Applied and implied semantics in crystallographic publishing
Identifieur interne : 000058 ( Main/Exploration ); précédent : 000057; suivant : 000059Applied and implied semantics in crystallographic publishing
Auteurs : Brian Mcmahon [Royaume-Uni]Source :
- Journal of Cheminformatics [ 1758-2946 ] ; 2012.
Abstract
Crystallography is a data-rich, software-intensive scientific discipline with a community that has undertaken direct responsibility for publishing its own scientific journals. That community has worked actively to develop information exchange standards allowing readers of structure reports to access directly, and interact with, the scientific content of the articles.
Structure reports submitted to some journals of the International Union of Crystallography (IUCr) can be automatically validated and published through an efficient and cost-effective workflow. Readers can view and interact with the structures in three-dimensional visualization applications, and can access the experimental data should they wish to perform their own independent structure solution and refinement. The journals also layer on top of this facility a number of automated annotations and interpretations to add further scientific value.
The benefits of semantically rich information exchange standards have revolutionised the scholarly publishing process for crystallography, and establish a model relevant to many other physical science disciplines.
Url:
DOI: 10.1186/1758-2946-4-19
PubMed: 22932420
PubMed Central: 3497589
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Applied and implied semantics in crystallographic publishing</title><author><name sortKey="Mcmahon, Brian" sort="Mcmahon, Brian" uniqKey="Mcmahon B" first="Brian" last="Mcmahon">Brian Mcmahon</name><affiliation wicri:level="1"><nlm:aff id="I1">International Union of Crystallography, 5 Abbey Square, Chester CH1 2HU, UK</nlm:aff><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>International Union of Crystallography, 5 Abbey Square, Chester CH1 2HU</wicri:regionArea><wicri:noRegion>Chester CH1 2HU</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">22932420</idno><idno type="pmc">3497589</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3497589</idno><idno type="RBID">PMC:3497589</idno><idno type="doi">10.1186/1758-2946-4-19</idno><date when="2012">2012</date><idno type="wicri:Area/Pmc/Corpus">000157</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000157</idno><idno type="wicri:Area/Pmc/Curation">000157</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000157</idno><idno type="wicri:Area/Pmc/Checkpoint">000027</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000027</idno><idno type="wicri:Area/Ncbi/Merge">000105</idno><idno type="wicri:Area/Ncbi/Curation">000105</idno><idno type="wicri:Area/Ncbi/Checkpoint">000105</idno><idno type="wicri:Area/Main/Merge">000058</idno><idno type="wicri:Area/Main/Curation">000058</idno><idno type="wicri:Area/Main/Exploration">000058</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Applied and implied semantics in crystallographic publishing</title><author><name sortKey="Mcmahon, Brian" sort="Mcmahon, Brian" uniqKey="Mcmahon B" first="Brian" last="Mcmahon">Brian Mcmahon</name><affiliation wicri:level="1"><nlm:aff id="I1">International Union of Crystallography, 5 Abbey Square, Chester CH1 2HU, UK</nlm:aff><country xml:lang="fr">Royaume-Uni</country><wicri:regionArea>International Union of Crystallography, 5 Abbey Square, Chester CH1 2HU</wicri:regionArea><wicri:noRegion>Chester CH1 2HU</wicri:noRegion></affiliation></author></analytic><series><title level="j">Journal of Cheminformatics</title><idno type="eISSN">1758-2946</idno><imprint><date when="2012">2012</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>Crystallography is a data-rich, software-intensive scientific discipline with a community that has undertaken direct responsibility for publishing its own scientific journals. That community has worked actively to develop information exchange standards allowing readers of structure reports to access directly, and interact with, the scientific content of the articles.</p></sec><sec><title>Results</title><p>Structure reports submitted to some journals of the International Union of Crystallography (IUCr) can be automatically validated and published through an efficient and cost-effective workflow. Readers can view and interact with the structures in three-dimensional visualization applications, and can access the experimental data should they wish to perform their own independent structure solution and refinement. The journals also layer on top of this facility a number of automated annotations and interpretations to add further scientific value.</p></sec><sec><title>Conclusions</title><p>The benefits of semantically rich information exchange standards have revolutionised the scholarly publishing process for crystallography, and establish a model relevant to many other physical science disciplines.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Goldfarb, Cf" uniqKey="Goldfarb C">CF Goldfarb</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Berners Lee, T" uniqKey="Berners Lee T">T Berners-Lee</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Raggett, Ds" uniqKey="Raggett D">DS Raggett</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Brown, Id" uniqKey="Brown I">ID 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