain in the US. 2017 ;Published by Oxford University Press 2017. This work is written by US Government employees and is in the public domain in the US. ;ISSN: 1467-5463 ;EISSN: 1477-4054 ;DOI: 10.1093/bib/bbx117 ;PMID: 28968633

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10
Computational methods for transcriptome annotation and quantification using RNA-seq
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Computational methods for transcriptome annotation and quantification using RNA-seq

Nature methods, 2011-06, Vol.8 (6), p.469-477 [Peer Reviewed Journal]

COPYRIGHT 2011 Nature Publishing Group ;Copyright Nature Publishing Group Jun 2011 ;ISSN: 1548-7091 ;EISSN: 1548-7105 ;DOI: 10.1038/nmeth.1613 ;PMID: 21623353

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11
Using Tablet for visual exploration of second-generation sequencing data
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Using Tablet for visual exploration of second-generation sequencing data

Briefings in bioinformatics, 2013-03, Vol.14 (2), p.193-202 [Peer Reviewed Journal]

ISSN: 1467-5463 ;EISSN: 1477-4054 ;DOI: 10.1093/bib/bbs012 ;PMID: 22445902

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12
Guidelines for Genome-Scale Analysis of Biological Rhythms
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Guidelines for Genome-Scale Analysis of Biological Rhythms

Journal of biological rhythms, 2017-10, Vol.32 (5), p.380-393 [Peer Reviewed Journal]

2017 The Author(s) ;ISSN: 0748-7304 ;EISSN: 1552-4531 ;DOI: 10.1177/0748730417728663

Digital Resources/Online E-Resources

13
Improving the Assessment of the Outcome of Nonsynonymous SNVs with a Consensus Deleteriousness Score, Condel
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Improving the Assessment of the Outcome of Nonsynonymous SNVs with a Consensus Deleteriousness Score, Condel

American journal of human genetics, 2011-04, Vol.88 (4), p.440-449 [Peer Reviewed Journal]

2011 The American Society of Human Genetics ;2015 INIST-CNRS ;Copyright © 2011 The American Society of Human Genetics. Published by Elsevier Inc. All rights reserved. ;Copyright Cell Press Apr 8, 2011 ;info:eu-repo/semantics/openAccess © Elsevier This is the published version of an article http://dx.doi.org/10.1016/j.ajhg.2011.03.004 that appeared in the journal American journal of human genetics. It is published in an Open Archive under an Elsevier user license. Details of this licence are available here: http://www.elsevier.com/about/open-access/open-access-policies/oa-license-policy/elsevier-user-license ;2011 The American Society of Human Genetics. Published by Elsevier Ltd. All right reserved. 2011 The American Society of Human Genetics ;ISSN: 0002-9297 ;EISSN: 1537-6605 ;DOI: 10.1016/j.ajhg.2011.03.004 ;PMID: 21457909 ;CODEN: AJHGAG

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14
Tackling the widespread and critical impact of batch effects in high-throughput data
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Tackling the widespread and critical impact of batch effects in high-throughput data

Nature reviews. Genetics, 2010-10, Vol.11 (10), p.733-739 [Peer Reviewed Journal]

2015 INIST-CNRS ;COPYRIGHT 2010 Nature Publishing Group ;COPYRIGHT 2010 Nature Publishing Group ;Copyright Nature Publishing Group Oct 2010 ;2010 Macmillan Publishers Limited. All rights reserved 2010 ;ISSN: 1471-0056 ;EISSN: 1471-0064 ;DOI: 10.1038/nrg2825 ;PMID: 20838408

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15
The UCSC genome browser and associated tools
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The UCSC genome browser and associated tools

Briefings in bioinformatics, 2013-03, Vol.14 (2), p.144-161 [Peer Reviewed Journal]

Copyright Oxford Publishing Limited(England) Mar 2013 ;The Author 2012. Published by Oxford University Press. 2012 ;ISSN: 1467-5463 ;EISSN: 1477-4054 ;DOI: 10.1093/bib/bbs038 ;PMID: 22908213

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16
Inferring horizontal gene transfer
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Inferring horizontal gene transfer

PLoS computational biology, 2015-05, Vol.11 (5), p.e1004095-e1004095 [Peer Reviewed Journal]

COPYRIGHT 2015 Public Library of Science ;COPYRIGHT 2015 Public Library of Science ;2015 Ravenhall et al 2015 Ravenhall et al ;2015 Public Library of Science. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited: Ravenhall M, Skunca N, Lassalle F, Dessimoz C (2015) Inferring Horizontal Gene Transfer. PLoS Comput Biol 11(5): e1004095. doi:10.1371/journal.pcbi.1004095 ;ISSN: 1553-7358 ;ISSN: 1553-734X ;EISSN: 1553-7358 ;DOI: 10.1371/journal.pcbi.1004095 ;PMID: 26020646

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17
Public human microbiome data are dominated by highly developed countries
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Public human microbiome data are dominated by highly developed countries

PLoS biology, 2022-02, Vol.20 (2), p.e3001536-e3001536 [Peer Reviewed Journal]

2022 Abdill et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;2022 Abdill et al 2022 Abdill et al ;ISSN: 1545-7885 ;ISSN: 1544-9173 ;EISSN: 1545-7885 ;DOI: 10.1371/journal.pbio.3001536 ;PMID: 35167588

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18
Genomics for the world
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Genomics for the world

Nature (London), 2011-07, Vol.475 (7355), p.163-165 [Peer Reviewed Journal]

Copyright Nature Publishing Group Jul 14, 2011 ;ISSN: 0028-0836 ;EISSN: 1476-4687 ;DOI: 10.1038/475163a ;PMID: 21753830 ;CODEN: NATUAS

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19
A new multipoint method for genome-wide association studies by imputation of genotypes
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A new multipoint method for genome-wide association studies by imputation of genotypes

Nature genetics, 2007-07, Vol.39 (7), p.906-913 [Peer Reviewed Journal]

2007 INIST-CNRS ;COPYRIGHT 2007 Nature Publishing Group ;Copyright Nature Publishing Group Jul 2007 ;ISSN: 1061-4036 ;EISSN: 1546-1718 ;DOI: 10.1038/ng2088 ;PMID: 17572673 ;CODEN: NGENEC

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20
Quantifying the impact of public omics data
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Quantifying the impact of public omics data

Nature communications, 2019-08, Vol.10 (1), p.3512-10, Article 3512 [Peer Reviewed Journal]

2019. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2019 ;ISSN: 2041-1723 ;EISSN: 2041-1723 ;DOI: 10.1038/s41467-019-11461-w ;PMID: 31383865

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