|
| Status |
Public on Mar 17, 2020 |
| Title |
InVitroPhylogeny_Gen2_4 |
| Sample type |
SRA |
| |
|
| Source name |
Mouse embryonic stem cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Mouse embryonic stem cells
treatment: Dox
system: cCARLIN
|
| Growth protocol |
Cells were cultured on mouse embryonic fibroblast feeder layers in embryonic stem cell medium with LIF
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cells were trypsinized, pelleted and resuspended in DNA lysis buffer
Up to 250ng gDNA was input into an initial UMI tagging reaction using a primer specific to the CARLIN region. Following this the CARLIN array + UMI was amplified in a PCR reaction before indexing and sequencing via MiSeq
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
Library strategy: DNA-seq
Cellranger v2.2.0 (with default parameters) was used to process single-cell RNA sequencing datasets prepared using CellRanger V2 Chemistry
Cellranger v3.0.2 (with default parameters) was used to process single-cell RNA sequencing datasets prepared using CellRanger V3 Chemistry
Genome_build: mm10
Supplementary_files_format_and_content: H5 - CellRanger single-cell count matrix
|
| |
|
| Submission date |
Mar 16, 2020 |
| Last update date |
Mar 17, 2020 |
| Contact name |
Duluxan Sritharan |
| Organization name |
Harvard University
|
| Street address |
240 Longwood Avenue, Bldg. C
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL16417 |
| Series (1) |
| GSE146972 |
An engineered CRISPR/Cas9 mouse line for simultaneous readout of lineage histories and gene expression profiles in single cells |
|
| Relations |
| BioSample |
SAMN14382920 |
| SRA |
SRX7916414 |
