ROP: dumpster diving in RNA-sequencing to find the source of 1 trillion reads across diverse adult human tissues.

High-throughput RNA-sequencing (RNA-seq) technologies provide an unprecedented opportunity to explore the individual transcriptome. Unmapped reads are a large and often overlooked output of standard RNA-seq analyses. Here, we present Read Origin Protocol (ROP), a tool for discovering the source of all reads originating from complex RNA molecules. We apply ROP to samples across 2630 individuals from 54 diverse human tissues. Our approach can account for 99.9% of 1 trillion reads of various read length. Additionally, we use ROP to investigate the functional mechanisms underlying connections between the immune system, microbiome, and disease. ROP is freely available at https://github.com/smangul1/rop/wiki

Differential enzymatic activity of common haplotypic versions of the human acidic Mammalian chitinase protein

FWN – Publicaties zonder aanstelling Universiteit Leide

Fine-Scale Mapping of the 5q11.2 Breast Cancer Locus Reveals at Least Three Independent Risk Variants Regulating MAP3K1

Peer reviewe

MicroRNA Related Polymorphisms and Breast Cancer Risk

Peer reviewe

Expression and function of the ectopic olfactory receptor OR10G7 in patients with atopic dermatitis

10.1016/j.jaci.2018.11.004Journal of Allergy and Clinical Immunology14351838 - 1848JACI