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Sample GSM2699659 Query DataSets for GSM2699659
Status Public on Apr 26, 2019
Title H1_D7_10
Sample type SRA
 
Source name H1 from WiCell International
Organism Homo sapiens
Characteristics cellline: H1
biological replicate: 10
time: day 7
Treatment protocol At day 0, medium was supplemented with 10 mg of CHIR99021 and at day 3, medium was supplemented with 5 mg IWP2
Growth protocol Cells were cultured in triplicates wells coated with LN-521 and LN-221. Cells at day 0 were cultured with Nutristem medium. Cells at Day 1 and 3 were cultured in RMPI 1640 with B27 without insulin supplement and CHIR99021. Cells at day 5 were cultured in RMPI 1640 with B27 without insulin supplement and IWP2. Cells at day 7 and 9 were cultured in RMPI 1640 with B27 without insulin supplement. Cells at day 11 to 90 were cultured in RPMI 1640 supplemented with CTS B-27 Supplement.
Extracted molecule total RNA
Extraction protocol RNA was isolated with Norgen Biotek's Single-cell RNA-isolation kit according to manufacturer's protocol. 700 ng of total RNA was used for library construction.
Libraries were constructed with TruSeq stranded total RNA library Prep Kit (Illumina).
Samples were multiplexed with 10 samples per lane and sequenced in Illumina HiSeq 3000 RNA sequencing platform (150bp pair-end reads)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Description Cells maintained on LN-521+LN-221
Data processing All reads were assessed for quality and (when necessary) adaptors were removed using Cutadapt.
RNA-Seq reads were aligned to hg38 (Ensembl Gene annotation build 79) using STAR 2.5.2b
Reads were quantified using RSEM 1.2.31
Genome_build: hg38 (Ensembl Gene annotation build 79)
Supplementary_files_format_and_content: H1_timecourse_TPM.txt: tab separated file with TPM values for each gene and sample; H1_timecourse_gene_raw_counts.txt: tab separated file with raw gene expression counts for each gene and sample
 
Submission date Jul 11, 2017
Last update date May 15, 2019
Contact name Aida Moreno-Moral
Organization name Duke-NUS Medical School
Street address 8 College Road
City Singapore
ZIP/Postal code 169857
Country Singapore
 
Platform ID GPL21290
Series (2)
GSE100725 In vivo generation of post-infarct human cardiac muscle by laminin-promoted cardiovascular progenitors
GSE101132 In vivo generation of post-infarct human cardiac muscle by laminin-promoted cardiovascular progenitors [H1 differentiation protocol]
Relations
BioSample SAMN07341710
SRA SRX2995184

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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