|
| Status |
Public on Oct 20, 2010 |
| Title |
fem-3_dsDNALigSeq |
| Sample type |
SRA |
| |
|
| Source name |
whole adult hermaphrodite
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
tissue: whole adult hermaphrodite
genotype: fem-3(q20)
strain: JK816
rna-seq method: dsDNALigSeq
developmental stage: adult
gender: hermaphrodite
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
single-strand-capture, double-strand-capture, and circligase-based RNA-seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Description |
n/a
|
| Data processing |
The processed data files in fasta format contain the parsed RNA reads for each sample (without 5' barcode sequence). The raw files each correspond to a single lane of sequence sequences. The 5’ barcode was trimmed from the barcoded samples and the homopolymer A tail was trimmed from all reads that were obtained using the CircLigSeq method. Identical sequences were collapsed in each sample to avoid PCR "jackpots".
|
| |
|
| Submission date |
Aug 10, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Ayelet Lamm |
| E-mail(s) |
ayeletla@stanford.edu
|
| Phone |
650-725-1609
|
| Organization name |
Stanford University School of Medicine
|
| Department |
Pathology
|
| Lab |
Fire Lab
|
| Street address |
300 Pasteur Drive, Lane Bldg Room L302
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305-5324 |
| Country |
USA |
| |
|
| Platform ID |
GPL9269 |
| Series (1) |
| GSE22410 |
Multimodal RNA-seq using single-strand, double-strand, and circligase-based capture yields a refined and extended description of the C. elegans transcriptome |
|
| Relations |
| SRA |
SRX028192 |
| BioSample |
SAMN00115690 |
