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WormBase: a comprehensive resource for nematode research
2009
Nucleic Acids Research
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ABSTRACT WormBase (http://www.wormbase.org) is a central data repository for nematode biology. ...
INTEGRATION WITH THIRD-PARTY RESOURCES Although the data housed at WormBase is extensive, it is not comprehensive. ...
doi:10.1093/nar/gkp952
pmid:19910365
pmcid:PMC2808986
fatcat:msx6exctxvfvnaurwn2fr4fd7a
WormBase 2017: molting into a new stage
2017
Nucleic Acids Research
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WormBase (http://www.wormbase.org) is an important knowledge resource for biomedical researchers worldwide. ...
To accommodate the ever increasing amount and complexity of research data, WormBase continues to advance its practices on data acquisition, curation and retrieval to most effectively deliver comprehensive ...
INTRODUCTION WormBase is a critically important public information resource for nematode research. ...
doi:10.1093/nar/gkx998
pmid:29069413
pmcid:PMC5753391
fatcat:5rholx7nqvaurox74fnyrulgs4
WormBase 2014: new views of curated biology
2013
Nucleic Acids Research
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Researchers who come to the WormBase Web site with a particular goal of understanding how nematode research has informed a particular field of study are now able to explore WormBase data from a perspective ...
Working in collaboration with the filariasis community via FR3 (NIAID Filariasis Research Reagent Resource Center), targets for manual curation were identified based on their likely importance to the research ...
doi:10.1093/nar/gkt1063
pmid:24194605
pmcid:PMC3965043
fatcat:lh2mkgbydvfwrdngdv7nz3icme
WormBase 2012: more genomes, more data, new website
2011
Nucleic Acids Research
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Since its release in 2000, WormBase (http://www .wormbase.org) has grown from a small resource focusing on a single species and serving a dedicated research community, to one now spanning 15 species essential ...
Finally, we have introduced a dramatic overhaul of the WormBase website for public beta testing. ...
INTRODUCTION Caenorhabditis elegans is a millimeter long, free-living, soil nematode used as a model organism for biology research for nearly four decades [(1,2) ; http://www.wormbook.org]. ...
doi:10.1093/nar/gkr954
pmid:22067452
pmcid:PMC3245152
fatcat:4jkq3undtzc6lporuvo3nteium
WormBase 2016: expanding to enable helminth genomic research
2015
Nucleic Acids Research
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WormBase (www.wormbase.org) is a central repository for research data on the biology, genetics and genomics of Caenorhabditis elegans and other nematodes. ...
WormBase ParaSite (parasite.wormbase.org) contains all publicly available nematode and platyhelminth annotated genome sequences, and is designed specifically to support helminth genomic research. ...
ACKNOWLEDGEMENTS After many years working closely with WormBase as the guardian and authority for C. elegans genetic nomenclature, Jonathan Hodgkin has now stepped down from this role. ...
doi:10.1093/nar/gkv1217
pmid:26578572
pmcid:PMC4702863
fatcat:h3yxwojkojgszivof7ahs6fprq
WormBase: a comprehensive data resource for Caenorhabditis biology and genomics
2004
Nucleic Acids Research
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WormBase (http://www.wormbase.org), the model organism database for information about Caenorhabditis elegans and related nematodes, continues to expand in breadth and depth. ...
Over the past year, WormBase has added multiple large-scale datasets including SAGE, interactome, 3D protein structure datasets and NCBI KOGs. To accommodate this ...
evolution from a data repository into a resource for all biologists to use in order to maximize the value of model organism research in C.elegans and its relatives. ...
doi:10.1093/nar/gki066
pmid:15608221
pmcid:PMC540020
fatcat:ffmlelkm4zcv3h5al6d7gsbbcq
Using WormBase: A Genome Biology Resource for Caenorhabditis elegans and Related Nematodes
[chapter]
2018
Msphere
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WormBase (www.wormbase.org) provides the nematode research community with a centralized database for information pertaining to nematode genes and genomes. ...
As more nematode genome sequences are becoming available and as richer data sets are published, WormBase strives to maintain updated information, displays, and services to facilitate efficient access to ...
Community Resources WormBase offers a number of services to support the C. elegans research community. ...
doi:10.1007/978-1-4939-7737-6_14
pmid:29761466
fatcat:pmvjwlblwrf6fkwid5fm272sfq
Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR
2012
Database: The Journal of Biological Databases and Curation
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Wimpfheimer for assistance with the figures. The members of the WormBase Consortium are M. Berriman and R. Durbin ...
Arighi for advice and support regarding the Task III evaluation. ...
WormBase (http://www.wormbase.org) is a model organism database that curates data about Caenorhabditis elegans and other nematodes (4) . ...
doi:10.1093/database/bas040
pmid:23160413
pmcid:PMC3500519
fatcat:xm263mzjpferrgyn4augokxkgm
Text mining meets community curation: a newly designed curation platform to improve author experience and participation at WormBase
2020
Database: The Journal of Biological Databases and Curation
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WormBase (WB), the authoritative repository for research data on Caenorhabditis elegans and other nematodes, uses text mining (TM) to semi-automate its curation pipeline. ...
The new user interface also links out to specific structured data submission forms, e.g. for phenotype or expression pattern data, giving the authors the opportunity to contribute a more detailed curation ...
We also thank Gary Ruvkun for the permission to use his name in Figure 3 . ...
doi:10.1093/database/baaa006
pmid:32185395
pmcid:PMC7078066
fatcat:rqgg4d73ufb5xmkusxfyhj6tzi
Unraveling worm biology in the post-genomic era
2001
Genome Biology
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Many international biologists and bioinformaticians contribute to WormBase. It is the most comprehensive site for genomic information in C. elegans and contains a vast amount of information. ...
Best feature It is fantastic that one can simply navigate around a comprehensive resource of biological information on C. elegans, including genomics. ...
doi:10.1186/gb-2001-3-1-reports2005
fatcat:s5d54jwtvnfhhkjedc42szzqly
Caenorhabditis elegans: nature and nurture gift to nematode parasitologists
2017
Parasitology
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How emerging technologies being used in C. elegans can pave the way for parasitic nematode research is discussed. ...
The use of C. elegans relating to parasitic nematodes from a basic biology standpoint or an applied perspective has increased in recent years. ...
We thank all members of the Worm Biology Lab for helpful discussions (Institut Pasteur de Montevideo). ...
doi:10.1017/s0031182017002165
pmid:29208057
fatcat:atjsdg6ksndefpxjqx5djg4zfm
WormBook: the online review of Caenorhabditis elegans biology
2007
Nucleic Acids Research
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WormBook represents a generic publishing infrastructure that is easily adaptable to other research communities to facilitate the dissemination of knowledge in the field. ...
WormBook also serves as the text companion to WormBase, the C.elegans model organism database. ...
Funding for WormBook has been provided by a grant to WormBase from the US National Human Genome Research Institute (P41 HG02223), the Genetics Society, the Society for Developmental Biology, as well as ...
doi:10.1093/nar/gkl894
pmid:17099225
pmcid:PMC1669767
fatcat:yqijfizk2ngnhfxn73l6mlffg4
Toward 959 nematode genomes
2012
Worm
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goals of any nematode research program a less daunting prospect. ...
The sequencing of the complete genome of the nematode Caenorhabditis elegans was a landmark achievement and ushered in a new era of whole-organism, systems analyses of the biology of this powerful model ...
K. is funded by a School of Biological Sciences PhD studentship and the Overseas Research Student Awards Scheme at the University of Edinburgh; G. ...
doi:10.4161/worm.19046
pmid:24058822
pmcid:PMC3670170
fatcat:bnsl3sgtx5bxnelky6lnvfccui
Nematode.net: a tool for navigating sequences from parasitic and free-living nematodes
2004
Nucleic Acids Research
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Nematode.net (www.nematode.net) is a web accessible resource for investigating gene sequences from nematode genomes. ...
Nematodes or roundworms are members of an ancient phylum that accounts for perhaps four out of every five individual animals in the world ( 1 ). ...
of medical and economic importance as a route toward research on new anthelmintic drugs, vaccines, safe pesticides and resistant plants. ...
doi:10.1093/nar/gkh010
pmid:14681448
pmcid:PMC308745
fatcat:alqmlkbvfng3zm36kcgfknephu
Nematode.net update 2011: addition of data sets and tools featuring next-generation sequencing data
2011
Nucleic Acids Research
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Nematode.net (http://nematode.net) has been a publicly available resource for studying nematodes for over a decade. ...
Organism-centric portals containing dynamically generated data are available for over 56 different nematode species. ...
We would like to thank Gaia Remerowski for technical advice and John Spieth, who heads the Wormbase efforts at the TGI. ...
doi:10.1093/nar/gkr1194
pmid:22139919
pmcid:PMC3245159
fatcat:3cg4tlli5ree3lmiz54chz5ngi
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