|
| Status |
Public on Jun 14, 2023 |
| Title |
miRNA_43_T1 |
| Sample type |
SRA |
| |
|
| Source name |
Male - ICU
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: COVID-19
Sex: Male
tissue: Blood
visit: T1
outcome: ICU
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Small RNA libraries were prepared from 400ng of high-quality total RNA using the NEBNext Multiplex Small RNA Library Prep Set for Illumina
The library size distribution was checked using a 2100 Bioanalyzer instrument to ensure correct size amplicons are selected for sequencing.
ndividual libraries were quantified, and equimolar quantities of each library pooled and sequenced on an S1 flow cell using a NovaSeq instrument
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Male - ICU
43_S53
|
| Data processing |
Poor quality reads/bases or technical sequences such as adapters are removed from the paired end reads using Trimmomatic v0.32
Trimmed reads were further processed with the FASTX Toolkit v0.0.14 to filter out reads with tail quality < 15 nucleotides and retain reads of 16-25 nucleotides length for downstream analyses.
High-quality reads were subject to small RNAs annotation and quantification using the online tool OASIS
Assembly: Grch38
|
| |
|
| Submission date |
Dec 05, 2022 |
| Last update date |
Jun 14, 2023 |
| Contact name |
Youssef Idaghdour |
| E-mail(s) |
youssef.idaghdour@nyu.edu
|
| Organization name |
NYUAD
|
| Department |
Biology
|
| Lab |
Division of Science and Mathematics
|
| Street address |
Saadiyat Marina District
|
| City |
Abu dhabi |
| State/province |
Abu dhabi |
| ZIP/Postal code |
129188 |
| Country |
United Arab Emirates |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE220077 |
Associations of miRNAs with blood phenotypes and ICU admission in COVID-19 patients [miRNA-seq] |
| GSE220078 |
Associations of miRNAs with blood phenotypes and ICU admission in COVID-19 patients |
|
| Relations |
| BioSample |
SAMN32041031 |
| SRA |
SRX18491304 |
