Plasma Proteome Database as a resource for proteomics research: 2014 update.
Document Type
Article
Abstract
Plasma Proteome Database (PPD; http://www.plasmaproteomedatabase.org/) was initially described in the year 2005 as a part of Human Proteome Organization's (HUPO's) pilot initiative on Human Plasma Proteome Project. Since then, improvements in proteomic technologies and increased throughput have led to identification of a large number of novel plasma proteins. To keep up with this increase in data, we have significantly enriched the proteomic information in PPD. This database currently contains information on 10,546 proteins detected in serum/plasma of which 3784 have been reported in two or more studies. The latest version of the database also incorporates mass spectrometry-derived data including experimentally verified proteotypic peptides used for multiple reaction monitoring assays. Other novel features include published plasma/serum concentrations for 1278 proteins along with a separate category of plasma-derived extracellular vesicle proteins. As plasma proteins have become a major thrust in the field of biomarkers, we have enabled a batch-based query designated Plasma Proteome Explorer, which will permit the users in screening a list of proteins or peptides against known plasma proteins to assess novelty of their data set. We believe that PPD will facilitate both clinical and basic research by serving as a comprehensive reference of plasma proteins in humans and accelerate biomarker discovery and translation efforts.
Keywords
Blood Proteins, Databases, Protein, Humans, Internet, Proteome, Proteomics, Secretory Vesicles
Medical Subject Headings
Blood Proteins; Databases, Protein; Humans; Internet; Proteome; Proteomics; Secretory Vesicles
Publication Date
1-1-2014
Publication Title
Nucleic acids research
ISSN
1362-4962
Volume
42
Issue
Database issue
First Page
959
Last Page
965
PubMed ID
24304897
Digital Object Identifier (DOI)
10.1093/nar/gkt1251
Recommended Citation
Nanjappa, Vishalakshi; Thomas, Joji Kurian; Marimuthu, Arivusudar; Muthusamy, Babylakshmi; Radhakrishnan, Aneesha; Sharma, Rakesh; Ahmad Khan, Aafaque; Balakrishnan, Lavanya; Sahasrabuddhe, Nandini A; Kumar, Satwant; Jhaveri, Binit Nitinbhai; Sheth, Kaushal Vinaykumar; Kumar Khatana, Ramesh; Shaw, Patrick G; Srikanth, Srinivas Manda; Mathur, Premendu P; Shankar, Subramanian; Nagaraja, Dindagur; Christopher, Rita; Mathivanan, Suresh; Raju, Rajesh; Sirdeshmukh, Ravi; Chatterjee, Aditi; Simpson, Richard J; Harsha, H C; Pandey, Akhilesh; and Prasad, T S Keshava, "Plasma Proteome Database as a resource for proteomics research: 2014 update." (2014). Translational Neuroscience. 2445.
https://scholar.barrowneuro.org/neurobiology/2445