|
| Status |
Public on Feb 28, 2012 |
| Title |
miRNA_GFP_minus |
| Sample type |
SRA |
| |
|
| Source name |
whole zebrafish embryos at 24 hpf
|
| Organism |
Danio rerio |
| Characteristics |
age: 24 hpf
developmental stage: embryo
tissue: whole body
cell type: all cell types
|
| Treatment protocol |
Tg(kdrl:egfp) embryos were dissociated at 24 hours post fertilization (hpf), followed by fluorescence-activated cell sorting to isolate GFP-positive and -negative cells.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Small RNAs were isolated by polyacrylamide gel electrophoresis and ligated to RNA adapters, followed by cDNA synthesis and amplification with Illumina primers.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
whole
microRNA
|
| Data processing |
The standard Illumina pipeline was applied for base calls and quality scoring; sequence tags were subsequently analyzed using miR-Deep2.
|
| |
|
| Submission date |
Jan 12, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Abirami Lakshmanan |
| E-mail(s) |
abirami.lakshmanan@umassmed.edu
|
| Organization name |
Umass Medical School
|
| Department |
PGFE
|
| Lab |
Nathan Lawson Lab
|
| Street address |
55 Lake Avenue North
|
| City |
Worcester |
| State/province |
Massachusetts |
| ZIP/Postal code |
01655 |
| Country |
USA |
| |
|
| Platform ID |
GPL10164 |
| Series (1) |
| GSE35078 |
miR-221 is required for endothelial tip cell behaviors during vascular development |
|
| Relations |
| SRA |
SRX115580 |
| BioSample |
SAMN00773055 |
