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Sample GSM2829943 Query DataSets for GSM2829943
Status Public on Jan 25, 2019
Title HE6W_LV
Sample type SRA
 
Source name 6W post-gestation human embryos
Organism Homo sapiens
Characteristics tissue: Heart
cell type: Heart tissue cells
Extracted molecule polyA RNA
Extraction protocol Single cell was randomly picked with mouth pipette, then washed by 1mg/ml HSA() and transferred into prepared lysis buffer. The cells can store at -80℃ or do it immediately. We used a modified SMART-seq2 protocol to lysis for release all RNA, reverse transcription for capture the cDNA of mRNA and pre-amplification for increase yields of cDNAs. The resulting cDNAs from single cells were barcoded, and then pooled together with different barcode. Followed by 4 cycles, the index of sequence with biotin modified was added at 3’ end.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 4000
 
Description single cell RNA seq of 48 heart tissue cells
Data processing Illumina CASAVA version 1.8 were used to the basecalling.
Sequencing adapters, low quality sequences and amplification primers were trimmed from the raw sequencing reads.
For RNA-seq data, trimmed clean reads were aligned to human reference genome (hg19) using TopHat (v 2.0.12) -pass mapping steps.
Genome_build: hg19
Supplementary_files_format_and_content: TPM.txt files include the TPM values of RefSeq genes
 
Submission date Oct 24, 2017
Last update date Jan 25, 2019
Contact name Yuxuan Zheng
Organization name Fudan University
Street address 825 Zhangheng Rd.
City Shanghai
ZIP/Postal code 201203
Country China
 
Platform ID GPL20301
Series (1)
GSE106118 Single-Cell Transcriptome Analysis Maps the Developmental Track of the Human Heart
Relations
BioSample SAMN07830883
SRA SRX3321008

Supplementary file Size Download File type/resource
GSM2829943_HE6W_LV.TPM.txt.gz 613.5 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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