|
| Status |
Public on Sep 27, 2024 |
| Title |
Otof_het_Rep2 |
| Sample type |
SRA |
| |
|
| Source name |
cochlea
|
| Organism |
Mus musculus |
| Characteristics |
tissue: cochlea
genotype: Heterozygous
treatment: PostnatalDay7
|
| Extracted molecule |
total RNA |
| Extraction protocol |
cochlear tissues were homogenized with Qiagen's RLT buffer using a plastic homogenizer and RNA eas extracted using the Qiagen microRNAeasy column. Samples were tested for a RIN values >9 before sequencing.
mRNA was purfied using poly-T olgio attached magentic beads. After fragmentation, the frist strand cDNA was synthesized usign random hexamer primers, followed by second stand cDNA synthesis using dTTP primers. End repari, A-tailing was reported, before adapter ligation and size seldction.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Het_Rep2
|
| Data processing |
NextFlow RNA pipeline
Salmon used for counting transcripts.
DeSeq2 used for differential expression analysis.
Assembly: mm10
Supplementary files format and content: Otof_salmon_genecounts.tsv; raw gene counts from salmon used as input for DESEQ2
Supplementary files format and content: DEGsOtofKOP7.xlsx; differentially expressed genes from Deseq2
|
| |
|
| Submission date |
Sep 07, 2023 |
| Last update date |
Sep 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) |
| GSE242669 |
The upregulation of K+ and HCN channels in developing spiral ganglion neurons is mediated by cochlear inner hair cells |
|
| Relations |
| BioSample |
SAMN37316921 |
| SRA |
SRX21663312 |
