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Dataset Identifier

Metadata
datasetIdentifierPASS00512
datasetTypeMSMS
submitterMichael Hoopmann <Michael.Hoopmann@systemsbiology.org>
submitter_organizationInstitute for Systems Biology
lab_head_full_nameRobert Moritz
lab_head_emailrobert.moritz@systemsbiology.org
lab_head_organizationInstitute for Systems Biology
lab_head_countryUnited States
datasetTagSludge041010
datasetTitleSludge from a sewage treatment facility in Luxembourg, collected on 04 Oct 2010. Samples were separated on a gel, cut into fractions, then digested to peptides.
publicReleaseDate2015-06-17 00:00:00
finalizedDate2015-06-17 11:14:35
summarySludge from a sewage treatment facility in Luxembourg, collected on 04 Oct 2010. Samples were separated on a gel, cut into fractions, then digested to peptides. Data were searched using a bacterial metaproteome representing the mixed species of bacteria observed at that time point in the dynamic population. A comparative analysis was performed using sludge collected on 25 Jan 2011 from the same site. The comparative search results for the 25 Jan 2011 dataset are found here. Raw mass spectra for 25 Jan 2011 sludge are found in PASS00359.
contributorsHugo Roume, Anna Heintz-Buschart, Emilie EL Muller, Patrick May, Venkata Satagopam, Cédric Laczny, Shaman Narayanasamy, ‪Laura A. Lebruna, Michael R. Hoopmann, James M Schupp, Thomas Sauter, Paul S Keim, Robert L. Moritz, Paul Wilmes
publicationRoume H, Heintz-Buschart A, Muller EEL, May P, Satagopam VP, Laczny CC, et al. Comparative integrated omics: identification of key functionalities in microbial community-wide metabolic networks. Npj Biofilms And Microbiomes. 2015;1. doi: 10.1038/npjbiofilms.2015.7 http://www.nature.com/articles/npjbiofilms20157
growth
treatment
extraction
separationSeparated by SDS-PAGE and cut into 1 mm bands
digestionIn-gel tryptic digest
acquisition96 fractions were pooled in pairs (48 total samples) and analyzed by 1 hr LC/MS using shotgun analysis and HCD fragmentation.
informaticsConverted to mzXML and analyzed using TPP (X!Tandem, Peptide Prophet, Protein Prophet, iProphet).
instrumentsThermo Scientific Orbitrap Elite
speciesMulti-species bacterial sludge
massModificationsC+57.021464
M+15.994915

Official URL for this dataset: http://www.peptideatlas.org/PASS/PASS00512
To access files via FTP, use credentials:
Servername: ftp.peptideatlas.org
Username: PASS00512
Password: PW7523zmg

Or use your browser's FTP mode: ftp://PASS00512:PW7523zmg@ftp.peptideatlas.org/


Listing of files:

 1.3G Jun  6  2014 2013_01_18_contig.final.clustered.TARGETandDECOY.fasta
 1.9K Jun 17  2015 PASS00512_DESCRIPTION.txt
 1.4K Jun  6  2014 Sludge-HCD.xml
 410M Jun  6  2014 Sludge041010-Plate1-10AB.raw
 425M Jun  6  2014 Sludge041010-Plate1-10CD.raw
 435M Jun  6  2014 Sludge041010-Plate1-10EF.raw
 423M Jun  6  2014 Sludge041010-Plate1-10GH.raw
 464M Jun  6  2014 Sludge041010-Plate1-11AB.raw
 439M Jun  6  2014 Sludge041010-Plate1-11CD.raw
 491M Jun  6  2014 Sludge041010-Plate1-11EF.raw
 487M Jun  6  2014 Sludge041010-Plate1-11GH.raw
 468M Jun  6  2014 Sludge041010-Plate1-12AB.raw
 479M Jun  6  2014 Sludge041010-Plate1-12CD.raw
 493M Jun  6  2014 Sludge041010-Plate1-12EF.raw
 466M Jun  6  2014 Sludge041010-Plate1-12GH.raw
 368M Jun  6  2014 Sludge041010-Plate1-1AB.raw
 353M Jun  6  2014 Sludge041010-Plate1-1CD.raw
 361M Jun  6  2014 Sludge041010-Plate1-1EF.raw
 372M Jun  6  2014 Sludge041010-Plate1-1GH.raw
 391M Jun  6  2014 Sludge041010-Plate1-2AB.raw
 418M Jun  6  2014 Sludge041010-Plate1-2CD.raw
 379M Jun  6  2014 Sludge041010-Plate1-2EF.raw
 383M Jun  6  2014 Sludge041010-Plate1-2GH.raw
 398M Jun  6  2014 Sludge041010-Plate1-3AB.raw
 416M Jun  6  2014 Sludge041010-Plate1-3CD.raw
 366M Jun  6  2014 Sludge041010-Plate1-3EF.raw
 389M Jun  6  2014 Sludge041010-Plate1-3GH.raw
 426M Jun  6  2014 Sludge041010-Plate1-4AB.raw
 377M Jun  6  2014 Sludge041010-Plate1-4CD.raw
 385M Jun  6  2014 Sludge041010-Plate1-4EF.raw
 374M Jun  6  2014 Sludge041010-Plate1-4GH.raw
 362M Jun  6  2014 Sludge041010-Plate1-5AB.raw
 374M Jun  6  2014 Sludge041010-Plate1-5CD.raw
 395M Jun  6  2014 Sludge041010-Plate1-5EF.raw
 380M Jun  6  2014 Sludge041010-Plate1-5GH.raw
 383M Jun  6  2014 Sludge041010-Plate1-6AB.raw
 386M Jun  6  2014 Sludge041010-Plate1-6CD.raw
 423M Jun  6  2014 Sludge041010-Plate1-6EF.raw
 397M Jun  6  2014 Sludge041010-Plate1-6GH.raw
 421M Jun  6  2014 Sludge041010-Plate1-7AB.raw
 388M Jun  6  2014 Sludge041010-Plate1-7CD.raw
 379M Jun  6  2014 Sludge041010-Plate1-7EF.raw
 445M Jun  6  2014 Sludge041010-Plate1-7GH.raw
 407M Jun  6  2014 Sludge041010-Plate1-8AB.raw
 404M Jun  6  2014 Sludge041010-Plate1-8CD.raw
 399M Jun  6  2014 Sludge041010-Plate1-8EF.raw
 431M Jun  6  2014 Sludge041010-Plate1-8GH.raw
 383M Jun  6  2014 Sludge041010-Plate1-9AB.raw
 382M Jun  6  2014 Sludge041010-Plate1-9CD.raw
 409M Jun  6  2014 Sludge041010-Plate1-9EF.raw
 436M Jun  6  2014 Sludge041010-Plate1-9GH.raw
 1.9G Jun  6  2014 autumn-iproph.pep.xml
1006M Jun  6  2014 autumn-iproph.prot.xml
  10K Jun  6  2014 tandem_native_HCD.xml
  355 Jun  6  2014 taxonomy.xml
 794M Jun  6  2014 winter-iproph.pep.xml
 172M Jun  6  2014 winter-iproph.prot.xml

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