Source:http://linkedlifedata.com/resource/pubmed/id/16643283
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| Predicate | Object |
|---|---|
| rdf:type | |
| lifeskim:mentions | |
| pubmed:issue |
5
|
| pubmed:dateCreated |
2006-4-28
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| pubmed:abstractText |
Application of a computational membrane organization prediction pipeline, MemO, identified putative type II membrane proteins as proteins predicted to encode a single alpha-helical transmembrane domain (TMD) and no signal peptides. MemO was applied to RIKEN's mouse isoform protein set to identify 1436 non-overlapping genomic regions or transcriptional units (TUs), which encode exclusively type II membrane proteins. Proteins with overlapping predicted InterPro and TMDs were reviewed to discard false positive predictions resulting in a dataset comprised of 1831 transcripts in 1408 TUs. This dataset was used to develop a systematic protocol to document subcellular localization of type II membrane proteins. This approach combines mining of published literature to identify subcellular localization data and a high-throughput, polymerase chain reaction (PCR)-based approach to experimentally characterize subcellular localization. These approaches have provided localization data for 244 and 169 proteins. Type II membrane proteins are localized to all major organelle compartments; however, some biases were observed towards the early secretory pathway and punctate structures. Collectively, this study reports the subcellular localization of 26% of the defined dataset. All reported localization data are presented in the LOCATE database (http://www.locate.imb.uq.edu.au).
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| pubmed:grant | |
| pubmed:language |
eng
|
| pubmed:journal | |
| pubmed:citationSubset |
IM
|
| pubmed:chemical | |
| pubmed:status |
MEDLINE
|
| pubmed:month |
May
|
| pubmed:issn |
1398-9219
|
| pubmed:author |
pubmed-author:AturaliyaRajith NRN,
pubmed-author:CarninciPieroP,
pubmed-author:DavisMelissa JMJ,
pubmed-author:FinkJ LynnJL,
pubmed-author:ForrestAlistair R RAR,
pubmed-author:GrimmondSean MSM,
pubmed-author:HansonKelly AKA,
pubmed-author:HayashizakiYoshihideY,
pubmed-author:KaiChikatoshiC,
pubmed-author:KanamoriMutsumiM,
pubmed-author:KawaiJunJ,
pubmed-author:MirandaKevin CKC,
pubmed-author:SuzukiHarukazuH,
pubmed-author:TeasdaleMelvena SMS,
pubmed-author:TeasdaleRohan DRD
|
| pubmed:issnType |
Print
|
| pubmed:volume |
7
|
| pubmed:owner |
NLM
|
| pubmed:authorsComplete |
Y
|
| pubmed:pagination |
613-25
|
| pubmed:dateRevised |
2007-12-3
|
| pubmed:meshHeading | |
| pubmed:year |
2006
|
| pubmed:articleTitle |
Subcellular localization of mammalian type II membrane proteins.
|
| pubmed:affiliation |
Institute for Molecular Bioscience and ARC Centre in Bioinformatics, University of Queensland, St. Lucia, Queensland 4072, Australia.
|
| pubmed:publicationType |
Journal Article,
Research Support, Non-U.S. Gov't,
Research Support, N.I.H., Extramural
|