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Sample GSM2832770 Query DataSets for GSM2832770
Status Public on Mar 05, 2019
Title JKY690 chrIII tDNAD biological replicate 1
Sample type SRA
 
Source name JKY690 chrIII tDNAD
Organism Saccharomyces cerevisiae
Characteristics strain: W-303
genotype: MATa ade2-1 trp1-1 ura3-1 chrIII (t0D, t1D, t3D, t4D, t5D, t6D, t7D, t8D+t9D::LEU2), T1+T7::HIS3
Treatment protocol No treatment
Growth protocol Cells were grown to early log phase in YPD, spun, washed in PBS and aliquots were flash frozen in liquid nitrogen.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated by ACGT Inc., Wheeling IL using the Qiagen Rneasy kit.
Libraries were constructed and sequenced by ACGT Inc., Wheeling IL using the NEXTflex Rapid Directional RNA-Seq kit
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 4000
 
Description Total RNA from chIII tDNA D cells biological replicate 1
690a
Data processing Pseudo-alignment was performed using Kallisto (Bray et al., Nat. Biotechnol., 2016)
Differentially expressed genes were obtained using Sleuth (Pimentel et al., Nature Methods, 2017).
Genome_build: sacCer3
Supplementary_files_format_and_content: abundance.tsv - text file containing the Kallisto estimates of transcript abundances.
 
Submission date Oct 26, 2017
Last update date May 15, 2019
Contact name Razvan V. Chereji
E-mail(s) razvan.chereji@nih.gov
Phone 301-435-8670
Organization name National Institutes of Health
Department NICHD
Lab David J. Clark Lab
Street address 6 Center Drive, Room 2A14
City Bethesda
State/province Maryland
ZIP/Postal code 20892
Country USA
 
Platform ID GPL21656
Series (2)
GSE106248 Transfer RNA Genes Affect Chromosome Architecture and Function [RNA-seq]
GSE106250 Transfer RNA Genes Affect Chromosome Architecture and Function
Relations
BioSample SAMN07839704
SRA SRX3334103

Supplementary file Size Download File type/resource
GSM2832770_690a_abundance.tsv.gz 89.4 Kb (ftp)(http) TSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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