|
| Status |
Public on Feb 26, 2020 |
| Title |
miR-200 induced with Doxycycline 2 |
| Sample type |
SRA |
| |
|
| Source name |
Keratinocytes
|
| Organism |
Mus musculus |
| Characteristics |
agent: Doxycycline
cell type: Keratinocytes
|
| Treatment protocol |
Treated with vehicle or 3 ug/ml doxycycline
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extracted with Trizol
Poly A selected and then NEB Next Ultra Directional kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
HM_C3_Ind2
MiSeq and HiSeq 4000
|
| Data processing |
Aligned with Bowtie2
Genes counted with Htseq against mm10
For miR-200 samples the Hiseq and Miseq counts were combined
Htseq was loaded into DESeq2 for differential analysis using the default settings
Genome_build: mm10
Supplementary_files_format_and_content: Htseq count files and DESeq output for each experiment
|
| |
|
| Submission date |
May 14, 2019 |
| Last update date |
Feb 26, 2020 |
| Contact name |
Glen Bjerke |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Colorado
|
| Department |
MCDB
|
| Lab |
Yi Lab
|
| Street address |
347 UCB
|
| City |
Boulder |
| State/province |
CO |
| ZIP/Postal code |
80301 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (1) |
| GSE131205 |
RNA-seq on miRNA induced mouse keratinocytes. miR-200b cluster and miR-205. |
|
| Relations |
| BioSample |
SAMN11642371 |
| SRA |
SRX5830670 |
