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| Status |
Public on May 10, 2024 |
| Title |
Control, replicate 2, scRNAseq |
| Sample type |
SRA |
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| Source name |
Tumor
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| Organism |
Mus musculus |
| Characteristics |
cell type: Cancer cells
tissue: Tumor
strain: C57Bl6
age: 6-8 weeks old
treatment: Control
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| Extracted molecule |
total RNA |
| Extraction protocol |
Library was performed according to the manufacter’s instructions (single cell 3’ v2 protocol, 10x Genomics). Briefly, GCs were resuspended in the master mix and loaded together with partitioning oil and gel beads into the chip to generate the gel bead-in-emulsion (GEM). The poly-A RNA from the cell lysate contained in every single GEM was retrotranscripted to cDNA, which contains an Ilumina R1 primer sequence, Unique Molecular Identifier (UMI) and the 10x Barcode. The pooled barcoded cDNA was then cleaned up with Silane DynaBeads, amplified by PCR and the apropiated sized fragments were selected with SPRIselect reagent for subsequent library construction. During the library construction Ilumina R2 primer sequence, paired-end constructs with P5 and P7 sequences and a sample index were added.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Description |
10x Genomics
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| Data processing |
The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v2.1.1 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
Assembly: mm10
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| Submission date |
Apr 28, 2023 |
| Last update date |
May 10, 2024 |
| Contact name |
Jing Wen |
| E-mail(s) |
JingWen@mednet.ucla.edu
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| Organization name |
UCLA
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| Street address |
405 Hilgard Avenue
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| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
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| Platform ID |
GPL19057 |
| Series (1) |
| GSE230896 |
Multifunctional Enzyme Nanocapsules Boost T Cell Immunity and Multifunctional Enzyme Nanocapsules Boost T Cell Immunity and Efficacy of Cancer Immunotherapy |
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| Relations |
| BioSample |
SAMN34424461 |
| SRA |
SRX20140683 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7246661_N2_barcodes.tsv.gz |
2.1 Mb |
(ftp)(http) |
TSV |
| GSM7246661_N2_features.tsv.gz |
254.1 Kb |
(ftp)(http) |
TSV |
| GSM7246661_N2_matrix.mtx.gz |
69.6 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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