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| Status |
Public on May 08, 2024 |
| Title |
3D_IP_IV_AM, scRNAseq |
| Sample type |
SRA |
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| Source name |
Lung
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| Organism |
Mus musculus |
| Characteristics |
cell type: Alveolar Macrophage
tissue: Lung
strain: C57BL/6J Cx3Cr1/-
age: 6-8 weeks old
treatment: 3 day post Schistosoma IV challenge
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Freshly collected alveolar macrophge from Cx3cr1+/GFP reporter mice used for single cell RNA sequence.
Library was performed according to the manufacter’s instructions (single cell 3’ v2 protocol, 10x Genomics).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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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 v6 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
Assembly: GRCm39 v.104
Supplementary files format and content: Tab-separated values files (Combined) unfilterd raw read counts and normalized filterd read counts
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| Submission date |
Mar 26, 2024 |
| Last update date |
May 08, 2024 |
| Contact name |
Rahul Kumar |
| E-mail(s) |
rahul.kumar2@ucsf.edu
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| Organization name |
University of California, San Francisco, USA
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| Department |
Medicine
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| Lab |
Graham Lab
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| Street address |
1001 Potrero Ave, Rm.5K1
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| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94110 |
| Country |
USA |
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| Platform ID |
GPL24247 |
| Series (1) |
| GSE262466 |
Alveolar Macrophage Phenotypes in Schistosoma-Induced Pulmonary Hypertension |
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| Relations |
| BioSample |
SAMN40617366 |
| SRA |
SRX24062168 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM8170134_D3_IP_AM_filtered_feature_bc_matrix.tar.gz |
53.6 Mb |
(ftp)(http) |
TAR |
SRA Run Selector |
| Raw data are available in SRA |
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