PXD004620-1
PXD004620 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Human Fibroblast cell_aHDF1388-P9 |
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_20:48:10.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 |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2016-07-20 19:48:23 | ID requested | |
⏵ 1 | 2016-07-20 20:48:11 | announced | |
2 | 2016-11-17 18:09:55 | announced | Updated description. |
3 | 2017-03-30 23:30:44 | announced | Updated Repository support. |
4 | 2017-03-31 00:03:39 | announced | Updated DigitalObjectIdentifier. |
5 | 2018-09-18 22:39:59 | announced | Updated CV, FTP location and Modification list. |
6 | 2021-02-04 17:21:38 | announced | 2021-02-04: Updated FTP location. |
7 | 2022-09-18 03:47:20 | announced | 2022-09-18: Updated FTP location. |
Keyword List
submitter keyword: shotgun proteomics, monolithic silica column, iPS cell, one-shot proteomics |
Contact List
Yasushi Ishihama | |
---|---|
lab head | |
Michio Funahashi | |
contact affiliation | Kyoto university |
dataset submitter |
Full Dataset Link List
jPOST dataset URI |