|
| Status |
Public on Aug 29, 2014 |
| Title |
female ethanol non-enriched amygdala replicate 2 [miRNA-seq] |
| Sample type |
SRA |
| |
|
| Source name |
female ethanol non-enriched amygdala
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain background: Long Evans
age: postnatal day 42
gender: female
brain region: Amygdala
prenatal exposure: Ethanol
postnatal social treatment: Non-enriched
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen total RNA
Illumna TruSeq Small RNA library preparation
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina MiSeq |
| |
|
| Description |
gene expression data from the brains of postnatal day 42 Long Evans rats that were exposed in utero to ethanol or saline and exposed postnatally to normal or enriched social environment
fena_74
|
| Data processing |
Partek Flow software was used for trimming, alignment and quantification
Reads were trimmed using a minimum phred score of 20
Reads were aligned using the Bowtie algorithm to the rat Rn5 genome
Quantified using miRBase 21 annotations for both precursor and mature miRNAs
Read counts converted to Reads per million (RPM) for each sample
Genome_build: Rn5
Supplementary_files_format_and_content: miRNA Reads per million (RPM) normalized counts for precursor and mature miRNAs
|
| |
|
| Submission date |
Aug 28, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Frank A Middleton |
| E-mail(s) |
[email protected]
|
| Phone |
315-464-7721
|
| Organization name |
SUNY Upstate Medical Univ
|
| Department |
Neuroscience and Physiology
|
| Street address |
505 Irving Avenue
|
| City |
Syracuse |
| State/province |
NY |
| ZIP/Postal code |
13210 |
| Country |
USA |
| |
|
| Platform ID |
GPL19052 |
| Series (2) |
| GSE60900 |
Effects of acute prenatal exposure to ethanol on microRNA expression are ameliorated by environmental manipulation |
| GSE60901 |
Comparison of small RNA-seq and microarray analysis for determining the effects of acute prenatal ethanol exposure on microRNA expression and its amelioration by environmental manipulation |
|
| Relations |
| BioSample |
SAMN03013015 |
| SRA |
SRX689443 |
