PXD000454

PXD000454 is an original dataset announced via ProteomeXchange.

Title	Drosophila melanogaster iTRAQ HCD dataset
Description	Quantitative comparation of the tagmata of body and head using iTRAQ based on HCD Fragmentation. The 8-plex iTRAQ Multiplex Buffer Kit (AB SCIEX, Foster City, CA) was used to label different peptide fractions, in which iTRAQ reagents dissolved in isopropyl alcohol. Another internal standard of D.melanogaster body and head mixed with 1:1 (B+H) was also used when doing iTRAQ labeling. Therefore the same amount of B (body), H1 (head), H2 (head), B+H (internal standard) peptide fractions prepared as described above were labeled by equal but different iTRAQ reagents and incubated for 5 h at room temperature. The four different labeled peptide fractions (B:113, H1:114, H2:115, B+H:116 ) were then mixed with 1:1 and dried in a speedvac followed by desalting purification using stage tip. All prepared peptides were further analyzed on an LTQ-Orbitrap Velos hybrid mass spectrometer (Thermo Electron, San Jose, CA) coupled with UPLC (nano Acquity Ultra Performance LC, Waters). For HCD raw files, the profile data was firstly centralized by ReAdW.exe in TPP and then deisotoped and deconvoluted using in-house made scripts to improve the identification rate of spectra. All MGF files were searched using Mascot 2.3 against a Drosophila melanogaster database with 24,043 entries (http://flybase.org/, release 5.4, 24,043 entries). The target-decoy based strategy was used to control the peptide false discovery rate (FDR).
HostingRepository	PRIDE
AnnounceDate	2014-07-28
AnnouncementXML	Submission_2014-07-28_00:47:07.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD000454
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Zhang Chengpu
SpeciesList	scientific name: Drosophila melanogaster (Fruit fly); NCBI TaxID: 7227;
ModificationList	monohydroxylated residue; iTRAQ8plex-116 reporter+balance reagent acylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap; instrument model: LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2013-09-09 08:15:05	ID requested
1	2013-11-25 02:20:12	announced
2	2014-03-04 07:26:30	announced	Updated publication reference for PubMed record(s): 24259522.
⏵ 3	2014-07-28 00:47:08	announced	Updated project metadata.

Xing X, Zhang C, Li N, Zhai L, Zhu Y, Yang X, Xu P, Qualitative and quantitative analysis of the adult Drosophila melanogaster proteome. Proteomics, 14(2-3):286-90(2014) [pubmed]

submitter keyword: iTRAQ, HCD

Zhang Chengpu
contact affiliation	Beijing proteome research center
contact email	zhangchengpu0203@163.com
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/2013/11/PXD000454

PRIDE project URI

• PRIDE
  1. PXD000454
     1. Label: PRIDE project
     2. Name: Drosophila melanogaster iTRAQ HCD dataset