Subject	Genetics, Genomics and Molecular Biology
Specific subject area	Mice transcriptomics (RNA-Seq)
Type of data	Transcriptome sequences Reads, Tables, and Figures.
How data were acquired	Sequencing RNA from the choroid and retinal tissues of CXCR5-deficient and WT control mice 24 months of age.
Data format	Raw (FASTQ) and analyzed (Tables)
Parameters for data collection	The [B6.129S2(Cg)-CXCR5tm1Lipp/J] (CXCR5 KO) and [C57BL/6J] (WT) mice strains were purchased from Jackson Laboratory. B6.129S2(Cg)-CXCR5tm1Lipp/J. All mice were fed standard chow diets and provided with water ad libitum. Mice were sacrificed at 24 months of age. RPE/choroid and retinal tissues were isolated from C57BL6 WT mice and CXCR5 KO mice and used for total RNA extraction, cDNA library preparation, and sequencing.
Description of data collection	The transcriptome dataset was collected from paired-end sequencing of mice cDNA libraries using Illumina HiSeq 2500 platform with 15 million paired 50 bp reads were obtained per sample. The raw reads were recorded in a FastQ file. Raw reads were filtered to remove reads containing adapter or reads of low quality, and clean reads were mapped to reference genome mouse (mm10). Total mapped reads and the number of transcripts were estimated from transcript assembly with a threshold of FPKM ≥ 0.2.
Data source location	University of Missouri School of Medicine, Mason Eye Institute, Ophthalmology, Columbia, Missouri-65201, USA.
Data accessibility	Repository name: NCBI Sequence Read Archive (SRA) Data identification number: PRJNA588421 Direct URL to data: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA588421