 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Jul 05, 2024 |
| Title |
Gene expression and chromatin accessibility profile at single cell level of B16 cells [B16_D0_3_5_scMulti] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
B16 F10 is a depigmented mouse melanoma cell line which is considered as a homogeneous cell population. These cells when cultured at a very low density of 100 cells/cm2 starts to pigment progressively. We used single nucleus RNA+ATAC sequencing (scMultiomics) to analyze the transciptional diversity and to investigate the epigenetic basis of this diversity of day 0, 3 and 5 B16 cells cultured at low density.
|
| |
|
| Overall design |
B16 F10 cells were cultured at a very low density of 100 cells/cm2 for 3 or 5 days. Cells cultured at high density and used to setup low density cultures were taken as day 0 sample.
|
| |
|
| Contributor(s) |
Ayush A, Vivek T N |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
May 22, 2023 |
| Last update date |
Jul 06, 2024 |
| Contact name |
Vivek T Natarajan |
| E-mail(s) |
tnvivek@igib.in
|
| Organization name |
CSIR-IGIB
|
| Lab |
Pigment Cell Biology Lab
|
| Street address |
Mathura Road
|
| City |
Delhi |
| State/province |
Delhi |
| ZIP/Postal code |
110025 |
| Country |
India |
| |
|
| Platforms (1) |
|
| Samples (8)
|
| GSM7401914 |
D3, B16, scATACseq |
| GSM7401915 |
D5, B16, replicate 1, scRNAseq |
| GSM7401916 |
D5, B16, replicate 1, scATACseq |
| GSM7401917 |
D5, B16, replicate 2, scRNAseq |
| GSM7401918 |
D5, B16, replicate 2, scATACseq |
|
| This SubSeries is part of SuperSeries: |
| GSE233198 |
Differential programs of melanocyte cell states |
|
| Relations |
| BioProject |
PRJNA975102 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE233134_Cell_Metadata.csv.gz |
578.8 Kb |
(ftp)(http) |
CSV |
| GSE233134_RAW.tar |
3.6 Gb |
(http)(custom) |
TAR (of BED, MTX, TBI, TSV) |
| GSE233134_aggr_atac_fragments.tsv.gz |
2.3 Gb |
(ftp)(http) |
TSV |
| GSE233134_aggr_atac_fragments.tsv.gz.tbi.gz |
1018.1 Kb |
(ftp)(http) |
TBI |
| GSE233134_aggr_barcodes.tsv.gz |
53.0 Kb |
(ftp)(http) |
TSV |
| GSE233134_aggr_features.tsv.gz |
3.1 Mb |
(ftp)(http) |
TSV |
| GSE233134_aggr_matrix.mtx.gz |
402.0 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
|
|
|
|
 |
Less...
More...