|
| Status |
Public on Jan 01, 2024 |
| Title |
BC093 |
| Sample type |
SRA |
| |
|
| Source name |
MGE derived interneuron within the dorsal CA1 pyramidal cell layer
|
| Organism |
Mus musculus |
| Characteristics |
cell type: MGE derived interneuron
condition: WT male
Sex: male
genotype: WT
cellected_type: WT male
contamination: No
age: Post natal day 4 (p4)
|
| Treatment protocol |
No treatment.
|
| Growth protocol |
Pups were housed under standard conditions with parents until post-natal day 4.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cell contents including mRNA were aspirated within a patch pipette from acute slices.
Nextera XT
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Data-no_QC-counts.tsv
Data-counts.tsv
Data-normed.tsv
|
| Data processing |
Illumina RTA v1.12 was used for base calling, and Illumina bc12fastq v2.20 for demultiplexing and fastq file generation
Sequenced reads were alligned using Kallisto, and transcript level tpm values were summed up to gene level tpm values
Genome_build: GRCm38 version 95
Supplementary_files_format_and_content: tpm.tsv contains the transcript per million levels of each gene within each cell, in a tab deliminated matrix. Counts.tsv contains the kallisto, aligned pseudocounts of each gene within each cell, in a tab. deliminated matrix. no-QC-counts.tsv contains the same information as counts.tsv, but including cells that failed quality control
|
| |
|
| Submission date |
Feb 28, 2022 |
| Last update date |
Jan 01, 2024 |
| Contact name |
Csaba Földy |
| E-mail(s) |
single-cell@hifo.uzh.ch
|
| Organization name |
University of Zurich
|
| Department |
Brain Research Institute
|
| Lab |
Foldy Lab
|
| Street address |
Winterthurerstrasse 190
|
| City |
Zurich |
| State/province |
Zurich |
| ZIP/Postal code |
8057 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE197607 |
Comparison p4 CA1 pyramidal cell layer MGE derived interneuronal transcriptomes between male and female GPHNWT and GPHNS268/270A mutant mice acquired using patch sequencing techniques |
|
| Relations |
| BioSample |
SAMN26314942 |
| SRA |
SRX14319011 |
