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Guidelines for establishing locus specific databases.

Vihinen, Mauno LU ; den Dunnen, Johan T; Dalgleish, Raymond and Cotton, Richard G H (2012) In Human Mutation 33(2). p.298-305
Abstract
Information about genetic variation has been collected for some 20 years into registries, known as locus specific databases (LSDBs), which nowadays often contain information in addition to the actual genetic variation. Several issues have to be taken into account when considering establishing and maintaining LSDBs and these have been discussed previously in a number of articles describing guidelines and recommendations. This information is widely scattered and, for a newcomer, it would be difficult to obtain the latest information and guidance. Here, a sequence of steps essential for establishing an LSDB is discussed together with guidelines for each step. Curators need to collect information from various sources, code it in systematic... (More)
Information about genetic variation has been collected for some 20 years into registries, known as locus specific databases (LSDBs), which nowadays often contain information in addition to the actual genetic variation. Several issues have to be taken into account when considering establishing and maintaining LSDBs and these have been discussed previously in a number of articles describing guidelines and recommendations. This information is widely scattered and, for a newcomer, it would be difficult to obtain the latest information and guidance. Here, a sequence of steps essential for establishing an LSDB is discussed together with guidelines for each step. Curators need to collect information from various sources, code it in systematic way, and distribute to the research and clinical communities. In doing this, ethical issues have to be taken into account. To facilitate integration of information to, for example, analyze genotype-phenotype correlations, systematic data representation using established nomenclatures, data models, and ontologies is essential. LSDB curation and maintenance comprises a number of tasks that can be managed by following logical steps. These resources are becoming ever more important and new curators are essential to ensure that we will have expertly curated databases for all disease-related genes in the near future. (Less)
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author
publishing date
type
Contribution to journal
publication status
published
subject
keywords
Databases, Computational Biology: methods, Computational Biology: standards, Genetic: ethics, Genetic: standards
in
Human Mutation
volume
33
issue
2
pages
298 - 305
publisher
John Wiley & Sons
external identifiers
  • pmid:22052659
  • scopus:84857788757
ISSN
1059-7794
DOI
10.1002/humu.21646
language
English
LU publication?
no
id
df6371f1-6502-4be7-80c4-e37173fb26ef (old id 3634580)
alternative location
http://www.ncbi.nlm.nih.gov/pubmed/22052659?dopt=Abstract
date added to LUP
2013-06-12 20:48:21
date last changed
2017-10-01 04:55:31
@article{df6371f1-6502-4be7-80c4-e37173fb26ef,
  abstract     = {Information about genetic variation has been collected for some 20 years into registries, known as locus specific databases (LSDBs), which nowadays often contain information in addition to the actual genetic variation. Several issues have to be taken into account when considering establishing and maintaining LSDBs and these have been discussed previously in a number of articles describing guidelines and recommendations. This information is widely scattered and, for a newcomer, it would be difficult to obtain the latest information and guidance. Here, a sequence of steps essential for establishing an LSDB is discussed together with guidelines for each step. Curators need to collect information from various sources, code it in systematic way, and distribute to the research and clinical communities. In doing this, ethical issues have to be taken into account. To facilitate integration of information to, for example, analyze genotype-phenotype correlations, systematic data representation using established nomenclatures, data models, and ontologies is essential. LSDB curation and maintenance comprises a number of tasks that can be managed by following logical steps. These resources are becoming ever more important and new curators are essential to ensure that we will have expertly curated databases for all disease-related genes in the near future.},
  author       = {Vihinen, Mauno and den Dunnen, Johan T and Dalgleish, Raymond and Cotton, Richard G H},
  issn         = {1059-7794},
  keyword      = {Databases,Computational Biology: methods,Computational Biology: standards,Genetic: ethics,Genetic: standards},
  language     = {eng},
  number       = {2},
  pages        = {298--305},
  publisher    = {John Wiley & Sons},
  series       = {Human Mutation},
  title        = {Guidelines for establishing locus specific databases.},
  url          = {http://dx.doi.org/10.1002/humu.21646},
  volume       = {33},
  year         = {2012},
}