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Sample GSM4413162 Query DataSets for GSM4413162
Status Public on Mar 17, 2020
Title ChronicInduction_NegDox_Trial2_48h
Sample type SRA
 
Source name Mouse embryonic stem cells
Organism Mus musculus
Characteristics cell type: Mouse embryonic stem cells
treatment: No 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 SAMN14382833
SRA SRX7916331

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data not provided for this record

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