PXD009216

PXD009216 is an original dataset announced via ProteomeXchange.

Title	C-BERST: Defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2
Description	Mapping proteomic composition at distinct genomic loci and subnuclear landmarks in living cells has been a long-standing challenge. Here we report that dCas9-APEX2 Biotinylation at genomic Elements by Restricted Spatial Tagging (C-BERST) allows the unbiased mapping of proteomes near defined genomic loci, as demonstrated for telomeres and centromeres. C-BERST enables the high-throughput identification of proteins associated with specific sequences, facilitating annotation of these factors and their roles in nuclear and chromosome biology.
HostingRepository	PRIDE
AnnounceDate	2018-05-07
AnnouncementXML	Submission_2018-05-09_03:57:18.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD009216
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Xin D. Gao
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	Label:13C(6)15N(2); Label:2H(4); Label:13C(6)15N(4); Biotin-tyramide; Oxidation; Label:13C(6); Acetyl; Carbamidomethyl; Gln->pyro-Glu
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-03-15 06:43:12	ID requested
1	2018-05-07 00:56:25	announced
⏵ 2	2018-05-09 03:57:20	announced	Updated publication reference for PubMed record(s): 29735996.

Gao XD, Tu LC, Mir A, Rodriguez T, Ding Y, Leszyk J, Dekker J, Shaffer SA, Zhu LJ, Wolfe SA, Sontheimer EJ, C-BERST: defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2. Nat Methods, 15(6):433-436(2018) [pubmed]

curator keyword: Biological

submitter keyword: Cas9, APEX2, Biotinylation, Subnuclear, Telomere, Centromere, Proteomes

Erik J. Sontheimer
contact affiliation	RNA Therapeutics Institute, University of Massachusetts Medical School, USA
contact email	erik.sontheimer@umassmed.edu
lab head
Xin D. Gao
contact affiliation	University of Massachusetts Medical School
contact email	xin.gao@umassmed.edu
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/2018/05/PXD009216

PRIDE project URI

• PRIDE
  1. PXD009216
     1. Label: PRIDE project
     2. Name: C-BERST: Defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2