Name: Re-analysis of: ‘CSF proteome mapping: Human cerebrospinal fluid LC-MS/MS, Part 2’ (PXD000652) to demonstrate the ProteoAnnotator software for mapping identifications to Ensembl genomes
Keywords: Proteoannotator

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Re-analysis of: ‘CSF proteome mapping: Human cerebrospinal fluid LC-MS/MS, Part 2’ (PXD000652) to demonstrate the ProteoAnnotator software for mapping identifications to Ensembl genomes

ABSTRACT: We have performed a re-analysis of PXD000652 - a human proteome CSF fluid sample, originally queried versus UniProt. We have used our ProteoAnnotator package to re-search the data against Ensembl Human build 76 to demonstrate the capability of the pipeline to perform genome mapping on a large scale.

INSTRUMENT(S): LTQ Orbitrap

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Fawaz Ghali

LAB HEAD: Andy Jones

PROVIDER: PXD001390 | Pride | 2014-10-20

REPOSITORIES: Pride

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ProteoAnnotator--open source proteogenomics annotation software supporting PSI standards.

Ghali Fawaz F Krishna Ritesh R Perkins Simon S Collins Andrew A Xia Dong D Wastling Jonathan J Jones Andrew R AR

Proteomics 20141119 23-24

The recent massive increase in capability for sequencing genomes is producing enormous advances in our understanding of biological systems. However, there is a bottleneck in genome annotation--determining the structure of all transcribed genes. Experimental data from MS studies can play a major role in confirming and correcting gene structure--proteogenomics. However, there are some technical and practical challenges to overcome, since proteogenomics requires pipelines comprising a complex set o ...[more]

PMID: 25297486

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