PXD048118-2

PXD048118 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	In vitro reconstitution of epigenetic reprogramming in the human germ line
Description	M1-BTAG iPSCs or TET1-KO iPSCs were analyzed by 8% SDS-PAGE, followed by trypsin digestion and LC/MS/MS with an Orbitrap Fusion Lumos linked with an Ultimate 3000 pump and HTC-PAL autosampler. Acquired data files were processed using FragPipe v20.0 (MSFragger v3.8, Philosopher v5.0.0, IonQuant v1.9.8) for protein identification and quantitation. Peptides and proteins were identified by automated database searching against the human UniprotKB/Swissprot database (accessed on 2021/07/15) with settings of strict trypsin (C-terminal of K and R) specificity and the allowance for up to 2 missed cleavages. Carbamidomethylation of cysteine (C, +57.021465) was set as a fixed modification. Oxidation of methionine (M, +15.9949) and acetylation of protein N-terminus (Protein N-term, +42.0106) were set as variable modifications. A total of 2139 protein groups were identified.
HostingRepository	jPOST
AnnounceDate	2024-04-25
AnnouncementXML	Submission_2024-06-16_20:17:08.161.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kosuke Ogata
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	S-carboxamidomethyl-L-cysteine; L-methionine sulfoxide; Acetyl
Instrument	instrument

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2023-12-25 04:41:25	ID requested
1	2024-04-25 03:00:12	announced
⏵ 2	2024-06-16 20:17:08	announced	2024-06-17: Updated PubMed.

Publication List

Murase Y, Yokogawa R, Yabuta Y, Nagano M, Katou Y, Mizuyama M, Kitamura A, Puangsricharoen P, Yamashiro C, Hu B, Mizuta K, Tsujimura T, Yamamoto T, Ogata K, Ishihama Y, Saitou M, In vitro reconstitution of epigenetic reprogramming in the human germ line. Nature, 631(8019):170-178(2024) [pubmed]

Murase Y, Yokogawa R, Yabuta Y, Nagano M, Katou Y, Mizuyama M, Kitamura A, Puangsricharoen P, Yamashiro C, Hu B, Mizuta K, Tsujimura T, Yamamoto T, Ogata K, Ishihama Y, Saitou M, In vitro reconstitution of epigenetic reprogramming in the human germ line. Nature, 631(8019):170-178(2024) [pubmed]

Keyword List

submitter keyword: epigenetic reprogramming
human germ cells
human primordial germ cell-like cells
in vitro gametogenesis
bone morphogenetic protein
DNA demethylation
TET1

submitter keyword: epigenetic reprogramming

human germ cells

human primordial germ cell-like cells

in vitro gametogenesis

bone morphogenetic protein

DNA demethylation

TET1

Contact List

Mitinori Saitou
lab head
Kosuke Ogata
contact affiliation	Kyoto university
dataset submitter

Full Dataset Link List

jPOST dataset URI
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.jpostdb.org/JPST002432/

jPOST dataset URI

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.jpostdb.org/JPST002432/