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.
| Original language | English (US) |
|---|---|
| Journal | Nucleic acids research |
| Volume | 42 |
| Issue number | D1 |
| DOIs | |
| State | Published - Jan 1 2014 |
| Externally published | Yes |
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ASJC Scopus subject areas
- Genetics
Cite this
Plasma Proteome Database as a resource for proteomics research : 2014 update. / 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; Prasad, T. S.Keshava.
In: Nucleic acids research, Vol. 42, No. D1, 01.01.2014.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Plasma Proteome Database as a resource for proteomics research
T2 - 2014 update
AU - Nanjappa, Vishalakshi
AU - Thomas, Joji Kurian
AU - Marimuthu, Arivusudar
AU - Muthusamy, Babylakshmi
AU - Radhakrishnan, Aneesha
AU - Sharma, Rakesh
AU - Ahmad Khan, Aafaque
AU - Balakrishnan, Lavanya
AU - Sahasrabuddhe, Nandini A.
AU - Kumar, Satwant
AU - Jhaveri, Binit Nitinbhai
AU - Sheth, Kaushal Vinaykumar
AU - Kumar Khatana, Ramesh
AU - Shaw, Patrick G.
AU - Srikanth, Srinivas Manda
AU - Mathur, Premendu P.
AU - Shankar, Subramanian
AU - Nagaraja, Dindagur
AU - Christopher, Rita
AU - Mathivanan, Suresh
AU - Raju, Rajesh
AU - Sirdeshmukh, Ravi
AU - Chatterjee, Aditi
AU - Simpson, Richard J.
AU - Harsha, H. C.
AU - Pandey, Akhilesh
AU - Prasad, T. S.Keshava
PY - 2014/1/1
Y1 - 2014/1/1
N2 - 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.
AB - 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.
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U2 - 10.1093/nar/gkt1251
DO - 10.1093/nar/gkt1251
M3 - Article
C2 - 24304897
AN - SCOPUS:84891821345
VL - 42
JO - Nucleic Acids Research
JF - Nucleic Acids Research
SN - 0305-1048
IS - D1
ER -