Sophie Thuault-Restituito received her doctorate in pharmacy and her PhD in neuroscience from the University of Montpellier, France. She later completed a postdoc in the laboratory of Steve Moss at University College London, and then worked as a research associate scientist and research assistant professor in the Department of Biochemistry and later in the Department of Neuroscience and Physiology at the New York University Langone Medical Center. She moved to an administrative position at NYU in 2013 and became research operation manager for the Medical Science Building and then director of research laboratory operation and utilization at Langone. As executive director and scientific operation manager for the Columbia University Center for Topology of Cancer Evolution and Heterogeneity, Sophie combines her expertise in experimental biology and management to oversee the administration of the Physical Sciences-Oncology center and other NIH- and foundation-supported grants.
Luis Arnes received his PhD from the Department of Genetics and Cell Biology at the school of Biological Science at the Autonomous University in Spain in 2009. After graduation, he joined the laboratory of Dr. Lori Sussel in the Department of Genetics and Development at Columbia University to study the gene regulatory network that regulates pancreas development and maintenance of terminally differentiated endocrine lineages. He received extensive training in molecular biology and mouse genetics. In 2016, he joined the laboratory of Raul Rabadan in the Department of Biomedical Informatics at Columbia University. His current research integrates genome wide data and experimental validation to identify novel regulators of tumor progression with emphasis in signaling pathways required in development and aberrantly reactivated in tumorigenesis.
Zhaoqi Liu is a postdoctoral research scientist, studying cancer genomics in the Department of Biomedical Informatics at Columbia University. He received his Ph.D. in Applied Mathematics from the Academy of Mathematics and Systems Science, where he won the President's Scholarship prize. Zhaoqi joined Dr. Rabadan’s group in September 2015. His current work focuses on developing computational methods to analyze biological problems in cancer genomics.
Mykola Bordyuh is a postdoctoral research scientist in the Department of Biomedical Informatics. He received his B.S. and M.S. degrees from the Moscow Institute of Physics and Technology in Applied Mathematics and Physics and his Ph.D. in Electrical Engineering from Princeton University. His current research interests are applications of topological data analysis to biological data with an emphasis on cancer genomics.
Junfei Zhao is a postdoctoral research scientist, studying cancer genomics in the Department of Biomedical Informatics at Columbia University. His current work is focusing on developing computational methods to study biological problems in cancer genomics. He received his Ph.D. in Applied Mathematics from University of Chinese Academy of Sciences. Junfei joined Dr. Rabadan's group in September 2016.
Ioan Filip is a postdoctoral research scientist in the Department of Biomedical Informatics. He received his Ph.D. in Mathematics from Columbia University in 2016. As a member of the Rabadan Lab, Ioan is currently studying the genetic basis of the immune response to viral infections and he is interested in further developing algebraic and topological methods to model evolution.
Luis Aparicio is a postdoctoral research scientist in the laboratory of Raul Rabadan. He did his graduate degree in Physics combined with studies in Mathematics at Universidad Autonoma in Madrid and Music at the Conservatory specializing in harpsichord and ancient music. He received his M.Sc. and PhD in Theoretical Physics at the Institute for Theoretical Physics in Madrid. He did his first postdoctoral research at the International Centre for Theoretical Physics (Trieste) working at the interface between String Theory, Particle Physics and Cosmology. His current research interest is focused on developing mathematical methods to address problems in Systems Biology with special emphasis in applying topological techniques in the contexts of single-cell and cancer genomics.
Juan Angel Patiño-Galindo
Juan Angel Patiño-Galindo is a postdoctoral research scientist, working on virus evolution in the Department of Systems Biology. His PhD focused on studying different aspects of the mid- and long-term evolution of RNA viruses, with special interest in molecular epidemiology of HIV and HCV. His current research involves the application of topological and phylogenetic methods to the analysis of viral evolution.
Wesley Tansey is a postdoctoral research scientist in the Department of Systems Biology. He received his Ph.D. in Computer Science from the University of Texas at Austin in 2017 with a focus on machine learning and computational statistics. Wesley's work in the Rabadan lab revolves around leveraging latent structure in biological data to develop more powerful analysis tools for cancer. His projects include dose-response prediction for cancer treatments, single cell RNA-Seq denoising, and spatial modeling of tumor samples.
Francesco G. Brundu is a Post-Doctoral Research Scientist in the Department of Systems Biology. He received his B.S., M.S. and Ph.D. from the Polytechnic University of Turin. During his Ph.D., he collaborated with the Candiolo Cancer Research Institute and the Academical Medical Center of Amsterdam, with specific focus on the stratification of Colorectal Cancer through gene expression and copy number variation analysis. His current research interests focus on i) the analysis of genomic variation through computational tools and ii) the application of single-cell RNA sequencing to Cancer Genomics.
Chioma Madubata is an MD/PhD student at Columbia University College of Physicians and Surgeons. She graduated from Harvard University in 2011 with a A.B. in molecular and cellular biology. As an undergraduate, she continued research at the United States Department of Agriculture studying parasite population genetics. She also completed an undergraduate thesis at the Broad Institute of Harvard and MIT, performing high content chemical screening for compounds that improve the pancreatic cell environment in diabetes. During her first summer of medical school, she performed research at Memorial Sloan-Kettering Cancer Center. She is interested in oncology, cancer genomics, and cancer therapeutics.
Andrew Chen is an MD/PhD student at Columbia University rotating with the Rabadan lab. He graduated with a B.S. in Physics from MIT in 2015. His undergraduate work was in population dynamics, as well as researching combination therapeutic design at Takeda Pharmaceuticals. He is interested in applying computational methods to cancer evolution
Karen Gomez is an MD/PhD student at Columbia University College of Physicians and Surgeons. She graduated from Temple University with a B.S. in Biochemistry in 2017. Her undergraduate research focused on studying cancer evolution through tumor phylogenetics. Currently, she is investigating associations between genetic data and phenotype as well as clinical outcomes in cancer. She is interested in cancer genomics.
Baihan Lin is pursuing PhD in Computational & Systems Biology at Columbia University. He graduated from the University of Washington (UW) in 2017 in Computational Neuroscience Program with B.S. in Applied & Computational Mathematics and B.A. in Psychology with Honors. Before attending Columbia, he researched on various interesting problems spanning vision neuroscience, mathematical biology, genome sciences, protein design, and human-computer interaction. Industry-wise, he maintains close collaborations with IBM Research on artificial intelligence and Microsoft Research on computational neuroscience. His major theoretical research interest lies in the intersection between geometric topology, Bayesian machine learning, dynamical/evolutionary systems and network inference, with extensive application interests in multiscale biological systems and networks, especially in genomics and neuroscience.
Oliver Elliott received his B.A. in physics with honors from Amherst College. In 2011 he received his master’s in engineering from Columbia University. In the Rabadan Lab, Oliver has worked on pathogen discovery in high throughput sequencing data, transcriptome annotation, and identifying somatic variants in cancer. He designed and programmed this website.
Tim recieved his B.A. in biology at NYU in 2012 and his Masters' in computer science at NYU in 2016. Previously, he worked in a microbiology lab studying the spore coat of B. subtilis. Currently, his work is focused on pipeline design and data visualization.
Janelle Nunez is the administrator and lab manager for the Rabadan Lab. Please direct inquiries about the lab to her.
Irina Sagalovskiy is a Research Associate in the Department of Biomedical Informatics. She received her Ph.D. in Molecular Biology from Russian Academy of Sciences in 2006, studying immunology of cancer. She did her postdoctoral research at the Hospital for Special Surgery looking for new potential triggers of human autoimmune diseases. Irina joined Rabadan’s lab in January 2017, and her current research is focused on the role of non-coding RNAs in cancer.
Liyuan Zhu is a second-year master student in the Department of Biomedical Informatics. He received his B.S. in Biology from Tsinghua University, China. In 2015, he received his master in Molecular Virology and Microbiology from Baylor College of Medicine. He is currently working on sequencing data of Ebola patients.
Kernyu Park is currently an MA candidate in the department of biomedical informatics (DBMI) at Columbia. He received his BA in Biology from Columbia University in 2016. He has worked on cleaning genome variant data of cancer patients to better predict the correlation between the variants and cancer genes and is now interested in translational analysis of NGS whole genome sequencing data for infectious diseases.
Monika is an undergraduate at Columbia University pursuing a B.A. in computer science and mathematics. She is interested in algebraic topology and big data analytics techniques. At the Rabadan Lab, she is studying bacterial and viral interactions in the human microbiome and their role in infection using topological data analysis.
Amanda Zong is an undergraduate at Columbia in the Class of 2021. She is planning to major in computer science and is interested in the application of computational tools to diagnose diseases. This summer at the Rabadan lab, she will be working on TOBI, a computational model that identifies oncogenic mutations in bladder carcinomas, and will strive to improve its accuracy and performance.
Morgan Goetz is a rising senior at the University of North Carolina at Chapel Hill majoring in Biomedical Engineering. She is working in the Rabadan Lab this summer as a part of the 2018 National Cancer Institute Systems Biology and Physical Sciences Summer Research Program. Morgan’s work is focused on building a model to predict the immune response to anti-PD1 therapy in Glioblastoma patents.