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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jan 03, 2024 |
| Title |
M42 |
| Sample type |
SRA |
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| Source name |
Muscle
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| Organism |
Homo sapiens |
| Characteristics |
tissue: Muscle
age: 79
Sex: female
disease: Stomach cancer
caco: 1
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| Treatment protocol |
NA
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| Growth protocol |
NA
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| Extracted molecule |
total RNA |
| Extraction protocol |
Standard phenol-chloroform method.
NEBNext Multiplex Small RNA Library Prep Set for Illumina (Protocol E7330, New England BioLabs Inc., USA).
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| Library strategy |
ncRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
NextSeq 550 |
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| Description |
lib4
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| Data processing |
Adapter removal (cutadapt).
Alignment (bwa).
Alignment filtering (custom script).
Sample merging into raw count table.
Assembly: miRBase 22
Supplementary files format and content: *_clean_raw_counts.tsv: Tab-delimited text file includes raw (unnormalized) sncRNA expression counts.
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| Submission date |
Aug 04, 2022 |
| Last update date |
Jan 03, 2024 |
| Contact name |
Giovanni Birolo |
| E-mail(s) |
giovanni.birolo@unito.it
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| Organization name |
University of Turin
|
| Department |
Medical Sciences
|
| Street address |
Via Santena 19
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| City |
Torino |
| State/province |
TO |
| ZIP/Postal code |
10126 |
| Country |
Italy |
| |
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| Platform ID |
GPL21697 |
| Series (1) |
| GSE210546 |
Skeletal muscle and plasma microRNA profiling among patients with gastrointestinal cancer |
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| Relations |
| BioSample |
SAMN30153185 |
| SRA |
SRX16847031 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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