|
| Status |
Public on Jul 01, 2019 |
| Title |
HI.3965.006.RPI11.18-1_R1 |
| Sample type |
SRA |
| |
|
| Source name |
Plasma
|
| Organism |
Homo sapiens |
| Characteristics |
subject id: 18
time: Pre_Low
diet: Baseline
tissue: plasma
age: >70 years
Sex: male
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Plasma/Serum RNA Purification Kit using Norgen Biotek (Cat#55000)
a standard library preparation workflow using Norgen's Small RNA Library Prep Kit for Illumina (Cat# 63600). Six microliter of each RNA sample was used as input. The workflow includes the following steps in sequence - 3' adapter ligation, 5' adapter ligation, reverse transcription/cDNA synthesis and then the indexing PCR. The final library is then subjected to column clean-up before resolving on a 6% TBE PAGE gel for size selection. The target band (~141-144 bp) is then excised from PAGE gel and purified
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
miRNA
|
| Data processing |
Cutadapt - 3’ adapter sequences removed, aligning the reads to miRBase (version21), reads are tallied to generate total counts for each miRNA, statistical significance (p-value) between 2 or more samples is calculated to generate differential expression profiles
Genome_build: miRBase (version21)
Supplementary_files_format_and_content: 58_samples_Readcount.tab- Readcounts of all samples for differential expression
|
| |
|
| Submission date |
Feb 23, 2018 |
| Last update date |
Jul 01, 2019 |
| Contact name |
FARHA RAMZAN |
| E-mail(s) |
f.ramzan@auckland.ac.nz
|
| Phone |
0224505345
|
| Organization name |
University of Auckland
|
| Department |
Liggins Institute
|
| Street address |
85 Park road
|
| City |
Grafton |
| State/province |
AUCKLAND |
| ZIP/Postal code |
1023 |
| Country |
New Zealand |
| |
|
| Platform ID |
GPL20301 |
| Series (1) |
| GSE111063 |
High-throughput sequencing of plasma microRNA in elderly men fed a high protein diet in relation to the PBMC transcriptome: A 10 week randomized controlled trial |
|
| Relations |
| BioSample |
SAMN08595637 |
| SRA |
SRX3738909 |
