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Sample GSM2251706 Query DataSets for GSM2251706
Status Public on Dec 01, 2017
Title G-2
Sample type SRA
 
Source name cardiac progenitor cells
Organism Homo sapiens
Characteristics tissue: ES-derived cardiac progenitor cells
treatment: Glucose 0 mM for 5 days and back to Glucose 25 mM for 5 days
Extracted molecule polyA RNA
Extraction protocol TRIZOL (TheroFisher) and RNeasy kit (QIAGEN)
Libraries for RNA-Seq in Figure 1G and H were prepared with KAPA Stranded RNA-Seq Kit
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Description replicate B
Data processing Read-Alignment: Short-read sequences generated from Illumina Sequencer were aligned to the UCSC human reference genome hg19 downloaded from support.Illumina.com (http://support.illumina.com/sequencing/sequencing_software/igenome.html) using TopHat from the Tuxedo Tools.
Abundance measurements: Counts/gene expression matrices were generated using HTSeq which quantified the reads per transcript
Normalization of abundance measurements: The expression matrices were log transformed and normalized using the rlog function in Deseq2 package.
Genome_build: hg19
Supplementary_files_format_and_content: tab delimited text files include expression values for annotated features in each sample
 
Submission date Jul 25, 2016
Last update date May 15, 2019
Contact name matteo pellegrini
E-mail(s) matteop@mcdb.ucla.edu
Phone 310 825-0012
Organization name UCLA
Street address 610 charles young drive east
City los angeles
State/province CA
ZIP/Postal code 90095
Country USA
 
Platform ID GPL21290
Series (1)
GSE84814 Glucose inhibits cardiac maturation through nucleotide biosynthesis
Relations
BioSample SAMN05439266
SRA SRX1975933

Supplementary file Size Download File type/resource
GSM2251706_G25-1_counts.txt.gz 112.7 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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