RNA-Seq data on prefrontal cortex in valproic acid model of autism and control rats

Abstract

The transcriptome sequencing data of valproic acid (VPA) model of autism and control rats are presented. VPA model of autism was induced by a single intraperitoneal injection of 600 mg/kg sodium valproic acid to female rats at day 12.5 post-conception, and the control rats were injected with saline. Male offspring of VPA- or saline-injected dams from different litters were sacrificed on PND 35 (n = three rats/three litters/group). Prefrontal cortex was dissected from both hemispheres, and RNA was isolated. Libraries were prepared and RNA Sequencing (RNA-Seq) was performed following Illumina's recommendations. Samples are described in the SRA portal (SRP115258) and FASTQ files have been deposited in Sequence Read Archive (accession numbers: SRR5950172 to SRR5950177). The interpretation of these data is presented in the following research article: “Transcriptional and splicing dysregulation in prefrontal cortex of valproic acid induced rat models of autism” (Zhang et al., 2018) [1].

Specifications Table

Subject area	Biology
More specific subject area	Neurobiology
Type of data	Sequence data
How data was acquired	High throughput RNA sequencing
Data format	FASTQ files
Experimental factors	Valproic acid (VPA) exposure in pregnant female rats
Experimental features	VPA model of autism was induced by giving a single intraperitoneal injection of 600 mg/kg sodium VPA to female rats at day 12.5 post-conception, and the control rats were injected with saline.
Data source location	Xi’an, China
Data accessibility	Sample description has been deposited in the BioSample Submission Portal as Bioproject PRJNA397961and full data sets have been submitted to NCBI Sequence Read Archive (SRA,https://www.ncbi.nlm.nih.gov/sra) under accession numbersSRR5950172toSRR5950177. Data are publicly available.

Value of the data

• •These data reflect the whole transcriptome of prefrontal cortex from VPA rat model of autism.
• •The data could help to understand that VPA affects brain transcriptional and splicing events genome-wide.
• •The data can be used to gain insight into gene-environmental interaction in autism.

1. Data

Data provided in this article correspond to the FASTQ files obtained after RNA sequencing of prefrontal cortex from VPA induced model of autism and control rats.

2. Experimental design, materials and methods

2.1. Experimental groups and sampling

Experimental groups and sampling as previously described [1]. Female Sprague-Dawley (SD) rats received a single intraperitoneal injection of 600 mg/kg VPA (250 mg/ml in saline, Sigma, Oakville, CA) or saline on day 12.5 post-conception. Then, the female rats were housed individually, and offspring were weaned on postnatal day (PND) 23 and separated by sex. Male offspring of VPA- or saline-injected dams from different litters were sacrificed on PND 35 (n = three rats/three litters/group). Dissected brain tissues were collected and frozen at − 80 °C until use.

2.2. RNA sequencing

RNA samples were sequenced on an Illumina Hiseq. 2000 platform (Illumina, San Diego, CA) according to the manufacturer's instructions. In brief, sequencing libraries were generated using NEBNext® Ultra™ Directional RNA Library Prep Kit for Illumina® (NEB, Ipswich, MA), and the clustering of the index-coded samples was performed on a cBot Cluster Generation System using TruSeq PE Cluster Kit v3-cBot-HS (Illumina, San Diego, CA) following manufacturer's recommendations. Then, all 6 library preparations were sequenced and 100 bp paired-end reads were generated. The full data sets have been submitted to NCBI Sequence Read Archive (SRA) under Accession.

Transparency document. Supplementary material

Supplementary material