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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 20, 2019 |
| Title |
S_Tp_Mp_Microg_2 |
| Sample type |
SRA |
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| Source name |
Microglia Slices
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| Organism |
Homo sapiens |
| Characteristics |
tissue: Microglia
barcode: BC08
batch_id: Batch3
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| Extracted molecule |
total RNA |
| Extraction protocol |
Astrocytes were extracted by HepaCAM-Immunopanning
Library was constructed by Nanopore cDNA sequencing Kit, SQK-PCS109
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
MinION |
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| Description |
BC08_Batch3
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| Data processing |
Basecalling by Albacore 2.0.1, Quality Control, Identification of Barcoded Samples by PoreChop
Alignment by MiniMap2
Nanopore Pipeline (www.github.com/heilandd/)
Postprocessing by DESeq2 and AutoPipe (Cran)
Genome_build: GRch38
Supplementary_files_format_and_content: tab-delimited text files of counts per barcode
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| Submission date |
Mar 19, 2019 |
| Last update date |
Mar 20, 2019 |
| Contact name |
Dieter Henrik Heiland |
| E-mail(s) |
[email protected]
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| Organization name |
Medical Center Freiburg
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| Department |
Department of Neurosurgery
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| Street address |
Breisacherstr. 64
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| City |
Freiburg |
| ZIP/Postal code |
79106 |
| Country |
Germany |
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| Platform ID |
GPL24106 |
| Series (1) |
| GSE128536 |
Tumor-associated Reactive Astrocytes Aid the Evolution of Immunosuppressive Environment in Glioblastoma |
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| Relations |
| BioSample |
SAMN11166322 |
| SRA |
SRX5543193 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM3679160_BC08_Batch3_readcount.txt.gz |
1.2 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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