Find protein identifications in PRIDE
Created: 2012-02-21 23:09:14
Last updated: 2012-02-22 21:00:14
Find protein identifications information in the PRIDE database using a protein accession as input.
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Authors (1)
Titles (1)
Find protein identifications in PRIDE |
Descriptions (1)
Find protein identifications information in the PRIDE database using a protein accession as input. |
Dependencies (0)
Inputs (1)
Name |
Description |
ProteinAccession |
Any protein accession (UniProt, IPI, Ensembl, ...)
|
Processors (2)
Name |
Type |
Description |
pride |
biomart |
|
createTsvSummary |
beanshell |
ScriptString lineSeparator = System.getProperty ( "line.separator" );
String tab = "\t";
String summary = "";
summary += "ProteinAccession" + tab;
summary += "ExperimentAccession" + tab;
summary += "ExperimentTitle" + tab;
summary += "SubmittedProteinAccession" + tab;
summary += "PeptideSequence" + tab;
summary += "ModificationName" + tab;
summary += "ModificationLocation" + tab;
summary += "SpectrumLink" + tab;
summary += "SpecieName" + tab;
summary += "TissueName" + tab;
summary += "CellType" + tab;
summary += lineSeparator;
for (int i = 0; i < ExperimentAccession.size(); i++) {
summary += ProteinAccession + tab;
summary += ExperimentAccession.get(i) + tab;
summary += ExperimentTitle.get(i) + tab;
summary += SubmittedProteinAccession.get(i) + tab;
summary += PeptideSequence.get(i) + tab;
summary += PsiModificationName.get(i) + tab;
summary += ModificationLocation.get(i) + tab;
summary += SpectrumLink.get(i) + tab;
summary += SpecieName.get(i) + tab;
summary += TissueName.get(i) + tab;
summary += Celltype.get(i) + tab;
summary += lineSeparator;
}
|
Beanshells (1)
Name |
Description |
Inputs |
Outputs |
createTsvSummary |
|
PsiModificationName
SpectrumLink
TissueName
ExperimentTitle
SpecieName
ModificationLocation
Celltype
SubmittedProteinAccession
PeptideSequence
ExperimentAccession
ProteinAccession
|
summary
|
Datalinks (13)
Source |
Sink |
ProteinAccession |
pride:pride.xref_accession_filter_filter |
pride:pride.psi_mod_term |
createTsvSummary:PsiModificationName |
pride:pride.brenda |
createTsvSummary:TissueName |
pride:pride.celltype |
createTsvSummary:Celltype |
pride:pride.experiment_ac |
createTsvSummary:ExperimentAccession |
pride:pride.experiment_title |
createTsvSummary:ExperimentTitle |
pride:pride.mod_location |
createTsvSummary:ModificationLocation |
pride:pride.newt_name |
createTsvSummary:SpecieName |
pride:pride.peptide_sequence |
createTsvSummary:PeptideSequence |
pride:pride.peptide_spectrum_ref |
createTsvSummary:SpectrumLink |
pride:pride.submitted_accession |
createTsvSummary:SubmittedProteinAccession |
ProteinAccession |
createTsvSummary:ProteinAccession |
createTsvSummary:summary |
SUMMARY |
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Version 2 (latest)
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