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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Nov 06, 2024 |
| Title |
Rich 3 |
| Sample type |
SRA |
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| Source name |
Distal lung tissue
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| Organism |
Homo sapiens |
| Characteristics |
tissue: Distal lung tissue
disease state: COPD explant
Sex: Female
age: 56
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| Extracted molecule |
total RNA |
| Extraction protocol |
Each lung sample was digested in an enzymatic cocktail (Miltenyi Multi Tissue Dissociation Kit 1) using a gentleMACS Octo Dissociator (Miltenyi, Inc.). Tissue homogenates were serial filtered through sterile gauze, then 100 μm, and 40-μm sterile cell strainers. Single-cell suspensions then were treated with ACK buffer to lyse blood cells and then underwent cell sorting using EPCAM magnetic bead based selection. The EPCAM enriched fraction was used as the input for the single cell libraries.
Followed manufacturer insructions for Single Cell 5' PE kit (10x Genomics) Sequenced by VANTAGE at VUMC
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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 |
Cellranger version-6.1.2
Assembly: GRCh38-2020-A
Supplementary files format and content: TSV and Matrix; barcodes, features, and matrix
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| Submission date |
Jun 07, 2024 |
| Last update date |
Nov 06, 2024 |
| Contact name |
Jessica Blackburn |
| E-mail(s) |
[email protected]
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| Organization name |
VUMC
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| Street address |
1611 21st Ave MCN
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| City |
Nashville |
| ZIP/Postal code |
37232 |
| Country |
USA |
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| Platform ID |
GPL24676 |
| Series (1) |
| GSE269390 |
A single-cell RNA sequencing atlas of the COPD distal lung to predict cell-cell communication |
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| Relations |
| BioSample |
SAMN41749954 |
| SRA |
SRX24841616 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM8314260_7684-BR-3barcodes.tsv.gz |
64.9 Kb |
(ftp)(http) |
TSV |
| GSM8314260_7684-BR-3features.tsv.gz |
325.6 Kb |
(ftp)(http) |
TSV |
| GSM8314260_7684-BR-3matrix.mtx.gz |
96.8 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
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