PXD015395

PXD015395 is an original dataset announced via ProteomeXchange.

Title	A universal method for the rapid isolation of all known classes of functional small RNAs
Description	Diverse classes of regulatory small (s)RNAs operate via ARGONAUTE-family proteins within RNA-induced-silencing-complexes (RISCs). Based the conserved biochemical properties intrinsic to all ARGONAUTEs, we have developed a universal, 15-min benchtop extraction procedure allowing simultaneous purification of all classes of RISC-associated sRNAs, without prior knowledge of the sample’s -intrinsic ARGONAUTE repertoires. Optimized as a user-friendly kit, the method –coined “TraPR” for Trans-kingdom, rapid, affordable Purification of RISCs– operates irrespectively of the organism, tissue, cell type or bio-fluid of interest, and scales to minute amounts of input material. The method is highly suited for direct sRNA deep-sequencing, with TraPR-generated libraries being qualitatively at least on-par with those obtained via gold-standard procedures that require immunoprecipitations and/or lengthy polyacrylamide gel excisions. TraPR considerably improves the quality and consistency of sRNA sample preparation including from notoriously difficult-to-handle tissues/bio-fluids such as starchy storage roots and mammalian plasma, and regardless of RNA contaminants or samples’ RNA-degradation status.
HostingRepository	PRIDE
AnnounceDate	2021-09-08
AnnouncementXML	Submission_2021-09-08_11:55:11.368.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Julia Svozil
SpeciesList	scientific name: Caenorhabditis elegans; NCBI TaxID: 6239;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2019-09-10 06:48:00	ID requested
⏵ 1	2021-09-08 11:55:12	announced

Grentzinger T, Oberlin S, Schott G, Handler D, Svozil J, Barragan-Borrero V, Humbert A, Duharcourt S, Brennecke J, Voinnet O, A universal method for the rapid isolation of all known classes of functional silencing small RNAs. Nucleic Acids Res, 48(14):e79(2020) [pubmed]

submitter keyword: Argonaute, mRNA binding proeins, small RNA

Olivier Voinnet
contact affiliation	1Department of Biology, Swiss Federal Institute of Technology (ETH), Universitätstrasse 2, 8092 Zürich, Switzerland
contact email	voinneto@ethz.ch
lab head
Julia Svozil
contact affiliation	ETH Zurich
contact email	julia.svozil@kos.li
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/2021/09/PXD015395

PRIDE project URI

• PRIDE
  1. PXD015395
     1. Label: PRIDE project
     2. Name: A universal method for the rapid isolation of all known classes of functional small RNAs