|
| Status |
Public on Apr 30, 2022 |
| Title |
RNA-seq, primary RPE, biol rep2 |
| Sample type |
SRA |
| |
|
| Source name |
RPE
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: RPE
genotype: healthy
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
RNA was extracted using the RNeasy Mini Kit (QIAGEN #74104) according to its protocol.
The TruSeq Stranded mRNA protocol from Illumina was followed for library construction (catalog #RS-122-2101).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
genomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
For libraries having undergone paired-end sequencing, only the first read was used.
Reads were mapped using STAR and GENCODE V19 transcripts were quantified with RSEM using the standard ENCODE parameters.
Assembly: hg38
Supplementary files format and content: Tab-delimited text files including gene expression estimates from RSEM
Supplementary files format and content: Signal tracks in bigwig format (separated for plus and minus strands)
|
| |
|
| Submission date |
Apr 27, 2022 |
| Last update date |
Apr 30, 2022 |
| Contact name |
Kirsty Jamieson |
| E-mail(s) |
kirstyjamieson@gmail.com
|
| Organization name |
University of California
|
| Street address |
400 Parnassus Ave
|
| City |
San Francisco |
| ZIP/Postal code |
94143 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE201680 |
Dissecting genetic components associated with eye disease using integrative genomic analysis [RNA-seq] |
| GSE201681 |
Dissecting genetic components associated with eye disease using integrative genomic analysis |
|
| Relations |
| BioSample |
SAMN27914657 |
| SRA |
SRX15014530 |
