|
| Status |
Public on Jun 10, 2020 |
| Title |
RMK_DOFS_RH_95: Mouse, intraamygdala kainic acid (IAKA), Day of first seizure |
| Sample type |
SRA |
| |
|
| Source name |
Hippocampus
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Hippocampus
model: intraamygdala kainic acid (IAKA)
period: Day of first seizure
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Frozen hippocampal tissue is homogonized and immunoprecipitation is done using Ago2 antibody
Immunoprecitated RNA was prepared using TruSeq small RNA library prep
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Ago2 IP RNA, small RNA seq
|
| Data processing |
FASTX-Toolkit (0.0.13) was used to quality filter reads and cutadapt (1.2.1) was used to remove adaptor sequences
Using Bowtie (0.12.8), reads were mapped to miRNAs from miRBase v21 allowing zero mismatches, but allowing for non-templated 3’ A and T bases
Genome_build: Reference: mature miRNAs from miRBase v21
Supplementary_files_format_and_content: Text files with raw read counts for miRNAs in each sample
|
| |
|
| Submission date |
Sep 16, 2019 |
| Last update date |
Jun 10, 2020 |
| Contact name |
Morten T Veno |
| E-mail(s) |
morten.veno@omiics.com
|
| Phone |
+45 28727107
|
| Organization name |
Omiics ApS
|
| Street address |
Aabogade 15
|
| City |
Aarhus N |
| State/province |
DK |
| ZIP/Postal code |
8200 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE137473 |
A systems approach delivers a functional microRNA catalog and expanded targets for seizure suppression in temporal lobe epilepsy |
|
| Relations |
| BioSample |
SAMN12766279 |
| SRA |
SRX6853108 |
