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Sample GSM3755163 Query DataSets for GSM3755163
Status Public on Sep 20, 2019
Title WT_PlusZn_repeat2
Sample type SRA
Source name cells
Organism Schizosaccharomyces pombe
Characteristics genotype: wild type
zn supplementation: yes
Growth protocol wild-type and loz1 deletion strains were grown in zinc-limited EMM supplemented with 100 mM Zn to an OD600 of ~6.0
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using the RiboPureTM RNA Purification Kit for yeast (ThermoFisher Scientific) according to the manufacturer's instructions
Library preparation and next generation sequencing performed by Beckman Coulter Genomics. RNA libraries were prepared for sequencing using standard Illumina protocols
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Data processing Splice sites generated using HISAT2 and 'Schizosaccharomyces_pombe.ASM294v2.39.gtf' from Ensembl
Sequenced reads mapped to the S.pombe genome with parameter --dta-cufflinks
Using Samtools, converted SAM files to BAM files, and sorted them based on coordinates
FPKM values for each sample was generated using Cufflinks
Cuffdiff was used to compare gene expression across samples
Genome_build: Schizosaccharomyces_pombe.ASM294v2
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample
Submission date May 07, 2019
Last update date Sep 23, 2019
Contact name Stevin Wilson
Organization name The Ohio State University
Department Molecular Genetics
Street address 1787 Neil Ave, 063
City Columbus
State/province Ohio
ZIP/Postal code 43210
Country USA
Platform ID GPL13988
Series (2)
GSE130845 The zinc-responsive repressor Loz1 is the master regulator of zinc homeostasis in Schizosaccharomyces pombe [RNA-seq]
GSE130846 The zinc-responsive repressor Loz1 is the master regulator of zinc homeostasis in Schizosaccharomyces pombe
BioSample SAMN11587732
SRA SRX5802993

Supplementary file Size Download File type/resource
GSM3755163_W2_plusZn.gtf.gz 482.2 Kb (ftp)(http) GTF
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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