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Series GSE135568 Query DataSets for GSE135568
Status Public on Nov 21, 2019
Title A multi-omics dataset of heat-shock response in the yeast RNA transport protein Mip6
Organism Saccharomyces cerevisiae
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary We studied the heat-shock response in wild-type (wt) and in absence of Mip6, an RNA binding protein with roles at multiple levels of the gene expression pathway. This study include; their transcriptome (RNA-seq), metabolome (targeted NMR) and H4K12ac epigenome (ChIP-seq) using an experimental desing that ensures that the same samples are used across all omics determinations. This facilitates data analysis approaches that can leverage fully matched, longitudinal, replicated data. These data will faciliate studies of covariation patterns across multiple molecular layers controlling and responding to RNA biogenesis.
Overall design RNA-seq, histone H4 ChIP-seq and H4K12Ac ChIP seq of four biological replicates of wt and mip6D yeast cells growth at: (i) normal conditions; (ii) 20 minutes of heat shock at 39ºC and (iii) 120 minutes of heat shock at 39ºC.
Contributor(s) Nuño-Cabanes C, Ugidos M, Tarazona S, Riquelme AF, Rodríguez-Navarro S, Conesa A
Citation(s) 32109230
Submission date Aug 08, 2019
Last update date Mar 09, 2020
Contact name Susana Rodríguez Navarro
Organization name Instituto de Biomedicina de Valencia
Department Patología y Terapia Molecular y Celular
Lab Unidad de Expresión Génica y Metabolismo de RNA
Street address Jaume Roig, 11
City Valencia
State/province Valencia
ZIP/Postal code 46010
Country Spain
Platforms (1)
GPL13821 Illumina HiSeq 2000 (Saccharomyces cerevisiae)
Samples (67)
GSM4017981 BY4741 wt yeast cells, 30ºC , RNAseq 1
GSM4017983 BY4741 wt yeast cells, 30ºC , RNAseq 2
GSM4017984 BY4741 wt yeast cells, 39ºC 20', RNAseq 3
BioProject PRJNA559331
SRA SRP217823

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Supplementary file Size Download File type/resource
GSE135568_CountMatrixChIPseq.xlsx 548.6 Kb (ftp)(http) XLSX
GSE135568_CountMatrixRNAseq.xlsx 1012.9 Kb (ftp)(http) XLSX
GSE135568_H4K12peaks.bed.gz 25.2 Kb (ftp)(http) BED
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Raw data are available in SRA
Processed data are available on Series record

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