characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2022-08-29T00:14:14Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2022-08-29T00:14:14Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA110676548
characteristics.characteristic: External Id
characteristics.text: Department of Biostatistics, University of Florida
characteristics.characteristic: INSDC center name
characteristics.text: 2022-08-29T00:14:14Z
characteristics.characteristic: INSDC first public
characteristics.text: 2022-08-29T00:14:14Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS12774115
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-12110:in vitro WT 2
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.characteristic: broker name
characteristics.text: baker's yeast
characteristics.characteristic: common name
characteristics.text: Protocols: In vivo or in vitro mRNA interactome profiles of FLAG-tagged WT and Delta NLS1/2 mutant were determined, each condition in duplicate, as follows. Condition I: in vitro. Purified Xrn1 samples were reacted in vitro with affinity purified poly(A)+ cellular mRNAs (purified using oligo(dT)20 beads) followed by RIP-seq. Condition II: in vivo. Cells were UV crosslinked in-vivo using Vari-X-Link UV-crosslinker. IP was done in Tandem with anti-FLAG magnetic beads followed by His purification with Ni-NTA resin under denaturing condition. RNA was released by incubating the bead conjugated RNA-protein complex with Proteinase K at a final concentration of 100µg/ml for 1 h at 56°C. Cells were grown in YPD medium for 7 generations to reach mid-log phase. WT cells and Xrn1 NLS mutant cells were grown for the experiment. Total RNA was purified with standard Phenol: Chloroform extraction Library construction was done using PAS sequencing protocol (Yoon et.al. 2021, Methods in Enzymology)
characteristics.characteristic: description
characteristics.text: wild type genotype
characteristics.characteristic: genotype
characteristics.text: In vitro
characteristics.characteristic: growth condition
characteristics.text: Saccharomyces cerevisiae
characteristics.characteristic: organism
characteristics.text: Saccharomyces cerevisiae
characteristics.characteristic: organism
characteristics.text: whole organism
characteristics.characteristic: organism part
characteristics.text: Saccharomyces cerevisiae
characteristics.characteristic: scientific_name
characteristics.text: BY4741, MATa his3∆1 leu2∆0 met15∆0, ura3∆, CaUra3∆:: Xrn1WT-FLAG
characteristics.characteristic: strain
characteristics.text: in vitro WT 2
characteristics.characteristic: title