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Ensembl variation resources

delete2018-11-06
delete403
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OA
AI
S
Sarah Hunt
W
William McLaren
L
Laurent Gil
A
Anja Thormann
H
Helen Schuilenburg
D
Dan Sheppard
A
Andrew Parton
I
Irina M. Armean
S
Stephen J. Trevanion
P
Paul Flicek
F
Fiona Cunningham *
DOI:10.1093/database/bay119delete
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Abstract

Abstract

En 中文
The major goal of sequencing humans and many other species is to understand the link between genomic variation, phenotype and disease. There are numerous valuable and well-established variation resources, but collating and making sense of non-homogeneous, often large-scale data sets from disparate sources remains a challenge. Without a systematic catalogue of these data and appropriate query and annotation tools, understanding the genome sequence of an individual and assessing their disease risk is impossible. In Ensembl, we substantially solve this problem: we develop methods to facilitate data integration and broad access; aggregate information in a consistent manner and make it available a variety of standard formats, both visually and programmatically; build analysis pipelines to compare variants to comprehensive genomic annotation sets; and make all tools and data publicly available.
Keywords:
ONLINE MENDELIAN INHERITANCE
SEQUENCE VARIANTS
DATABASE
GENOMES
ASSOCIATION
PROJECT
REPOSITORY
PHENOTYPE
PLATFORM
CATALOG
AI Summary

AI Summary

Key information extracted from the uploaded paper, including a brief overview, abstract, background, key highlights, visual analysis, and future outlook.

Journal

D
Database-The Journal of Biological Databases and Curation
IF:
3.6
Papers:
1.8K
Citations:
6.1K

Organization

E
european molecular biology laboratory (embl)
Scholars:
8.3K
Papers: 5.1K
Citations: 31
Cited Papers

Cited Papers

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Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly
err2017-04-10
err659
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errSchneider, Valerie A.; Graves-Lindsay, Tina; Howe, Kerstin; Bouk, Nathan; Chen, Hsiu-Chuan; Kitts, Paul A.; Murphy, Terence D.; Pruitt, Kim D.; Thibaud-Nissen, Francoise; Albracht, Derek; Fulton, Robert S.; Kremitzki, Milinn; Magrini, Vincent; Markovic, Chris; McGrath, Sean; Steinberg, Karyn Meltz; Auger, Kate; Chow, William; Collins, Joanna; Harden, Glenn; Hubbard, Timothy; Pelan, Sarah; Simpson, Jared T.; Threadgold, Glen; Torrance, James; Wood, Jonathan M.; Clarke, Laura; Koren, Sergey; Boitano, Matthew; Peluso, Paul; Li, Heng; Chin, Chen-Shan; Phillippy, Adam M.; Durbin, Richard; Wilson, Richard K.; Flicek, Paul; Eichler, Evan E.; Church, Deanna M.
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ZFIN, the Zebrafish Model Organism Database: increased support for mutants and transgenics
err2012-10-15
err222
errOAAI
errHowe, Douglas G.; Bradford, Yvonne M.; Conlin, Tom; Eagle, Anne E.; Fashena, David; Frazer, Ken; Knight, Jonathan; Mani, Prita; Martin, Ryan; Moxon, Sierra A. Taylor; Paddock, Holly; Pich, Christian; Ramachandran, Sridhar; Ruef, Barbara J.; Ruzicka, Leyla; Schaper, Kevin; Shao, Xiang; Singer, Amy; Sprunger, Brock; Van Slyke, Ceri E.; Westerfield, Monte
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The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data
err2013-11-11
err473
errOAAI
errKoehler, Sebastian; Doelken, Sandra C.; Mungall, Christopher J.; Bauer, Sebastian; Firth, Helen V.; Bailleul-Forestier, Isabelle; Black, Graeme C. M.; Brown, Danielle L.; Brudno, Michael; Campbell, Jennifer; FitzPatrick, David R.; Eppig, Janan T.; Jackson, Andrew P.; Freson, Kathleen; Girdea, Marta; Helbig, Ingo; Hurst, Jane A.; Jaehn, Johanna; Jackson, Laird G.; Kelly, Anne M.; Ledbetter, David H.; Mansour, Sahar; Martin, Christa L.; Moss, Celia; Mumford, Andrew; Ouwehand, Willem H.; Park, Soo-Mi; Riggs, Erin Rooney; Scott, Richard H.; Sisodiya, Sanjay; Van Vooren, Steven; Wapner, Ronald J.; Wilkie, Andrew O. M.; Wright, Caroline F.; Vulto-van Silfhout, Anneke T.; de Leeuw, Nicole; de Vries, Bert B. A.; Washingthon, Nicole L.; Smith, Cynthia L.; Westerfield, Monte; Schofield, Paul; Ruef, Barbara J.; Gkoutos, Georgios V.; Haendel, Melissa; Smedley, Damian; Lewis, Suzanna E.; Robinson, Peter N.
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Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology
err2015-05-01
err2.0W
errOAAI
errRichards, Sue; Aziz, Nazneen; Bale, Sherri; Bick, David; Das, Soma; Gastier-Foster, Julie; Grody, Wayne W.; Hegde, Madhuri; Lyon, Elaine; Spector, Elaine; Voelkerding, Karl; Rehm, Heidi L.
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DECIPHER: Database of Chromosomal Imbalance and Phenotype in Humans Using Ensembl Resources
err2009-04-01
err1.5K
errOAAI
errFirth, Helen V.; Richards, Shola M.; Bevan, A. Paul; Clayton, Stephen; Corpas, Manuel; Rajan, Diana; Van Vooren, Steven; Moreau, Yves; Pettett, Roger M.; Carter, Nigel P.
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Dynamics of an erbium-doped fiber laser with pump modulation: theory and experiment
err2005-10-01
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PREAI
errAlexander N. Pisarchik; Alexander V. Kir'yanov; Yuri O. Barmenkov; Rider Jaimes-Reátegui
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CockroachDB: The Resilient Geo-Distributed SQL Database
err2020-05-31
err0
errOAAI
errRebecca Taft; Irfan Sharif; Andrei Matei; Nathan VanBenschoten; Jordan Lewis; Tobias Grieger; Kai Niemi; Andy Woods; Anne Birzin; Raphael Poss; Paul Bardea; Amruta Ranade; Ben Darnell; Bram Gruneir; Justin Jaffray; Lucy Zhang; Peter Mattis
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