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| Status |
Public on Oct 10, 2022 |
| Title |
Human meningoma, QM116 |
| Sample type |
SRA |
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| Source name |
Meningioma
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| Organism |
Homo sapiens |
| Characteristics |
tissue: Meningioma
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| Extracted molecule |
total RNA |
| Extraction protocol |
Frozen meningiomas were mechanically lysed using a TissueLyser II (QIAGEN) according to the manufacturer’s instructions. RNA were extracted from lysed tissue using the AllPrep DNA/RNA/miRNA Universal Kit (#80224, QIAGEN). RNA quality were initially assessed using a NanoDrop One (Thermo Fisher Scientific). RNA samples with 260/280 values less than 1.8 or 260/230 values less than 1.6 were cleaned using the RNA Cleanup protocol from the RNeasy Mini Kit (#74106, QIAGEN).
library preparation was performed using the TruSeq Standard mRNA Kit (#20020595, Illumina)
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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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| Data processing |
Transcript quantification was performed with Kallisto (v0.46.2)
Assembly: GRCh38.96.gtf
Supplementary files format and content: TSV files containing abundance outputs from Kallisto, including estimated counts and TPM
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| Submission date |
Sep 04, 2022 |
| Last update date |
Nov 15, 2022 |
| Contact name |
William Chen |
| Organization name |
UCSF
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| Street address |
1450 3rd Street, HD 402
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| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94158 |
| Country |
USA |
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| Platform ID |
GPL24676 |
| Series (1) |
| GSE212666 |
Hypermitotic meningiomas harbor DNA methylation subgroups with distinct biological and clinical features |
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| Relations |
| BioSample |
SAMN30670222 |
| SRA |
SRX17420666 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6542997_Output_QM116.tar.gz |
4.0 Mb |
(ftp)(http) |
TAR |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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