|
| Status |
Public on Jul 21, 2016 |
| Title |
Colon_COH |
| Sample type |
SRA |
| |
|
| Source name |
Tissue
|
| Organism |
Homo sapiens |
| Characteristics |
tissue type: Colon
donor: Human (donor A)
|
| Treatment protocol |
All the samples were histologically confirmed to be normal
|
| Growth protocol |
Donor E is a fetus, donor A and B were adults
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from tissue by using the miRNeasy Mini Kit (Qiagen, Valencia, CA, USA) according to the manufacturer’s protocol
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiScanSQ |
| |
|
| Description |
Illumina HiScanSQ (COH)
|
| Data processing |
Trim low quality reads and adapters using Trimmomatic software
Mapping trimmed reads to human reference genome using TopHat software
Transcript assembly and quantification using Cufflinks software
Genome_build: GRCh37
Supplementary_files_format_and_content: Table-delimited text files include FPKM value of 156600 transcripts across 28 samples
|
| |
|
| Submission date |
Jun 08, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Leming Shi |
| E-mail(s) |
lemingshi@fudan.edu.cn
|
| Phone |
+86-18616827008
|
| Organization name |
Fudan University
|
| Department |
School of Life Sciences
|
| Lab |
Center for Pharmacogenomics
|
| Street address |
2005 Songhu Road
|
| City |
Shanghai |
| ZIP/Postal code |
200438 |
| Country |
China |
| |
|
| Platform ID |
GPL15456 |
| Series (1) |
| GSE83115 |
Identification of Tissue-Specific Protein-Coding and Noncoding Transcripts across 14 Human Tissues Using RNA-seq |
|
| Relations |
| BioSample |
SAMN05214508 |
| SRA |
SRX1830402 |
