PXD003733

PXD003733 is an original dataset announced via ProteomeXchange.

Title	Quantitative evaluation of FASP and MED FASP protocols
Description	In this work we re-evaluate FASP and the related Multienzyme digestion (MED)-FASP method. We use different types of animal tissue and cultured cells, and test the performance of the method under various conditions. We analyze the protein-to-peptide conversion by assessing the yield of peptides, frequency of peptides with missed cleavage sites, and the reproducibility of FASP. We identify conditions allowing efficient protein processing with high peptide yields and demonstrate advantages of the two step digestion strategy over single step digestion with trypsin. In addition we show that FASP outperforms in solution cleavage strategies. Our results clearly show that the performance of the digestion varies between different types of samples. We show that MED-FASP in combination of the Total Protein Approach provide highly reproducible protein abundance values. The presented data can be used as guide for optimization of the sample processing
HostingRepository	PRIDE
AnnounceDate	2016-04-28
AnnouncementXML	Submission_2016-04-28_01:00:04.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jacek Wisniewski
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2016-03-02 23:29:16	ID requested
⏵ 1	2016-04-28 01:00:06	announced

Wi, ś, niewski JR, Quantitative Evaluation of Filter Aided Sample Preparation (FASP) and Multienzyme Digestion FASP Protocols. Anal Chem, 88(10):5438-43(2016) [pubmed]

curator keyword: Technical

submitter keyword: FASP

MED FASP

missing cleavages

reproducibility

Jacek R Wisniewski
contact affiliation	Biochemical Proteomics Group Dept. Proteomics and Signal Transduction Max-Planck Institute of Biochemistry Am Klopferspitz 18 82152-Martinsried, Germany
contact email	jwisniew@biochem.mpg.de
lab head
Jacek Wisniewski
contact affiliation	Proteomics
contact email	jwisniew@biochem.mpg.de
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/2016/04/PXD003733

PRIDE project URI

• PRIDE
  1. PXD003733
     1. Label: PRIDE project
     2. Name: Quantitative evaluation of FASP and MED FASP protocols