If you are interested in joining the lab, please contact Dr. Mathé directly at “ewy.mathe at osumc dot edu”.
Tara Eicher, PhD student, Computer Science
I received my BA in Mathematics from Wichita State University in 2014 and my MS in Computer Science from Wichita State University in 2016, with a master’s thesis exploring the use of support vector machines to discriminate protein profiles of Down Syndrome and normal mice treated with memantine. I am currently pursuing a PhD in Computer Science with a Bioinformatics concentration, and am working jointly with Drs. Machiraju and Mathé. I am interested in applying machine learning to genomics research and am currently investigating the relationship between peak shape and transcription factor activity in ATAC-seq and DNASE-seq data.
I received a BS in Biochemistry from Mount Saint Mary’s University, MD in 2000 and a PhD in Bioinformatics from George Mason University, VA in 2006. During my post-doctoral training with Dr. Curtis Harris at the National Cancer Institute, I discovered putative esophageal and lung cancer biomarkers using miRNA microarrays and metabolomics. As a Bioinformatics Staff Scientist in Dr. Rafael Casellas’ laboratory (NIAMS/NIH), I aimed to better understand modalities of transcriptional regulation in B lymphocytes, using state-of-the-art next-generation sequencing techniques. In the Fall of 2015, I joined the Biomedical Informatics to pursue research in developing algorithms for biomarker and therapeutic target discovery in cancer.
Manjukumar Patil, Masters student , Computer Science
I am pursuing Masters in Computer Science and Engineering at Ohio State University. I am currently working as a Graduate Research Associate under Dr. Ewy Mathe for the RaMP database project. Prior to this, I was working for the Stem-Computing Project which aims at enhancing the curriculum for school children by amalgamating computer coding techniques with simple physics and algebraic equations. I have my Bachelor’s degree in Computer Science and Engineering from R.V. College of Engineering, India. Prior to joining Ohio State University, I was working at Samsung for three years as a Senior Software Engineer, developing power and performance efficient solutions for multimedia modules such as Face Detection and Gesture Recognition.
Andy Patt, PhD student, Biomedical Sciences Graduate Program
I earned my undergraduate degree in 2015 from SUNY Geneseo, getting a B.S. in biochemistry and a minor in biomathematics. During my time at Geneseo, I had the opportunity to study sex-based differences in monocarboxylate-transporter-1 gene expression during a summer research project in the lab of Dr. Marilyn Morris in the Pharmaceutical Science department at the University at Buffalo. After graduating, I spent a year in the lab of Dr. Michael Ombrello at the National Institute of Arthritis and Musculoskeletal and Skin Diseases in Bethesda, Maryland, where we used deep sequencing and bioinformatics pipelines to identify rare genetic variants that are associated with systemic juvenile idiopathic arthritis. My research experiences at the NIH and UB helped me develop an interest in computational biology, which lead me to the lab of Dr. Ewy Mathé at OSU. I am currently working on developing tools for integrating metabolomic data and transcriptomic data on a pathway level, using hybrid integration approaches such as fuzzy logic modeling and linear modeling, as opposed to purely data-driven approaches such as Bayesian networks, or knowledge-driven approaches such as Boolean networks or Ordinary Differential Equations. I am interested in applying these techniques to identify novel, context-specific interactions between genes and metabolites, as well as to identify dysregulated biochemical pathways in sarcoma tumors.
Jalal Siddiqui, PhD, Postdoctoral Researcher
I graduated from Cornell University with a BS (2008) and M.Eng (2010) in Chemical Engineering. In 2010, I started working as a research assistant in the laboratory of Dr. Jonathan Davis at The Ohio State University. In 2012, I became a PhD student in the same laboratory and have recently received my PhD in Biophysics. My research involved developing a novel mathematical model describing the role of effective TnI concentration in modulating the calcium sensitivity of TnC, a protein regulating contraction and relaxation in cardiac/skeletal muscle. My research focus here will be on applying computational metabolomics techniques to understanding cancer pathology and treatments.
I earned a BS in Molecular Genetics from The Ohio State University in 2018. During that time, I trained in the lab of Dr. Anna Dobritsa; studying the molecular and developmental biology of membrane polarization and extra-cellular matrix formation in Arabidopsis thaliana. In the fall of 2018, I begin the MS program in Biomedical Informatics at The Ohio State University. I am interested in applying computational methods to study the genomics of transcriptional regulation; including the dynamic nature of the enhancer landscape. Working in the lab of Dr. Ewy Mathé, I study the interplay between chromatin availability and the mutational landscape in cell immortalization and tumorigenesis.
I received my BS in Cell and Molecular Biology from Binghamton University in 2010. I received my MA in Biology with a concentration in Biotechnology from Hunter College in 2013. From 2013-2014 I worked at The Rockefeller University where I was studying the effects of prenatal alcohol exposure. I have been in the Molecular, Cellular and Developmental Biology program at OSU since Fall 2014. I am now jointly working in the labs of Drs. Peter Shields and Ewy Mathe, studying microbiome of smokers, e-cig users and non-smokers.
Bofei Zhang, Graduate student in Data Science at New York University
Kartik Lovekar, Graduate student in Computer Science at OSU
Mingrui Liu, Undergraduate student, Data analytics
Elizabeth Baskin, BS – fellowship at Chase.
Senyang Hu, MS – transitioning to industry position.
Rick Farouni, PhD, Post-doctoral fellow at McGill University-Génome Québec Innovation Centre. http://rfarouni.github.io/
Diana Guttierez-Cruz, MS – transitioning to obtaining a PhD degree at OSU.