|
Status |
Public on Sep 27, 2024 |
Title |
Otof_het_Rep1 |
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_Rep1
|
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 |
SAMN37316922 |
SRA |
SRX21663311 |