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Peptide Atlas Downloader

KNIME Repository Access Nodes (Preview) version 1.0.0.qualifier by Center for Integrative BioInformatics

PeptideAtlas is a multi-organism, publicly accessible compendium of peptides identified in a large set of tandem mass spectrometry proteomics experiments. Mass spectrometer output files are collected for human, mouse, yeast, and several other organisms, and searched using the latest search engines and protein sequences. All results of sequence and spectral library searching are subsequently processed through the Trans Proteomic Pipeline to derive a probability of correct identification for all results in a uniform manner to insure a high quality database, along with false discovery rates at the whole atlas level. Results may be queried and browsed at the PeptideAtlas web site. This nodes provides querying capabilities similar to the repository browser on the project's website and finds files associated with a project on the repository ftp server.


Search type
The data field to apply the query to
The query to search for projects
List of projects
The projects that match the given query (30 per page)
Which page of the results to show
List of files
The files associated with a selected project

Output Ports

URIs of the downloaded files in a temporary folder

Best Friends (Outgoing)


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A zipped version of the software site can be downloaded here.

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