|
| Status |
Public on Mar 27, 2024 |
| Title |
Bai1KO_P7_Het_Rep1 |
| Sample type |
SRA |
| |
|
| Source name |
cochlea
|
| Organism |
Mus musculus |
| Characteristics |
tissue: cochlea
genotype: Het
age: P7
|
| Growth protocol |
The sensory epithelium and spiral ganglion neurons from 4 mice were micro dissected in DNase free ice-cold PBS 1X and immediately snap frozen in liquid nitrogen. Two batches of 3 and 4 replicates (P7) and one batch of 3 replicates (P22) from each genotype.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using RNeasy Plus Micro Kit (Qiagen) according to manufacturer’s instructions. RNA quantity was established using a Nanodrop spectrophotometer and RNA integrity number (RIN) was calculating using a BioAnalyzer (Agilent Tapestation 4200). All samples had RIN score greater than 9.1.
mRNA library preparation was performed using poly A enrichment and sequenced on the Illumina NovaSeq sequencer using paired-end 150bp reads.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Bai1KO_P7_Het_Rep1
salmon_counts_P7.csv
|
| Data processing |
nf-core/rnaseq pipeline
alignment to mm10 with STAR
counts with salmon
differential expression Deseq2
Assembly: mm10
Supplementary files format and content: salmon_counts_P22.tsv; salmon counts P22
Supplementary files format and content: salmon_counts_P7.csv; salmon counts P7
|
| |
|
| Submission date |
Jan 25, 2024 |
| Last update date |
Mar 27, 2024 |
| Contact name |
Fiorella Grandi |
| E-mail(s) |
fiorella.grandi0@gmail.com
|
| Organization name |
Sorbonne Universite
|
| Department |
Centre de Recherche de Myologie
|
| Lab |
UMRS 974
|
| Street address |
105 Bld d'Hopital
|
| City |
Paris |
| ZIP/Postal code |
75013 |
| Country |
France |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE254269 |
BAI1 localises AMPA receptors at the cochlear afferent postsynaptic density and is |
|
| Relations |
| BioSample |
SAMN39613976 |
| SRA |
SRX23396787 |
