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Sample GSM7634472 Query DataSets for GSM7634472
Status Public on Apr 03, 2024
Title G2
Sample type SRA
 
Source name lung
Organism Mus musculus
Characteristics tissue: lung
cell line: Kras G12D p53-/- Keap1 R470C
cell type: CD45+ and lung tumor
genotype: C57BL/6J
treatment: DRP-104 +/- Anti-PD1
Treatment protocol 2 mice (G1 vs G2) per treatment arm: Isotype + Vehicle (HT4), DRP-104 + Isotype (HT2), anti-PD1 + Vehicle (HT3), and DRP-104 + anti-PD1 (HT1). Mice were treated for 5 days then lungs were collected for analysis
Extracted molecule other
Extraction protocol CD45+ and tumors (GFP+) were sorted from lungs digested into a singlce cell suspension. Single cells were encapsulated in gel-beads=in emulsion using the 10x controller with a chromium single cell 5'GEM library and gel bead kit
ECCITE-seq and hashing protocol described by Stoeckius et al, Mimitou et al, Buus et al was used to generate an antibody-derived tag(ADT/hashtag oligo (HTO) library, a 5' gene expression library, and a VDJ-TCR library
 
Library strategy OTHER
Library source other
Library selection other
Instrument model Illumina HiSeq 4000
 
Data processing Cellranger v6.0.1 count and aggr functions to aggregate reads across sequncing lanes into a single set of barcodes.tsv.gz, features.tsv gz and matrix.mtx.gz
Supplementary files format and content: Cell Ranger output files
Library strategy: ECCITE-seq
 
Submission date Jul 17, 2023
Last update date Apr 03, 2024
Contact name Alireza Khodadadi-Jamayran
Organization name New York University, NYU Langone Medical Center
Department Division of Advanced Research Technologies (DART)
Lab Applied Bioinformatics Laboratories (ABL)
Street address 550 1st Ave, MSB 304
City New York City
State/province NY
ZIP/Postal code 10016
Country USA
 
Platform ID GPL21103
Series (1)
GSE237592 Glutamine antagonist DRP-104 suppresses tumor growth and enhances response to checkpoint blockade in KEAP1 mutant lung cancer
Relations
BioSample SAMN36505351
SRA SRX21051572

Supplementary file Size Download File type/resource
GSM7634472_G2_barcodes.tsv.gz 115.6 Kb (ftp)(http) TSV
GSM7634472_G2_features.tsv.gz 284.4 Kb (ftp)(http) TSV
GSM7634472_G2_filtered_contig_annotations.csv.gz 146.4 Kb (ftp)(http) CSV
GSM7634472_G2_matrix.mtx.gz 104.2 Mb (ftp)(http) MTX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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