|
| Status |
Public on Jan 30, 2018 |
| Title |
Young human rep 2 |
| Sample type |
SRA |
| |
|
| Source name |
Thymus
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: CD19+ thymic B cells
age: 5 months
|
| Treatment protocol |
Thymocytes were stained with CD19-APC, tagged with anti-APC magnetic beads (Miltenyi Biotec) and magnetically enriched. CD19+ were sorted from enriched samples using BD FACS Aria to a minimum purity of at least 98.5% or better.
|
| Growth protocol |
Human patients undergoing corrective heart surgery
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from sorted B cells using Invitrogen RNAaqueous micro kit
RNA libraries were prepared using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
replicate 2
|
| Data processing |
Illumina Casava v1.8.2 software used for base-calling
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm9 whole genome using TopHat v2.0.8b
gene count measurements were obtained using HTSeq-count
Genome_build: UCSC hg19
Supplementary_files_format_and_content: The processed data files are in tabular format. The first column contains the gene symbols and the second column contain the read counts of the gene using htseq-count
|
| |
|
| Submission date |
Nov 17, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Yidong Chen |
| E-mail(s) |
cheny8@uthscsa.edu
|
| Phone |
2105629163
|
| Organization name |
UT Health Science Center at San Antonio
|
| Department |
Population Health Sciences
|
| Street address |
8403 Floyd Curl Drive, MSC 7784
|
| City |
San Antonio |
| State/province |
Texas |
| ZIP/Postal code |
78229 |
| Country |
USA |
| |
|
| Platform ID |
GPL21290 |
| Series (2) |
| GSE107111 |
RNA-sequencing of bulk CD19+ Thymic B cells from young (3 month - 4 year) and old (42 - 61 years) humans |
| GSE107112 |
RNA-sequencing of bulk CD19+ Thymic B cells from mice and humans |
|
| Relations |
| SRA |
SRX3405804 |
| BioSample |
SAMN08045298 |
