|
| Status |
Public on Mar 22, 2022 |
| Title |
miRNA-Seq Patient 4 Mig |
| Sample type |
SRA |
| |
|
| Source name |
CLL Cells
|
| Organism |
Homo sapiens |
| Characteristics |
condition: Migrating CLL cells
patient source: 4
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the RNeasy Micro Kit
SMARTer smRNA-Seq Kit for Illumina
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Processed data column name: TB53
|
| Data processing |
Sequenced reads were trimmed for adaptor sequences using cutadapt v2.1 with a command based on the kit manufacturers’ recommendations (cutadapt -m 15 -u 3 --max-n 0.9 -a AAAAAAAAAA)
miRNA counts were obtained using MiRDeep2 and miRNAs obtained from miRBase v22.1
Raw count count data was processed and analysed for differential expression using DESeq2
Assembly: GRCh38
Supplementary files format and content: Tab-delimited text file. Matrix table with raw miRNA counts for every miRNA and every sample
|
| |
|
| Submission date |
Mar 11, 2022 |
| Last update date |
Aug 31, 2022 |
| Contact name |
Chris Pepper |
| E-mail(s) |
[email protected]
|
| Phone |
+ 44 (0)1273 678644
|
| Organization name |
University of Sussex
|
| Department |
Brighton and Sussex Medical School
|
| Street address |
Falmer
|
| City |
BRIGHTON |
| ZIP/Postal code |
BN1 9PX |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE198453 |
Elucidation of focal adhesion kinase as a modulator of migration and invasion and as a potential therapeutic target in chronic lymphocytic leukemia (miRNA-Seq) |
| GSE198456 |
Elucidation of focal adhesion kinase as a modulator of migration and invasion and as a potential therapeutic target in chronic lymphocytic leukemia |
|
| Relations |
| BioSample |
SAMN26583884 |
| SRA |
SRX14439367 |
