|
| Status |
Public on Oct 13, 2021 |
| Title |
Subject_17_Control ; Human postmortem ventral tegmental area |
| Sample type |
SRA |
| |
|
| Source name |
Subject_17_Control
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Human postmortem ventral tegmental area
aud status: Control
alcoholdailyuse(gram/day): 4
Sex: Male
batch: 1
rin: 7.2
brainweight: 1724
brainph: 6.93
pmi: 59
leftrightbrain: Right
causeofdeathcategory: Vascular
smoking: Ex_smoker
liverclass: Normal
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with the Trizol reagent using the QIAGEN RNeasy mini kit and followed by clean-up and DNase I treatment in accordance with the prescribed protocol provided with the kit. Quality control was performed with the Agilent Bioanalyzer System.
Small RNA-seq libraries were generated using the NEBNext Multiplex Small RNA Library Prep Set for Illumina (Set 1) (NEB, Ipswich, MA, USA) with 250 ng of total RNAs.
RNA libraries were prepared for sequencing using the protocol for use with NEBNext Small RNA Library Prep Set for Illumina
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
miRNA transcriptome data
|
| Data processing |
The Comprehensive Analysis Pipeline for miRNA Sequencing Data (CAP-miRseq) workflow [BMC Genomics. 2014; 15:423] was used for raw reads (in fastq files) pre-processing, alignment, mature/precursor/novel miRNA qualification and prediction.
Genome_build: hg19
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Aug 05, 2021 |
| Last update date |
Oct 13, 2021 |
| Contact name |
Huiping Zhang |
| E-mail(s) |
[email protected]
|
| Phone |
6173583689
|
| Organization name |
Boston University School of Medicine
|
| Department |
Psychiatry
|
| Street address |
72 East Concord Street
|
| City |
Boston |
| State/province |
Massachusetts |
| ZIP/Postal code |
02118 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (2) |
| GSE181520 |
Profiling of miRNA transcriptomic changes using small RNA-seq in 8 regions of postmortem brains of subjects with alcohol use disorder |
| GSE181982 |
Profiling of transcriptomic changes using seq in postmortem brains of subjects with alcohol use disorder |
|
| Relations |
| BioSample |
SAMN20593387 |
| SRA |
SRX11657007 |
