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Sample GSM2286705 Query DataSets for GSM2286705
Status Public on Dec 31, 2016
Title HEK293T_sc_6
Sample type SRA
Source name HEK293T cell line
Organism Homo sapiens
Characteristics cell line: HEK293T
sample type: single cell
Growth protocol HEK293T cells were grown in DMEM/High Glucose medium (ThermoFisher Scientific) with 10% FBS (Life Technologies) and 1% Penicillin-Streptomycin (Life Technologies). Cells were passed every 2-3 days.
MCF10A cells were grown in DMEM/F12 medium with 5% Horse Serum, 20ng/ml EGF, 100ng/ml Cholera Toxin, 10ug/ml Insulin, 500ng/ml Hydrocortisone, and 1% Penicillin Streptomycin.
Extracted molecule total RNA
Extraction protocol cDNA libraries were prepared for sequencing using standard Illumina Truseq protocols
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
Data processing The raw sequencing data was trimmed using skewer package.
The reads were mapped to the transcriptome using TOPHAT
A Python program using HT-seq package was written to analyze the barcode information
Genome_build: Hg19
Supplementary_files_format_and_content: dat files include the read count and barcode count for exon-based and intron-based analyses
Submission date Aug 21, 2016
Last update date May 15, 2019
Contact name Kuanwei Sheng
Organization name Baylor College of Medicine
Department Molecular and Human Genetics
Lab Zong Lab
Street address ONE BAYLOR PALAZA
State/province TX
ZIP/Postal code 77030
Country USA
Platform ID GPL18573
Series (1)
GSE78968 Effective Detection of Variation in Single Cell Transcriptome using MATQ-seq
BioSample SAMN05601464
SRA SRX2036964

Supplementary file Size Download File type/resource
GSM2286705_293TSCNo6.tscounts.mapq50.exon.dat.gz 714.8 Kb (ftp)(http) DAT
GSM2286705_293TSCNo6.tscounts.mapq50.gene.dat.gz 555.8 Kb (ftp)(http) DAT
GSM2286705_293TSCNo6.tscounts.mapq50.intron.dat.gz 610.2 Kb (ftp)(http) DAT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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