|
| Status |
Public on Jul 04, 2011 |
| Title |
hMADS3 AD0 (1) Adapter B |
| Sample type |
SRA |
| |
|
| Source name |
hMADS3 AD0
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: hMADS
amount (ng): 500.0
concentration sample (ng/µl): 938.94
library concentration (pm): 253.67
ratio 260/280: 2.07
ratio 260/230: 0.55
rin number: 10.0
|
| Treatment protocol |
Differentiation medium was composed of: DMEM/Ham’s F12 media supplemented with 10 µg/ml transferrin, 0.86 µM insulin, 0.2 nM triiodothyronine, 1 µM dexamethasone, 100 µM isobutyl-methylxanthine and 1 µM rosiglitazone. Three days after first exposure, the medium was changed and dexamethasone and isobutyl-methylxanthine were omitted.
|
| Growth protocol |
Undifferentiated cells were maintained in DMEM (low glucose) containing 10% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
SREK kit by Applied Biosystems (life technologies)
Libraries were constructed either with adapter set A (for sequencing microRNA from the 5' to 3' end) or with adapter set B (for sequencing microRNA from the 3' to the 5' end). The sequence of adaptor A and B sequenced in the reads are the same: CGCCTTGGCCGTACAGCAG (330201030313112312 in colorspace).
Libraries were size selected on acrylamide gels (110 to 140 nucleotides)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
AB SOLiD System 3.0 |
| |
|
| Description |
hMADS3 AD0
|
| Data processing |
AB Small RNA pipeline v5.0 matching versus human mirbase v16, normalization to 1.000.000 miRNAs count in each sample
processed data: RNA pipeline v5.0 count file
|
| |
|
| Submission date |
Nov 30, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Kevin Lebrigand |
| Organization name |
IPMC/CNRS
|
| Lab |
Functional Genomics Platform of Nice-Sophia-Antipolis, France.
|
| Street address |
660 route des lucioles
|
| City |
Valbonne - Sophia-Antipolis |
| ZIP/Postal code |
06560 |
| Country |
France |
| |
|
| Platform ID |
GPL9442 |
| Series (1) |
| GSE25715 |
miRNA profiling during adipogenic differentiation of adipose-derived stem cells |
|
| Relations |
| SRA |
SRX037126 |
| BioSample |
SAMN00189418 |
