Ryan K. Dale, Ph.D.,M.S.
Bioinformatics and Scientific Programming Core
In biomedical research programs, analyses involving bioinformatics (the combination of computer science, software engineering, statistics, mathematics, and biology) are increasingly common. However, a corresponding increase in bioinformatics and computational training from undergraduate through post-graduate levels has not yet caught up with this demand. We aim to fill this gap by collaborating closely with researchers to understand the nuances of their research, identify and perform the most appropriate analysis, and stay involved through each stage of scientific research. This often includes modifying existing tools or building custom software to fit each unique research question. Additionally, we train and guide individuals at all career levels to become more fluent and self-sufficient in computational work with the larger goal of boosting bioinformatics capacity across the institute.
In NICHD's Bioinformatics and Scientific Programming Core, we develop new software tools, improve existing tools, build pipelines, and apply them in collaborations across a wide range of topics. This includes, but is not limited to, analyzing high-throughput sequencing experiments of all kinds, building websites to integrate and visualize published data, developing algorithms to assist with wet lab assays (CRISPR/Cas9 mutagenesis, for example), and applying machine learning and image processing techniques. Bioinformatics tools change rapidly over time, so in addition to performing analyses we build infrastructure for recording, tracking, and reproducing computational environments to ensure long-term support of research software.
Dr. Ryan Dale is a Senior Scientist at NICHD in the role of Scientific Information Officer for the institute, providing bioinformatics support and collaboration as well as scientific IT support across NICHD’s intramural research program. Dr. Dale received his B.S. in Biology from The College of New Jersey, M.S. in Oceanography from the University of Delaware, and Ph.D. in Marine Biology and Biochemistry from the University of Delaware. At each step he learned, built, and applied computational tools for his research, developing broad experience across multiple disciplines. In 2009 he became the bioinformatician for a group of 6 developmental biology labs in NIDDK. For eight years there he led the bioinformatics work within various research programs related to gene regulation throughout development in multiple model organisms. He also authored bioinformatics software tools that have been downloaded tens of thousands of times, and has been a regular contributor to many open source research software packages. In 2018 he joined NICHD as Scientific Information Officer to lead and coordinate bioinformatics work across NICHD.
Chen D, Dale RK, Lei EP. Shep regulates Drosophila neuronal remodeling by controlling transcription of its chromatin targets. Development. 2018;145(1).
Nazer E, Dale RK, Chinen M, Radmanesh B, Lei EP. Argonaute2 and LaminB modulate gene expression by controlling chromatin topology. PLoS Genet. 2018;14(3):e1007276.
Lee J, Krivega I, Dale RK, Dean A. The LDB1 Complex Co-opts CTCF for Erythroid Lineage-Specific Long-Range Enhancer Interactions. Cell Rep. 2017;19(12):2490-2502.
Dale RK, Matzat LH, Lei EP. metaseq: a Python package for integrative genome-wide analysis reveals relationships between chromatin insulators and associated nuclear mRNA. Nucleic Acids Res. 2014;42(14):9158-70.
Related Scientific Focus Areas
Genetics and Genomics
This page was last updated on November 4th, 2020