|
| Status |
Public on Jul 16, 2015 |
| Title |
q34_0 |
| Sample type |
SRA |
| |
|
| Source name |
MEF-depleted hiF-T cells at day 10 of reprogramming
|
| Organism |
Homo sapiens |
| Characteristics |
well number: 72
reprogramming time point (day): 10
|
| Growth protocol |
Refer to the section Cell Culture and Reprogramming in the Supplemental Experimental Procedures of the related manuscript.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The single-cell RNA-seq libraries were prepared from MEF-depleted hiF-T cells at day 10 of reprogramming directly sorted in lysis buffer at single cell using an ARIA facs sorter (BD).
Library preparation was performed using SMART-seq2 protocol with minor modifications (Trombetta et al., 2014) on 96 cells
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
10days72
|
| Data processing |
Data processing was performed using the Tuxedo RNAseq suite (Trapnell et al., 2012). 52 single cells displayed more than 50% alignment rate and 100,000 reads per sample and were therefore considered for further analysis.
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each sample
|
| |
|
| Submission date |
May 27, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Shannan Ho Sui |
| E-mail(s) |
shosui@hsph.harvard.edu
|
| Organization name |
Harvard T.H. Chan School of Public Health
|
| Department |
Biostatistics
|
| Street address |
401 Park Drive, Level 3 East
|
| City |
Boston |
| State/province |
Massachusetts |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (2) |
| GSE62777 |
Integrative analyses of human reprogramming reveal dynamic nature of induced pluripotency |
| GSE69292 |
Integrative analyses of human reprogramming reveal dynamic nature of induced pluripotency [smartseq2] |
|
| Relations |
| BioSample |
SAMN03737828 |
| SRA |
SRX1040917 |
