PeptideAtlas
PeptideAtlas Home
 Seattle Proteome
 Center

  
PeptideAtlas:
  Overview
  Contacts
  Data Contributors
  Publications
  Software
  Database Schema
  Feedback
  FAQ

Atlas Data:
  Data Repository
  Human Plasma
(Farrah, et al.)

  HPPP Data Central
  PeptideAtlas Builds
  Search Database
  

  Contribute Data
  Genome Browser
Setup


Related:
  SRMAtlas
  PASSEL
  Phosphopep
  Unipep
  mspecLINE

Spectral Libs:
  Libraries + Info
  SpectraST Search


Glossary/Terms:
  Atlas nomenclature
  SGD nomenclature
  Protein ID terms

  
  LOGIN

PeptideAtlas and the Chromosome-Centric Human Proteome Project


As part of the HUPO Human Proteome Project (HPP), the Plasma Proteome Project (PPP) aims to provide a summary of ensembl of high quality mass spectrometry evidence for protein detections in human blood plasma. Below is the summary of such proteins by chromosome and by protein evidence (PE) level, as cataloged by neXtProt.

Blood Plasma PeptideAtlas vs C-HPP Summary Table

PeptideAtlas Builds :
ChromosomeneXtProt entriesCanonical%Uncertain %Redundant%Not Observed%
1205640619.7%1477.1%21010.2%129362.9%
2127024919.6%846.6%13310.5%80463.3%
3107321920.4%686.3%878.1%69965.1%
476111715.4%618.0%10213.4%48163.2%
587215417.7%606.9%819.3%57766.2%
6110817015.3%998.9%16114.5%67861.2%
793515416.5%727.7%9410.1%61565.8%
870111416.3%375.3%649.1%48669.3%
980813917.2%415.1%678.3%56169.4%
1075112516.6%516.8%699.2%50667.4%
11132222416.9%755.7%1118.4%91269.0%
12103018718.2%807.8%959.2%66864.9%
133285015.2%154.6%4012.2%22368.0%
1467315923.6%304.5%608.9%42463.0%
156009616.0%305.0%6210.3%41268.7%
1683612515.0%607.2%8910.6%56267.2%
17116620917.9%968.2%12510.7%73663.1%
182765218.8%207.2%248.7%18065.2%
19142822715.9%996.9%1379.6%96567.6%
205499116.6%488.7%478.6%36366.1%
212523815.1%197.5%197.5%17669.8%
2249511823.8%306.1%5310.7%29459.4%
X83010312.4%445.3%526.3%63176.0%
Y4800.0%36.2%36.2%4287.5%
MT1516.7%16.7%00.0%1386.7%
?500.0%00.0%00.0%5100.0%

PEneXtProt entriesCanonical%Uncertain %Redundant%Not Observed%
117045350920.6%13377.8%170010.0%1049961.6%
2191210.1%120.6%1698.8%173090.5%
3555101.8%112.0%6311.4%47184.9%
49600.0%00.0%22.1%9497.9%
557110.2%81.4%518.9%51189.5%
1-419608352018.0%13606.9%19349.9%1279465.2%
Total20179352117.4%13686.8%19859.8%1330565.9%

    Column description:
  1. nextProt entries: Number of entries in the quoted release of neXtProt for each chromosome
  2. Canonical - Proteins seen with 2 distinct, uniquely mapping peptides
  3. Uncertain - Proteins with some evidence that is not sufficient for canonical status
  4. Redundant - Protein that have peptides that map to them, but not uniquely and thus not needed to explain the observed peptides
  5. Not Observed - No detections at all in PeptideAtlas above our very stringent threshold
© 2004-2015, Institute for Systems Biology. All Rights Reserved
Project funding: