|
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 |