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| Status |
Public on Oct 23, 2021 |
| Title |
Mock 2 |
| Sample type |
SRA |
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| Source name |
lung
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| Organism |
Mus musculus |
| Characteristics |
tissue: lung
treatment: PBS (uninfected)
timepoint: Day 4 p.i.
age: 10 weeks of age
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| Extracted molecule |
total RNA |
| Extraction protocol |
GEMS were captured on a 10x Chromium Controller using the Chromium NextGEM Single Cell Gel bead kit according to manufacturer's instruction
Chromium NextGEM Single Cell 5′ Library, according to manufacturer's instructions.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Base-calling done at RTA v3.4.4
cellranger mkfastq used to demultiplex raw base call (BCL) files generated by Illumina sequencer into FASTQ files
cellranger count used to perform alignment, filtering, barcode counting, and UMI counting (provided BAM files and processed count matrices)
Genome_build: Mouse reference, mm10 (GENCODE vM23/Ensembl 98)
Supplementary_files_format_and_content: Filtered feature-barcode matrices containing only cellular barcodes in MEX format produced from cellranger count
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| Submission date |
Oct 21, 2021 |
| Last update date |
Oct 24, 2021 |
| Contact name |
Mehul Suthar |
| Organization name |
Emory University School of Medicine
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| Department |
Department of Pediatrics
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| Street address |
2015 Uppergate Dr
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| City |
Atlanta |
| State/province |
GA |
| ZIP/Postal code |
30322 |
| Country |
USA |
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| Platform ID |
GPL24247 |
| Series (1) |
| GSE186360 |
CCR2-dependent monocyte-derived cells restrict SARS-CoV-2 infection |
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| Relations |
| BioSample |
SAMN22487490 |
| SRA |
SRX12729094 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM5646449_2barcodes.tsv.gz |
14.8 Kb |
(ftp)(http) |
TSV |
| GSM5646449_2features.tsv.gz |
284.1 Kb |
(ftp)(http) |
TSV |
| GSM5646449_2matrix.mtx.gz |
12.7 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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