Venkat Malladi, M.S.
BICF Core Director
Venkat Malladi is a computational biologist and software engineer with expertise in high-throughput sequencing analysis and reproducible software development. He is currently working on implementing and distribution of genomic analysis pipelines to facilitate reproducibility. He directs the daily operations for the BICF and works with collaborators to identify appropriate data and analysis and provide biological context to results obtained.
Link to Publications
Spencer Barnes, M.S.
Computational Biologist I
Spencer Barnes is a Computational Biologist specializing in NGS data analysis such as RNA-Seq, ChIP-Seq, and ATAC-Seq. He is currently working on epigenomics projects as well as assisting with incoming requests from the Help Desk.
Jon Gesell, M.S.
Computational Biologist II
Jon Gesell is a Computational Biologist, with extensive experience in next-generation sequence (NGS) analysis in genomics, metagenomics, microbiome and transcriptomics pipelines and specializing in pipeline development and optimization. He is currently working on optimizing and adding to the metagenomic and 16S pipelines, as well as handling sequence and RNA-seq analysis requests.
Holly Ruess, M.S.
Holly Ruess is a Computational Scientist specializing in NGS data analysis such as RNA-Seq, ChIP-Seq, and ATAC-Seq. She is currently assisting with incoming requests from the Help Desk.
Brandi Cantarel, Ph.D.
Dr. Cantarel is an expert in high-throughput sequence analysis including WGS/WES, RNA-seq, Methyl-seq, metagenomics and the integration of data. Her technical skills include: a) methods and pipeline development for complex data analysis, b) custom database development, and c) web development for data exploration and visualization. She specializes in working with collaborators to identify the right data and analysis for answering biological questions.
Scientific Programmer II
Guillaume Jimenez is a software engineer with a specialization in high-throughput data management and visualization. Mr. Jimenz is developing tools for the querying and visualization of sequence data to help researchers identify tends in protocol development. He is also the lead developer for the development of a UTSW clinical annotation database.
Erika Villa, M.S.
Computational Biologist I
Erika Villa is a computational biologist and scientific programmer. Ms. Villa specializes in next generation sequence (NGS) analysis in genomics, metagenomics and transcriptomics. She is currently the lead bioinformatics analysis for the data processing of clinical samples to identify genetic variation including SNVs, InDels, translocation and gene fusions in patient samples.
Andrew Jamieson, Ph.D.
Born in San Diego, California, raised in Plano, Texas and educated in Chicago, Illinois, Andrew is focused on accelerating scientific discovery by transforming the diverse and powerful image-analysis tools developed in the lab into an integrated, easy-to-use package available to the community. Prior to joining the Lyda Hill Department of Bioinformatics in 2016, Andrew was a data scientist for a Dallas-based start-up, held various roles at GE Healthcare, including Scientific Lean Leader, and most recently worked in Pharma Services at NeoGenomics/Clarient as part of the MultiOmyx team delivering advanced image-based biomarker analytics to customers. Andrew received his B.A. (Physics) and Ph.D. (Medical Physics) from the University of Chicago. In his free time, Andrew is a dilettante pop cultural critic: listening to a variety of podcasts on a variety of topics-including philosophy, watching David Lynch films, and tuning in to the latest BBC Essential Mix.
Jeon Lee, Ph.D.
Computational Biologist III
Dr. Lee is a Computational Biologist and with machine learning expertise. He studied Biomedical Engineering, focusing on medical devices and AI-driven diagnostic tools in Yonsei University, South Korea. Prior to joining BICF, Jeon was a senior researcher in KIOM, a Korean national research institutes, and an assistant professor in the Department of Biomedical Engineering, Daegu Haany University, where he also served as an interim department chair for one year. Dr. Lee holds 20 biomedical patents in Korea. Later, he completed postdoctoral training at Johns Hopkins School of Medicine and worked as a research faculty in the Computer Science and Electrical Engineering Department, University of Maryland Baltimore County. Since he joined UTSW as a computational biologist in January 2016, he has been working on various types of machine learning projects including multi-modal data fusion, deep learning for clinical diagnosis or outcome prediction, and natural language processing for EMR data. Through the Help Desk, he also assists with NGS data analysis for single-cell RNA-seq, bulk RNA-seq, ChIP-seq.
Zhiguo Shang, Ph.D.
Zhiguo Shang is a Computational Scientist specializing in image analysis. He currently works on PET/CT medical images with diverse machine learning tools, such as 2D/3D segmentation and advance pattern recognition techniques. He also working on developing methods to combine genetic sequencing with medical image processing to address challenges in cancer diagnosis and prognosis.