PXD000240

PXD000240 is an original dataset announced via ProteomeXchange.

Title	Host-centric proteomics of stool
Description	Soluble extra-cellular proteins and peptides from human and mouse stool were fractionated on a C-4 solid phase extraction cartidge, trypsin digested, C-18 clean up and identified with MS/MS on a LTQ-Velos Orbitrap. Data processing: The readRAW program was used to generate peak lists from the original data. All protein sequences were reversed and concatenated to the original forward-oriented proteins. Spectra were assigned to peptides using a semi-specific enzyme specificity with the Mascot search algorithm (version 2.3.01) using static carbamidomethylation of cysteines, differential oxidized methionines, 50ppm precursor mass tolerance, 2 miscleavages and 0.8Da fragment ion tolerance. Searched against a mouse or human database.
HostingRepository	PRIDE
AnnounceDate	2014-08-08
AnnouncementXML	Submission_2014-08-08_00:30:53.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joshua Lichtman
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2013-05-04 15:39:17	ID requested
1	2013-10-16 04:51:40	announced
1	2013-10-16 05:31:19	announced
2	2014-07-25 01:08:26	announced	Updated project metadata.
⏵ 3	2014-08-08 00:30:54	announced	Updated project metadata.

Lichtman JS, Marcobal A, Sonnenburg JL, Elias JE, Host-centric proteomics of stool: a novel strategy focused on intestinal responses to the gut microbiota. Mol Cell Proteomics, 12(11):3310-8(2013) [pubmed]

curator keyword: Biomedical, Biological

submitter keyword: host response, gut microbiome, MS/MS, proteomics, mass spectrometry

Joshua Lichtman
contact affiliation	Stanford University, School of Medicine
contact email	jlichtma@stanford.edu
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2013/10/PXD000240

PRIDE project URI

• PRIDE
  1. PXD000240
     1. Label: PRIDE project
     2. Name: Host-centric proteomics of stool