PXD038099

PXD038099 is an original dataset announced via ProteomeXchange.

Title	Non-poly(A) RNA Interactome capture (RIC) of mouse liver
Description	Male mice on a homogenous C57BL6/J genetic background were sacrificed at 11 to 13 weeks of age by cervical dislocation. Liver were immediately harvested, flash frozen in liquid nitrogen and stored at -80°C until use. Animal handling was in accordance with guidelines approved by the European Molecular Biology Laboratory (EMBL). Organ sections (thickness 30 µm) were prepared in a Cryostat (Leica Biosystems, Leica CM3050 S) set to -20 °C and deposited onto SuperFrost glass slides (Carl Roth, H880); the glass slides were pre-cooled to -20°C in the cryostat. ~10 sections were placed on a glass slide, and a total of around 150 sections were prepared for each sample. Tissue sections on glass slides were then transferred onto metal plates placed on dry ice. The tissue sections were exposed or not to 1 J/cm2 of 254 nm UV light in a XL 1500 UV Spectrolinker (Spectronics Corporation) and subjected to eRIC (PMID: 30352994). Poly(A) RNA-depleted supernatants obtained after two consecutive rounds of eRIC were stored at -80ºC and then used as input for the column-based guanidinium thiocyanate-phenol-chloroform extraction of ribonuleoprotein (RNP) complexes, applying an adaptation of the 2C method (PMID: 30035255). Four independent irradiated samples were employed. For the non-irradiated control, organ sections from four mice were pooled to generate one non-crosslink sample. 40 µg of captured RNA per sample were employed.
HostingRepository	PRIDE
AnnounceDate	2023-03-02
AnnouncementXML	Submission_2023-03-02_04:57:43.499.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	FrankStein
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-11-11 09:00:20	ID requested
⏵ 1	2023-03-02 04:57:43	announced

Dataset with its publication pending

submitter keyword: RNA interactome capture., RBP, RIC, eRIC,RNA binding protein, RBPome

Matthias W.Hentze
contact affiliation	European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany.
contact email	hentze@embl.de
lab head
FrankStein
contact affiliation	EMBL
contact email	frank.stein@embl.de
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/2023/03/PXD038099

PRIDE project URI

• PRIDE
  1. PXD038099
     1. Label: PRIDE project
     2. Name: Non-poly(A) RNA Interactome capture (RIC) of mouse liver