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#Pandey Lab, Johns Hopkins University (Human Proteinpedia). | #Pandey Lab, Johns Hopkins University (Human Proteinpedia). | ||
- | ==Clinical | + | ==Clinical tissues== |
- | The following links are to Excel spreadsheets that contain the | + | The following links are to Excel spreadsheets that contain the proteomes for the corresponding normal tissue. |
#[[Media:Blood_plasma.xls|BTO:0000131]], Blood plasma | #[[Media:Blood_plasma.xls|BTO:0000131]], Blood plasma | ||
#[[Media:Blood_platelet_p.xls|BTO:0000132]], Blood platelets | #[[Media:Blood_platelet_p.xls|BTO:0000132]], Blood platelets | ||
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#[[Media:Urine_p.xls|BTO:0001419]], Urine | #[[Media:Urine_p.xls|BTO:0001419]], Urine | ||
- | The following spreadsheets contain the | + | The following spreadsheets contain the same proteomes, with the plasma proteome removed. |
#[[Media:Blood_platelet.xls|BTO:0000132]], Blood platelets | #[[Media:Blood_platelet.xls|BTO:0000132]], Blood platelets | ||
#[[Media:Blood_serum.xls|BTO:0000133]], Blood serum | #[[Media:Blood_serum.xls|BTO:0000133]], Blood serum |
The Normal Clinical Tissue Alliance was created to provide clinical proteomics information about normal human tissues. It was initially conceived as a collaboration between the UCSF Medical School, Lawrence Berkeley Laboratories, the Buck Institute for Aging and the University of British Columbia as part of the Clinical Proteomic Technology Assessment for Cancer program.
Contents |
The NCTA was created to develop and maintain list of proteins that can be detected by current, mass spectrometry-based proteomics experiments, on a tissue-by-tissue basis. These lists are meant to be practical guides to what proteins are commonly observed, rather than exhaustive catalogues of every protein that has ever been attributed to a particular tissue.
These protein lists (proteomes) will be generated directly from mass spectra and the curated to generate the lists given below. The selection of which tissues will be annotated is dependent on the public availability of data and tissue provenance of the data. Lists of proteins in literature publications will be considered in the curation process, but they will be considered as secondary sources if the raw mass spectrometry data they are based on has not been made publicly available.
The BRENDA tissue ontology will be used to identify tissues, with the CELL ontology being used when BRENDA does not contain an entry for a particular type of cell that may be considered a tissue for practical purposes, such as erythrocytes.
The following laboratories have contributed the raw data that was used to generate the current release. This contribution has either been through direct submission of data through the GPM interface, posting data to public repository sites such as Tranche, PeptideAtlas or Human Proteinpedia, or through collaboration with Alliance members.
The following links are to Excel spreadsheets that contain the proteomes for the corresponding normal tissue.
The following spreadsheets contain the same proteomes, with the plasma proteome removed.