Using Sculptor and Situs for Simultaneous Assembly of Atomic Components into Low-Resolution Shapes
Identifieur interne : 003522 ( Main/Merge ); précédent : 003521; suivant : 003523Using Sculptor and Situs for Simultaneous Assembly of Atomic Components into Low-Resolution Shapes
Auteurs : Stefan Birmanns [États-Unis] ; Mirabela Rusu [États-Unis] ; Willy Wriggers [États-Unis]Source :
- Journal of Structural Biology [ 1047-8477 ] ; 2010.
Abstract
We describe an integrated software system called
Url:
DOI: 10.1016/j.jsb.2010.11.002
PubMed: 21078392
PubMed Central: 3352678
Links toward previous steps (curation, corpus...)
- to stream Pmc, to step Corpus: 001041
- to stream Pmc, to step Curation: 001041
- to stream Pmc, to step Checkpoint: 001C95
- to stream Ncbi, to step Merge: 001762
- to stream Ncbi, to step Curation: 001762
- to stream Ncbi, to step Checkpoint: 001762
Links to Exploration step
PMC:3352678Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Using <italic>Sculptor</italic>
and <italic>Situs</italic>
for Simultaneous Assembly of Atomic Components into Low-Resolution Shapes</title>
<author><name sortKey="Birmanns, Stefan" sort="Birmanns, Stefan" uniqKey="Birmanns S" first="Stefan" last="Birmanns">Stefan Birmanns</name>
<affiliation wicri:level="2"><nlm:aff id="A1"> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600, Houston TX 77030</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Texas</region>
</placeName>
<wicri:cityArea> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Rusu, Mirabela" sort="Rusu, Mirabela" uniqKey="Rusu M" first="Mirabela" last="Rusu">Mirabela Rusu</name>
<affiliation wicri:level="2"><nlm:aff id="A1"> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600, Houston TX 77030</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Texas</region>
</placeName>
<wicri:cityArea> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Wriggers, Willy" sort="Wriggers, Willy" uniqKey="Wriggers W" first="Willy" last="Wriggers">Willy Wriggers</name>
<affiliation wicri:level="2"><nlm:aff id="A1"> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600, Houston TX 77030</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Texas</region>
</placeName>
<wicri:cityArea> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600</wicri:cityArea>
</affiliation>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PMC</idno>
<idno type="pmid">21078392</idno>
<idno type="pmc">3352678</idno>
<idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3352678</idno>
<idno type="RBID">PMC:3352678</idno>
<idno type="doi">10.1016/j.jsb.2010.11.002</idno>
<date when="2010">2010</date>
<idno type="wicri:Area/Pmc/Corpus">001041</idno>
<idno type="wicri:Area/Pmc/Curation">001041</idno>
<idno type="wicri:Area/Pmc/Checkpoint">001C95</idno>
<idno type="wicri:Area/Ncbi/Merge">001762</idno>
<idno type="wicri:Area/Ncbi/Curation">001762</idno>
<idno type="wicri:Area/Ncbi/Checkpoint">001762</idno>
<idno type="wicri:Area/Main/Merge">003522</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Using <italic>Sculptor</italic>
and <italic>Situs</italic>
for Simultaneous Assembly of Atomic Components into Low-Resolution Shapes</title>
<author><name sortKey="Birmanns, Stefan" sort="Birmanns, Stefan" uniqKey="Birmanns S" first="Stefan" last="Birmanns">Stefan Birmanns</name>
<affiliation wicri:level="2"><nlm:aff id="A1"> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600, Houston TX 77030</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Texas</region>
</placeName>
<wicri:cityArea> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Rusu, Mirabela" sort="Rusu, Mirabela" uniqKey="Rusu M" first="Mirabela" last="Rusu">Mirabela Rusu</name>
<affiliation wicri:level="2"><nlm:aff id="A1"> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600, Houston TX 77030</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Texas</region>
</placeName>
<wicri:cityArea> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600</wicri:cityArea>
</affiliation>
</author>
<author><name sortKey="Wriggers, Willy" sort="Wriggers, Willy" uniqKey="Wriggers W" first="Willy" last="Wriggers">Willy Wriggers</name>
<affiliation wicri:level="2"><nlm:aff id="A1"> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600, Houston TX 77030</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName><region type="state">Texas</region>
</placeName>
<wicri:cityArea> University of Texas School of Biomedical Informatics at Houston, 7000 Fannin St. UCT 600</wicri:cityArea>
</affiliation>
</author>
</analytic>
<series><title level="j">Journal of Structural Biology</title>
<idno type="ISSN">1047-8477</idno>
<idno type="eISSN">1095-8657</idno>
<imprint><date when="2010">2010</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass></textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en"><p id="P2">We describe an integrated software system called <italic>Sculptor</italic>
that combines visualization capabilities with molecular modeling algorithms for the analysis of multi-scale data sets. <italic>Sculptor</italic>
features extensive special purpose visualization techniques that are based on modern GPU programming and are capable of representing complex molecular assemblies in real-time. The integration of graphics and modeling offers several advantages. The user interface not only eases the usually steep learning curve of pure algorithmic techniques, but it also permits instant analysis and post-processing of results, as well as the integration of results from external software. Here, we implemented an interactive peak-selection strategy that enables the user to explore a preliminary score landscape generated by the <italic>colores</italic>
tool of <italic>Situs</italic>
. The interactive placement of components, one at a time, is advantageous for low-resolution or ambiguously shaped maps, which are sometimes difficult to interpret by the fully automatic peak selection of <italic>colores</italic>
. For the subsequent refinement of the preliminary models resulting from both interactive and automatic peak selection, we have implemented a novel simultaneous multi-body docking in <italic>Sculptor</italic>
and <italic>Situs</italic>
that softly enforces shape complementarities between components using the normalization of the cross-correlation coefficient. The proposed techniques are freely available in <italic>Situs</italic>
version 2.6 and <italic>Sculptor</italic>
version 2.0.</p>
</div>
</front>
</TEI>
</record>
Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Ticri/CIDE/explor/HapticV1/Data/Main/Merge
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 003522 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Merge/biblio.hfd -nk 003522 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien |wiki= Ticri/CIDE |area= HapticV1 |flux= Main |étape= Merge |type= RBID |clé= PMC:3352678 |texte= Using Sculptor and Situs for Simultaneous Assembly of Atomic Components into Low-Resolution Shapes }}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Merge/RBID.i -Sk "pubmed:21078392" \ | HfdSelect -Kh $EXPLOR_AREA/Data/Main/Merge/biblio.hfd \ | NlmPubMed2Wicri -a HapticV1
This area was generated with Dilib version V0.6.23. |