Prostatic Hyperplasia study with RNA-Seq data on dbGaP (6 participants)

phs003477 — BPH Tissues for Cell Culture and Analysis - Spatial Transcriptomics    Identifies Candidate Stromal Drivers of Benign Prostatic Hyperplasia

<p>The study goal was to apply spatial transcriptomics to identify candidate stromal drivers of benign prostatic hyperplasia (BPH). Laser microdissection (LCM) with RNA-seq of the stroma adjacent to hyperplastic and budding BPH ducts identified secreted factors including <a href="https://www.ncbi.nlm.nih.gov/gene/?term=3479">IGF1</a> and <a href="https://www.ncbi.nlm.nih.gov/gene/?term=2921">CXCL13</a>. Single‐cell RNA sequencing (scRNA‐seq) revealed their co-expression from BPH fibroblasts. Additional studies sought to define similarities to embryonic prostate development, as well as therapeutic applications. Subjects were those who underwent prostatectomy for prostate or bladder cancer, with concurrent BPH, and who consented to use of surplus tissue for research studies. LCM/RNA-seq studies included 5 patients, and scRNA-seq studies included 1 patient. Phenotypic data submitted to this study include patient age, sex, prostate size, and international prostate symptom score (IPSS). Sequencing was done on an Illumina NovaSeq 6000 (LCM/RNAseq) and Illumina HiSeq X-Ten (scRNA-seq). The data processing pipeline utilized Kallisto (LCM/RNA-seq) and Cell Ranger (scRNA-seq). Data submitted are raw sequencing (Fastq) files.</p>