PXD013972

PXD013972 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Glycan Markers of Human Stem Cells Assigned with Beam Search Arrays
Description	Glycan antigens recognized by monoclonal antibodies have served as stem cell markers. To understand regulation of their biosynthesis and their roles in stem cell behavior precise assignments are required. We have applied state-of-the-art glycan array technologies to compare the glycans bound by five antibodies that recognize carbohydrates on human stem cells. These are: FC10.2, TRA-1-60, TRA-1-81, anti-i and R-10G. Microarray analyses with a panel of sequence-defined glycans corroborate that FC10.2, TRA-1-60, TRA-1-81 recognize the type 1-based backbone sequence, Galβ-3GlcNAcβ-3Galβ-4GlcNAcβ-3Galβ-4GlcNAc, and anti-i, the type 2-analog, Galβ-4GlcNAcβ-3Galβ-4GlcNAcβ-3Galβ-4GlcNAc, and we determine substituents they can accommodate. They differ from R-10G, which requires sulfate. By Beam Search approach, starting with an antigen-positive keratan sulfate polysaccharide, followed by targeted iterative microarray analyses of glycan populations released with keratanases and mass spectrometric monitoring, R-10G is assigned as a unique mono-sulfated type 2 chain, Galβ-4GlcNAc(6S)β-3Galβ-4GlacNAcβ-3Galβ-4GlcNAc. Microarray analyses using newly synthesized glycans corroborate the assignment of this unique determinant raising questions regarding involvement as a ligand in the iPS cell niche.
HostingRepository	jPOST
AnnounceDate	2019-06-18
AnnouncementXML	Submission_2022-09-18_03:25:40.482.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yukie Akune
SpeciesList	scientific name: cellular organisms; NCBI TaxID: 131567;
ModificationList	unknown modification
Instrument	Synapt MS

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2019-05-22 05:49:09	ID requested
1	2019-09-17 03:26:09	announced
2	2021-02-04 16:49:04	announced	2021-02-04: Updated FTP location.
⏵ 3	2022-09-18 03:25:41	announced	2022-09-18: Updated FTP location.

Publication List

Wu N, Silva LM, Liu Y, Zhang Y, Gao C, Zhang F, Fu L, Peng Y, Linhardt R, Kawasaki T, Mulloy B, Chai W, Feizi T, Glycan Markers of Human Stem Cells Assigned with Beam Search Arrays. Mol Cell Proteomics, 18(10):1981-2002(2019) [pubmed]

Wu N, Silva LM, Liu Y, Zhang Y, Gao C, Zhang F, Fu L, Peng Y, Linhardt R, Kawasaki T, Mulloy B, Chai W, Feizi T, Glycan Markers of Human Stem Cells Assigned with Beam Search Arrays. Mol Cell Proteomics, 18(10):1981-2002(2019) [pubmed]

Keyword List

submitter keyword: glycan microarray, human stem cell, antibody R-10G, keratan sulfate, beam search array

submitter keyword: glycan microarray, human stem cell, antibody R-10G, keratan sulfate, beam search array

Contact List

Ten Feizi
lab head
Yukie Akune
contact affiliation	Imperial College London
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/JPST000605/

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/JPST000605/