|
| Status |
Public on Jan 25, 2019 |
| Title |
HE6W_RV |
| 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 |
SAMN07830881 |
| SRA |
SRX3321010 |
