|
| Status |
Public on Apr 07, 2022 |
| Title |
Animal3917-Array-6 |
| Sample type |
SRA |
| |
|
| Source name |
Lung Tuberculosis Granuloma
|
| Organism |
Macaca fascicularis |
| Characteristics |
tissue: Lung Tuberculosis Granuloma
infection: Mycobacterium tuberculosis
time: 10weeks post-infection
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Individual granulomas were enzymatically dissociated using the gentleMACS dissociator system.
Single-cell suspensions were loaded onto Seq-Well arrays and processed as according to Gierahn et al., Nature Methods (2017).
scRNA-seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
| |
|
| Description |
Seq-Well
10Week_countsmatrix.mtx
10Week_countsfeatures.tsv
10Week_countsbarcodes.tsv
Updated10wk_alexandria_structured_metadata10.txt
|
| Data processing |
Cell barcode and UMI tagging of transcript reads was performed using DropSeqTools v1.12 (Macosko et al., 2015)
Assembly: Macaca_fascicularis_5.0
Supplementary files format and content: Tab-separated values files and matrix files
|
| |
|
| Submission date |
Apr 04, 2022 |
| Last update date |
Apr 08, 2022 |
| Contact name |
Constantine Nicholas Tzouanas |
| Organization name |
Massachusetts Institute of Technology
|
| Department |
Harvard-MIT Health Sciences and Technology
|
| Lab |
Shalek Lab
|
| Street address |
45 Carleton St
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
| |
|
| Platform ID |
GPL27448 |
| Series (1) |
| GSE200151 |
Multimodal profiling of lung granulomas in macaques reveals cellular correlates of tuberculosis control |
|
| Relations |
| BioSample |
SAMN27294478 |
| SRA |
SRX14736561 |
