PXD004622-1

PXD004622 is an original dataset announced via ProteomeXchange.

Title	Human Fibroblast cell_Tig120slc-P8
Description	Proteome analyses of human induced pluripotent stem cells (iPSC) were carried out on a liquid chromatography−tandem mass spectrometry system sing meter-scale monolithic silica-C18 capillary columns without prefractionation. Tryptic peptides from five different iPSC lysates and three different fibroblast lysates (4 μg each) were directly injected onto a 200 cm long, 100 μm .d. monolithic silica-C18 column and an 8-h gradient was applied at 500 nL/min t less than 20 MPa. We identified 98 977 nonredundant tryptic peptides from 9510 proteins (corresponding to 8712 genes), including low-abundance protein groups (such as 329 protein kinases) from triplicate measurements within 10 days. The obtained proteome profiles of the eight cell lysates were categorized into two groups, iPSC and fibroblast, by hierarchical cluster analysis. Further quantitative analysis based on an exponentially modified protein abundance index approach combined with UniProt keyword enrichment analysis revealed that the iPSC group contains more“transcription regulation”-related proteins, while the fibroblast group contained more “transport”-related proteins. Our results indicate that this simplified one-shot proteomics pproach with long monolithic columns is advantageous for rapid, deep, sensitive, and reproducible proteome analysis.
HostingRepository	jPOST
AnnounceDate	2016-07-21
AnnouncementXML	Submission_2016-07-20_20:48:26.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Michio Funahashi
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue; (2S,3R)-3-hydroxyaspartic acid
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2016-07-20 19:49:27	ID requested
⏵ 1	2016-07-20 20:48:27	announced
2	2016-11-17 18:11:18	announced	Updated description.
3	2017-03-30 23:31:54	announced	Updated Repository support.
4	2017-03-31 00:05:44	announced	Updated DigitalObjectIdentifier.
5	2018-09-18 22:41:57	announced	Updated CV, FTP location and Modification list.
6	2021-02-04 17:27:27	announced	2021-02-04: Updated FTP location.
7	2022-09-18 03:36:29	announced	2022-09-18: Updated FTP location.

submitter keyword: shotgun proteomics, monolithic silica column, iPS cell, one-shot proteomics

Yasushi Ishihama
lab head
Michio Funahashi
contact affiliation	Kyoto university
dataset submitter

jPOST dataset URI