Predicting survival in head and neck squamous cell carcinoma from TP53 mutation
Identifieur interne : 001A25 ( Main/Exploration ); précédent : 001A24; suivant : 001A26Predicting survival in head and neck squamous cell carcinoma from TP53 mutation
Auteurs : David L. Masica ; Shuli Li ; Christopher Douville ; Judith Manola ; Robert L. Ferris ; Barbara Burtness ; Arlene A. Forastiere ; Wayne M. Koch ; Christine H. Chung ; Rachel KarchinSource :
- Human genetics [ 0340-6717 ] ; 2014.
Abstract
For
Url:
DOI: 10.1007/s00439-014-1470-0
PubMed: 25108461
PubMed Central: 4324386
Affiliations:
Links toward previous steps (curation, corpus...)
- to stream Pmc, to step Corpus: 001370
- to stream Pmc, to step Curation: 001345
- to stream Pmc, to step Checkpoint: 000942
- to stream Ncbi, to step Merge: 002E68
- to stream Ncbi, to step Curation: 002E68
- to stream Ncbi, to step Checkpoint: 002E68
- to stream Main, to step Merge: 001A90
- to stream Main, to step Curation: 001A25
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Predicting survival in head and neck squamous cell carcinoma from <italic>TP53</italic>
mutation</title>
<author><name sortKey="Masica, David L" sort="Masica, David L" uniqKey="Masica D" first="David L." last="Masica">David L. Masica</name>
</author>
<author><name sortKey="Li, Shuli" sort="Li, Shuli" uniqKey="Li S" first="Shuli" last="Li">Shuli Li</name>
</author>
<author><name sortKey="Douville, Christopher" sort="Douville, Christopher" uniqKey="Douville C" first="Christopher" last="Douville">Christopher Douville</name>
</author>
<author><name sortKey="Manola, Judith" sort="Manola, Judith" uniqKey="Manola J" first="Judith" last="Manola">Judith Manola</name>
</author>
<author><name sortKey="Ferris, Robert L" sort="Ferris, Robert L" uniqKey="Ferris R" first="Robert L." last="Ferris">Robert L. Ferris</name>
</author>
<author><name sortKey="Burtness, Barbara" sort="Burtness, Barbara" uniqKey="Burtness B" first="Barbara" last="Burtness">Barbara Burtness</name>
</author>
<author><name sortKey="Forastiere, Arlene A" sort="Forastiere, Arlene A" uniqKey="Forastiere A" first="Arlene A." last="Forastiere">Arlene A. Forastiere</name>
</author>
<author><name sortKey="Koch, Wayne M" sort="Koch, Wayne M" uniqKey="Koch W" first="Wayne M." last="Koch">Wayne M. Koch</name>
</author>
<author><name sortKey="Chung, Christine H" sort="Chung, Christine H" uniqKey="Chung C" first="Christine H." last="Chung">Christine H. Chung</name>
</author>
<author><name sortKey="Karchin, Rachel" sort="Karchin, Rachel" uniqKey="Karchin R" first="Rachel" last="Karchin">Rachel Karchin</name>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PMC</idno>
<idno type="pmid">25108461</idno>
<idno type="pmc">4324386</idno>
<idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4324386</idno>
<idno type="RBID">PMC:4324386</idno>
<idno type="doi">10.1007/s00439-014-1470-0</idno>
<date when="2014">2014</date>
<idno type="wicri:Area/Pmc/Corpus">001370</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">001370</idno>
<idno type="wicri:Area/Pmc/Curation">001345</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">001345</idno>
<idno type="wicri:Area/Pmc/Checkpoint">000942</idno>
<idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000942</idno>
<idno type="wicri:Area/Ncbi/Merge">002E68</idno>
<idno type="wicri:Area/Ncbi/Curation">002E68</idno>
<idno type="wicri:Area/Ncbi/Checkpoint">002E68</idno>
<idno type="wicri:doubleKey">0340-6717:2014:Masica D:predicting:survival:in</idno>
<idno type="wicri:Area/Main/Merge">001A90</idno>
<idno type="wicri:Area/Main/Curation">001A25</idno>
<idno type="wicri:Area/Main/Exploration">001A25</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Predicting survival in head and neck squamous cell carcinoma from <italic>TP53</italic>
mutation</title>
<author><name sortKey="Masica, David L" sort="Masica, David L" uniqKey="Masica D" first="David L." last="Masica">David L. Masica</name>
</author>
<author><name sortKey="Li, Shuli" sort="Li, Shuli" uniqKey="Li S" first="Shuli" last="Li">Shuli Li</name>
</author>
<author><name sortKey="Douville, Christopher" sort="Douville, Christopher" uniqKey="Douville C" first="Christopher" last="Douville">Christopher Douville</name>
</author>
<author><name sortKey="Manola, Judith" sort="Manola, Judith" uniqKey="Manola J" first="Judith" last="Manola">Judith Manola</name>
</author>
<author><name sortKey="Ferris, Robert L" sort="Ferris, Robert L" uniqKey="Ferris R" first="Robert L." last="Ferris">Robert L. Ferris</name>
</author>
<author><name sortKey="Burtness, Barbara" sort="Burtness, Barbara" uniqKey="Burtness B" first="Barbara" last="Burtness">Barbara Burtness</name>
</author>
<author><name sortKey="Forastiere, Arlene A" sort="Forastiere, Arlene A" uniqKey="Forastiere A" first="Arlene A." last="Forastiere">Arlene A. Forastiere</name>
</author>
<author><name sortKey="Koch, Wayne M" sort="Koch, Wayne M" uniqKey="Koch W" first="Wayne M." last="Koch">Wayne M. Koch</name>
</author>
<author><name sortKey="Chung, Christine H" sort="Chung, Christine H" uniqKey="Chung C" first="Christine H." last="Chung">Christine H. Chung</name>
</author>
<author><name sortKey="Karchin, Rachel" sort="Karchin, Rachel" uniqKey="Karchin R" first="Rachel" last="Karchin">Rachel Karchin</name>
</author>
</analytic>
<series><title level="j">Human genetics</title>
<idno type="ISSN">0340-6717</idno>
<idno type="eISSN">1432-1203</idno>
<imprint><date when="2014">2014</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass></textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en"><p id="P1">For <italic>TP53</italic>
-mutated head and neck squamous cell carcinomas (HNSCCs), the codon and specific amino acid sequence change resulting from a patient’s mutation can be prognostic. Thus, developing a framework to predict patient survival for specific mutations in <italic>TP53</italic>
would be valuable. There are many bioinformatics and functional methods for predicting the phenotypic impact of genetic variation, but their overall clinical value remains unclear. Here, we assess the ability of 15 different methods to predict HNSCC patient survival from <italic>TP53</italic>
mutation, using <italic>TP53</italic>
mutation and clinical data from patients enrolled in E4393 by the Eastern Cooperative Oncology Group (ECOG), which investigated whether TP53 mutations in surgical margins were predictive of disease recurrence. These methods include: server-based computational tools SIFT, PolyPhen-2, and Align-GVGD; our in-house POSE and VEST algorithms; the rules devised in Poeta et al. with and without considerations for splice-site mutations; location of mutation in the DNA-bound TP53 protein structure; and a functional assay measuring <italic>WAF1</italic>
transactivation in <italic>TP53</italic>
-mutated yeast. We assessed method performance using overall survival (OS) and progression-free survival (PFS) from 420 HNSCC patients, of whom 224 had <italic>TP53</italic>
mutations. Each mutation was categorized as “disruptive” or “non-disruptive”. For each method, we compared the outcome between the disruptive group vs. the non-disruptive group. The rules devised by Poeta et al. with or without our splice-site modification were observed to be superior to others. While the differences in OS (disruptive vs. non-disruptive) appear to be marginally significant (Poeta rules + splice rules, <italic>P</italic>
= 0.089; Poeta rules, <italic>P</italic>
= 0.053), both algorithms identified the disruptive group as having significantly worse PFS outcome (Poeta rules + splice rules, <italic>P</italic>
= 0.011; Poeta rules, <italic>P</italic>
= 0.027). In general, prognostic performance was low among assessed methods. Further studies are required to develop and validate methods that can predict functional and clinical significance of <italic>TP53</italic>
mutations in HNSCC patients.</p>
</div>
</front>
</TEI>
<affiliations><list></list>
<tree><noCountry><name sortKey="Burtness, Barbara" sort="Burtness, Barbara" uniqKey="Burtness B" first="Barbara" last="Burtness">Barbara Burtness</name>
<name sortKey="Chung, Christine H" sort="Chung, Christine H" uniqKey="Chung C" first="Christine H." last="Chung">Christine H. Chung</name>
<name sortKey="Douville, Christopher" sort="Douville, Christopher" uniqKey="Douville C" first="Christopher" last="Douville">Christopher Douville</name>
<name sortKey="Ferris, Robert L" sort="Ferris, Robert L" uniqKey="Ferris R" first="Robert L." last="Ferris">Robert L. Ferris</name>
<name sortKey="Forastiere, Arlene A" sort="Forastiere, Arlene A" uniqKey="Forastiere A" first="Arlene A." last="Forastiere">Arlene A. Forastiere</name>
<name sortKey="Karchin, Rachel" sort="Karchin, Rachel" uniqKey="Karchin R" first="Rachel" last="Karchin">Rachel Karchin</name>
<name sortKey="Koch, Wayne M" sort="Koch, Wayne M" uniqKey="Koch W" first="Wayne M." last="Koch">Wayne M. Koch</name>
<name sortKey="Li, Shuli" sort="Li, Shuli" uniqKey="Li S" first="Shuli" last="Li">Shuli Li</name>
<name sortKey="Manola, Judith" sort="Manola, Judith" uniqKey="Manola J" first="Judith" last="Manola">Judith Manola</name>
<name sortKey="Masica, David L" sort="Masica, David L" uniqKey="Masica D" first="David L." last="Masica">David L. Masica</name>
</noCountry>
</tree>
</affiliations>
</record>
Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Wicri/Amérique/explor/PittsburghV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 001A25 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 001A25 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien |wiki= Wicri/Amérique |area= PittsburghV1 |flux= Main |étape= Exploration |type= RBID |clé= PMC:4324386 |texte= Predicting survival in head and neck squamous cell carcinoma from TP53 mutation }}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:25108461" \ | HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \ | NlmPubMed2Wicri -a PittsburghV1
This area was generated with Dilib version V0.6.38. |