PXD009510

PXD009510 is an original dataset announced via ProteomeXchange.

Title	Hit-Gel: Streamlining in-gel protein digestion for high-throughput proteomics experiments.
Description	Traditional in gel-digestion procedures require extensive sample handling, are prone to contamination and not compatible with high-throughput sample preparation. To address these shortcomings, we have modified the conventional in-gel digestion procedure for high-throughput proteomics studies. The modified method, termed “High Throughput in Gel digestion” (HiT-Gel), is based on a 96-well plate format which results in a drastic reduction in labour intensity and sample handling. Direct comparison revealed that HiT-Gel reduces technical variation and significantly decreases sample contamination over the conventional in-gel digestion method. HiT-Gel also produced superior results when a single protein band was excised from a gel and processed by in-gel digestion. Moreover, we applied Hit-Gel for a mass spectrometry analysis of Arabidopsis thaliana protein complexes separated by native PAGE in 24 fractions and four biological replicates. We show that the high throughput capacity of HiT-Gel facilitates large scale studies with high sample replication or detailed fractionation. Our method can easily be implemented as it does not require specialised laboratory equipment.
HostingRepository	PRIDE
AnnounceDate	2018-10-16
AnnouncementXML	Submission_2018-10-16_02:45:55.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD009510
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Michal Gorka
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	Oxidation; Carbamidomethyl
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-04-16 02:28:06	ID requested
⏵ 1	2018-10-16 02:45:56	announced

Swart C, Mart, í, nez-Jaime S, Gorka M, Zander K, Graf A, Hit-Gel: Streamlining in-gel protein digestion for high-throughput proteomics experiments. Sci Rep, 8(1):8582(2018) [pubmed]

curator keyword: Technical, Biological

submitter keyword: Proteomics, LC-MS/MS, in-gel digestion, fractionation,native protein complex, high-throughput, large-scale, sample preparation, tryptic digest

Dr. Alexander Graf
contact affiliation	AG Alexander Graf Max-Planck-Institut für Molekulare Pflanzenphysiologie Wissenschaftspark Potsdam-Golm Am Mühlenberg 1 14476 Potsdam, Germany
contact email	Graf@mpimp-golm.mpg.de
lab head
Michal Gorka
contact affiliation	Max Planck Institute for Molecular Plant Physiology
contact email	gorka@mpimp-golm.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/2018/10/PXD009510

PRIDE project URI

• PRIDE
  1. PXD009510
     1. Label: PRIDE project
     2. Name: Hit-Gel: Streamlining in-gel protein digestion for high-throughput proteomics experiments.