Large-Scale Discovery and Characterization of Protein Regulatory Motifs in Eukaryotes

Lieber, Daniel S.; Elemento, Olivier; Tavazoie, Saeed

doi:10.1371/journal.pone.0014444

i

Large-Scale Discovery and Characterization of Protein Regulatory Motifs in Eukaryotes

Supporting Files

Dec 29 2010
By Lieber, Daniel S. ; Elemento, Olivier ; Tavazoie, Saeed

File Language:

English

Details

Alternative Title:

PLoS One
Personal Author:

Lieber, Daniel S. ; Elemento, Olivier ; Tavazoie, Saeed
Description:

The increasing ability to generate large-scale, quantitative proteomic data has brought with it the challenge of analyzing such data to discover the sequence elements that underlie systems-level protein behavior. Here we show that short, linear protein motifs can be efficiently recovered from proteome-scale datasets such as sub-cellular localization, molecular function, half-life, and protein abundance data using an information theoretic approach. Using this approach, we have identified many known protein motifs, such as phosphorylation sites and localization signals, and discovered a large number of candidate elements. We estimate that ~80% of these are novel predictions in that they do not match a known motif in both sequence and biological context, suggesting that post-translational regulation of protein behavior is still largely unexplored. These predicted motifs, many of which display preferential association with specific biological pathways and non-random positioning in the linear protein sequence, provide focused hypotheses for experimental validation.
Subjects:

Algorithms Amino Acid Motifs Computational Biology Databases, Protein Eukaryota Humans Mitochondria Phosphorylation Protein Processing, Post-Translational Proteins Protein Structure, Tertiary Proteome Proteomics Saccharomyces Cerevisiae Schizosaccharomyces
Source:

PLoS One. 5(12).
Pubmed ID:

21206902
Pubmed Central ID:

PMC3012054
Document Type:

Journal Article
Funding:

1DP10D003787-01/DP/NCCDPHP CDC HHS/United States ; 2R01HG003219/HG/NHGRI NIH HHS/United States ; P50 GM071508/GM/NIGMS NIH HHS/United States ; R01 HG003219/HG/NHGRI NIH HHS/United States
Volume:

5
Issue:

12
Collection(s):

CDC Public Access
Main Document Checksum:

urn:sha256:eed9872afa47e76a832c44f4629f3b319e72d140c9fa32566e176602b79a5d69
Download URL:

https://stacks.cdc.gov/view/cdc/22850/cdc_22850_DS1.pdf
File Type:

[PDF - 856.95 KB ]

File Language:

English

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