NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM889104 Query DataSets for GSM889104
Status Public on May 02, 2012
Title wt_FM391_RNA-seq_rep1
Sample type SRA
 
Source name Wild-type yeast (FM391)
Organism Saccharomyces cerevisiae
Characteristics genotype/variation: Wild-type (FM391)
Treatment protocol wild-type
Growth protocol For RNA-seq, total RNAs were prepared from the exponentially growing wild-type and CHD1 deleted mutants to ~0.8 OD600nm using the hot phenol method.
Extracted molecule polyA RNA
Extraction protocol Harvested cells were broken with 65⁰C acidic phenol and the lysates were extracted by phenol/chloroform/isoamylalcohol three times. Total RNAs were prepared from these lysates by ethanol precipitation. The library was prepared using the Tru-seq mRNA kit (cat# FC-122-1001) from Illumina.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing Base-calling: Casava 1.8
Alignment: Bowtie 0.12.7 -m 10 -v 2 for ChIP-seq; TopHat 1.3.1 -g 1 with Ensembl 63 GTF for RNA-seq
Genome_build: UCSC sacCer2
Supplementary_files_format_and_content: UCSC BED
 
Submission date Mar 07, 2012
Last update date May 15, 2019
Contact name Alexander (Garrett) Garruss
E-mail(s) asg@stowers.org
Organization name Stowers Institute for Medical Research
Lab Shilatifard
Street address 1000 East 50th Street
City Kansas CIty
State/province Missouri
ZIP/Postal code 64110
Country USA
 
Platform ID GPL13821
Series (1)
GSE36334 Co-dependency of H2B monoubiquitination and nucleosome re-assembly on Chd1
Relations
SRA SRX127922
BioSample SAMN00809253

Supplementary file Size Download File type/resource
GSM889104_FM391-rnaseq_1.bed.gz 65.9 Mb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap