 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Aug 21, 2024 |
| Title |
pSabatiniLabsMMrCTXM2i10d221004A |
| Sample type |
SRA |
| |
|
| Source name |
frontal cortex, brain
|
| Organism |
Mus musculus |
| Characteristics |
tissue: frontal cortex, brain
genotype: DN-THRB
treatment: C
mouse: sns_10
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Please see: https://www.protocols.io/view/frozen-tissue-nuclei-extraction-for-10xv3-snseq-bi62khge
10X Chromium Single Cell 3' (V3), manufacturer's protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10x Genomics v.3
|
| Data processing |
Sequencing was performed on Illumina NovaSeq 6000
Sequencing reads were demultiplexed and aligned to the custom-annotated GRCm38 genome using CellRanger v5
CellRanger v5 filtering was performed including 10x barcode correction, UMI correction, and cell barcode calling to produce the filtered_feature_bc_matrix
Assembly: GRCm38 (custom annotated for readout of transgenes)
Supplementary files format and content: barcodes.tsv.gz contains filtered cell barcode information corresponding to column indices of matrix.mtx.gz
Supplementary files format and content: features.tsv.gz contains filtered feature information corresponding to row indices of matrix.mtx.gz
Supplementary files format and content: matrix.mtx.gz contains filtered gene expression counts matrix
|
| |
|
| Submission date |
Jul 03, 2024 |
| Last update date |
Aug 21, 2024 |
| Contact name |
Evan Macosko |
| E-mail(s) |
[email protected]
|
| Organization name |
Broad Institute
|
| Street address |
75 Ames St
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE271421 |
Thyroid hormone remodels cortex to coordinate body-wide metabolism and exploration |
|
| Relations |
| BioSample |
SAMN42159554 |
| SRA |
SRX25166425 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM8376616_pSabatiniLabsMMrCTXM2i10d221004A_barcodes.tsv.gz |
47.4 Kb |
(ftp)(http) |
TSV |
| GSM8376616_pSabatiniLabsMMrCTXM2i10d221004A_features.tsv.gz |
185.6 Kb |
(ftp)(http) |
TSV |
| GSM8376616_pSabatiniLabsMMrCTXM2i10d221004A_matrix.mtx.gz |
116.5 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
|
|
|
|
 |
