|
| Status |
Public on Aug 30, 2023 |
| Title |
HZ_21 |
| Sample type |
SRA |
| |
|
| Source name |
snap-frozen rat brain
|
| Organism |
Rattus norvegicus |
| Characteristics |
group: B
cocaine withdrawal: 16-hr
brain region: Nucleus Accumbens
rna integrity number: 9.1
|
| 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 |
heterogeneous stock (HS) rat
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.
Assembly: mRatBN7.2/rn7
Supplementary files format and content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Sep 03, 2022 |
| Last update date |
Aug 30, 2023 |
| Contact name |
Huiping Zhang |
| E-mail(s) |
[email protected]
|
| Organization name |
Boston University
|
| Street address |
72 East Concord Street
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02118 |
| Country |
USA |
| |
|
| Platform ID |
GPL18694 |
| Series (1) |
| GSE212651 |
Abstinence from Escalation of Cocaine Intake Changes the microRNA Landscape in the Cortico-Accumbal Pathway |
|
| Relations |
| BioSample |
SAMN30660490 |
| SRA |
SRX17416820 |
