PXD035202

PXD035202 is an original dataset announced via ProteomeXchange.

Title	Proteome profiling of HaCaT keratinocytes
Description	An important step in the proteomic analysis is the optimal extraction and the processing of protein material in order to ensure the highest sensitivity in downstream protein detection. Cell lysis is important for proteomic profiling with an eventual aim to discover differently expressed proteins (DEPs). Herein for cell lysis, two sample preparation protocols were compared: 0.2% SDS-based solubilization combined with the 1DE-gel concentration (Protocol 1) and osmotic shock (Protocol 2). HaCaT keratinocytes were cultured with/without sodium dodecyl sulfate (SDS) and used to test the hypothesis that SDS might be associated with the initiation and development of malignancies. Protocol 1 increased sensitivity and coverage of HaCaT proteome, it permitted us to reveal the provided new insights into the skin impact of SDS (widely used and rather non-toxic component of household chemicals, cosmetic products, shampoos and so on). Our results suggest the possible role of SDS in skin cancerogenesis.
HostingRepository	PRIDE
AnnounceDate	2022-07-20
AnnouncementXML	Submission_2022-07-20_05:41:01.844.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Timur Shkrigunov
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-07-09 09:06:33	ID requested
⏵ 1	2022-07-20 05:41:02	announced

Shkrigunov T, Pogodin P, Zgoda V, Larina O, Kisrieva Y, Klimenko M, Latyshkevich O, Klimenko P, Lisitsa A, Petushkova N, Protocol for Increasing the Sensitivity of MS-Based Protein Detection in Human Chorionic Villi. Curr Issues Mol Biol, 44(5):2069-2088(2022) [pubmed]

ProteomeXchange project tag: Human Proteome Project

submitter keyword: HaCaT keratinocytes

sodium dodecyl sulfate

1DE-gel concentration

osmotic shock, LC-MS/MS

SearchGUI

double-strand break repair via break-induced replication pathway

MCM family

Natalia Petushkova
contact affiliation	Laboratory of Microsomal Oxidation, Institute of Biomedical Chemistry, Moscow 119121, Russia
contact email	cyp450@mail.ru
lab head
Timur Shkrigunov
contact affiliation	Institute of Biomedical Chemistry, Moscow, Russia
contact email	shkrigunov05@mail.ru
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/2022/07/PXD035202

PRIDE project URI

• PRIDE
  1. PXD035202
     1. Label: PRIDE project
     2. Name: Proteome profiling of HaCaT keratinocytes