PXD004929

PXD004929 is an original dataset announced via ProteomeXchange.

Title	NIH 3T3 AHA p-c, SILAC p-c, inhibitor, and enrichment control experiments
Description	We developed a pulse-chase method in where fully SILAC (heavy, medium-heavy and Light) labelled cells were pulsed with Azidohomoalanine (AHA) and then chased for different length of times. These experiments were performed with 0, 1, 2, 4, 8, 16 and 13 h of chase. Data from 3 biological replicates are provided. Each replicate contains data from 3 experiments (0, 1, 2 and 0, 4, 8 and 0, 16, 32 hours chase) in where the 0 h time point is always heavy labelled followed by the medium and light labelled time points. In addition, AHA p-c experiments were performed using only 0, 4 and 8 h chase times in combination with different inhibitor combinations (MG132, Actinomycin D and Wortmanninin + Bafilomycin A1) or control (DMSO). Also, a control enrichment data set was created. Here heavy SILAC labelled cells were pulsed with AHA before being mixed with light cells that were not pulsed with AHA. This was followed by the click reaction and enrichment of AHA containing proteins. Label-swap experiments were also performed. Finally, a SILAC p-c data set is provided. Here light cells were pulsed with heavy (Arg10, Lys8) amino acids and then split in two. One half of the cells was chased in medium (Arg6, Lys4) amino acids and the other part was directly frozen. Label-swap experiments and experiments using different pulse and chase times were also performed. All provided datasets are from mouse fibroblast cells (NIH 3T3).
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:31:55.688.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Erik McShane
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue; deamidated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2016-09-12 02:15:56	ID requested
1	2016-10-06 05:55:33	announced
2	2016-11-21 04:12:29	announced	Updated publication reference for PubMed record(s): 27720452.
3	2017-10-24 01:47:25	announced	Updated project metadata.
⏵ 4	2024-10-22 04:31:57	announced	2024-10-22: Updated project metadata.

10.1016/j.cell.2016.09.015;

McShane E, Sin C, Zauber H, Wells JN, Donnelly N, Wang X, Hou J, Chen W, Storchova Z, Marsh JA, Valleriani A, Selbach M, Kinetic Analysis of Protein Stability Reveals Age-Dependent Degradation. Cell, 167(3):803-815.e21(2016) [pubmed]

curator keyword: Technical

submitter keyword: azidohomoalanine,Mouse, SILAC, degradation, aneuploidy

Matthias Selbach
contact affiliation	Max Delbrueck Centrum, Berlin Charité, Berlin
contact email	matthias.selbach@mdc-berlin.de
lab head
Erik McShane
contact affiliation	Max-Delbrück-Centrum für Molekulare Medizin (MDC)
contact email	erik.mcshane@mdc-berlin.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/2016/10/PXD004929

PRIDE project URI

• PRIDE
  1. PXD004929
     1. Label: PRIDE project
     2. Name: NIH 3T3 AHA p-c, SILAC p-c, inhibitor, and enrichment control experiments