GuanLab achieved top performance in 2013 DREAM (Dialogue for Reverse Engineering Assessments and Methods) - breast cancer network inference challenge
DCM&B Chair, Brian D. Athey, Ph.D., elected as fellow of the American College of Medical Informatics (ACMI)

Bioinformatics Alumni

The alumni list below may be filtered by last name.

Name Current Title Employer Chair Dissertation
Subramanian Shankar Ajay Subramanian Shankar Ajay

Bioinformatics Scientist

Illumina, Inc.

Brian Athey, Inhan Lee

Novel Bioinformatics Approaches for MicroRNA Detection and Target Prediction
Raquel Assis Raquel Assis

Assistant Professor of Biology

Eberly College of Science, Pennsylvania State University

Alexey Kondrashov

Origin and Evolution of Novel Sequences by Gene Duplication
Oscar Alejandro Balbin Oscar Alejandro Balbin

Investigator I in Bioinformatics

Novartis Institutes for Biomedical Research

Arul Chinnaiyan

Identifying Novel Targetable Genes and Pathways in Cancer by Integrating Diverse Omics Data
Mark Benson Mark Benson

Product Developer

Remedy Informatics, Inc.

Heather Carlson

Binding MOAD (Mother of All Databases)
Stewart Chang Stewart Chang

Research Scientist

Intellectual Ventures

Denise Kirschner, Jennifer Linderman

Multi-Scale Modeling of Antigen Presentation With Applications to Tuberculosis
Ji Chen Ji Chen


Microsoft, Inc.

David States

Identification of Global and Specific Gene Expression Patterns Based on Microarray
Yili Chen Yili Chen

Computational Biologist


Jessica Schwartz, David States

Integrative Analysis of Transcriptional Regulation Using Computational Approaches
Yu Chen Yu Chen

Research Scientist

Insightful, Corp.

Gordon Crippen

Protein Structural Alignment and Application for Fold Recognition
Chad Creighton Chad Creighton

Asst. Professor of Medicine

Baylor College of Medicine

Arul Chinnaiyan, Kerby Shedden

Comparing Gene Expression Profiles of Cell Culture Models with Profiles of Tumor Xenografts and Patient Tumors : Implications for Lung and Breast Cancers
Lan Dai Lan Dai

Associate Scientist

Genentech, Inc.

David Lubman

The Application of Mass Spectrometry-Based Label-Free Quantitative Proteomic Strategies in Cancer Stem Cell Research
Michael DeGiorgio Michael DeGiorgio

Assistant Professor of Biology

Eberly College of Science, Pennsylvania State University

Noah Rosenberg

Genetic Variation and Modern Human Origins
Casey Diekman Casey Diekman

Postdoctoral Fellow

New jersey Institute of Technology (Newark)

Daniel Forger, Vijayan, KP Unnikrishnan

Modeling and Analysis of Electrical Network Activity in Neuronal Systems
Jayson Falkner Jayson Falkner

Software Engineer

Counsyl, Inc.

Philip Andrews

Aggregation, Dissemination, and Analysis of High-throughput Scientific Data Sets in the Field of Proteomics
Damian Fermin Damian Fermin

Applications Programmer Intermediate

University of Michigan

Gil Omenn

Use of Proteomics as a Method of Enhancing Genome Annotation
Patrick Harrington Patrick Harrington

Team Lead & Director of Engineering


Alfred O. Hero, III

Inverse Problems in High Dimensional Stochastic Systems Under Uncertainty
Andrew Hodges Andrew Hodges

Postdoctoral Associate

Sanford-Burnham Medical Research Institute

Yongqun He, Peter Woolf

Bayesian Network Approaches for Refining and Expanding Cellular and Immunological Pathways
Juichi (“Lucy”) Huang Juichi (“Lucy”) Huang


McKinsey & Co.

Noah Rosenberg

Integrative Statistical Learning with Applications to Predicting Features of Diseases and Health
Yongsheng Huang Yongsheng Huang

Research Staff

Merck, Inc.

Alfred Here III, Jay L Hess

Integrative Statistical Learning with Applications to Predicting Features of Diseases and Health
Junguk Hur Junguk Hur

Post-doctoral Research Fellow

University of Michigan

Eva Feldman, Hosagrahar V Jagadish

Integration of Text Mining with Systems Biology Provides New Insight into the Pathogenesis of Diabetic Neuropathy
Matthew Iyer Matthew Iyer

MSTP Student

University of Michigan

Arul Chinnaiyan

Discovery and characterization of long non-coding RNAs in cancer transcriptomes
Doug Jacobsen Doug Jacobsen

Bioinformatics Computing Consultant

Lawrence Berkeley National Lab

Charles Brooks III, Matthew Young

An Investigation of the Roles of Magnesium Ions in the Catalytic Cycle of the Protein Kinase CDK2: A Molecular Link between Allosteric Activation and Catalytic Activity
Reagan Kelly Reagan Kelly


FDA - Nat’l Center for Toxicological Research

Sharon Kardia

The Development and Application of a Risk Index to Predict Individualized Chronic Disease Risk
Nickolay Khazanov Nickolay Khazanov

Bioinformatics Scientist

Compendia Bioscience

Heather Carlson

Large-Scale Analysis of Protein-Ligand Binding Sites using the Binding MOAD Database
Jung Kim Jung Kim

Postdoctoral Research Fellow

University of Michigan

Arul Chinnaiyan, Kerby Shedden

Characterization of Copy Number Aberrations and Epigenetic Modifications in Prostate Cancer
Xing Li Xing Li

Bioinformatics Scientist

Mayo Clinic

Deborah Gumucio

Bioinformatic Analysis of Epithelial:Mesenchymal Crosstalk during Mouse Gut Development and Patterning
Bo Li Bo Li

Jun Li

Yu-Hsuan Lin

Software Development Engineer

Microsoft, Inc.

James D. Engel, Maureen Sartor

Analysis of, and Software Development for, ChIP-Seq and RNA-Seq Data
Arun Manoharan Arun Manoharan

Computational Biologist


John Kim

The Landscape of C. elegans 3'UTRs
Arvind Rao Arvind Rao

Assistant Professor

University of Texas - MD Anderson Cancer Center

Doug Engel, Alfred O. Hero III, David States

Prospective Identification of Long-range Transcriptional Regulatory Regions via Integrative Genomics
Daniel Rhodes Daniel Rhodes


Compendia Bioscience

Eric Fearon

Development and integrative analysis of a cancer gene expression database
Lee Sam Lee Sam

Arul Chinnaiyan

Integrative bioinformatics in the age of massive throughput sequencing: from the transcriptome to the proteome in prostate cancer
Conner Iknokwayyo Sandefur Conner Iknokwayyo Sandefur

Postdoctoral Fellow

University of North Carolina

Santiago Schnell

Defining Chemical Reaction Mechanisms Associated with Threshold Phenomena in Conformational Diseases
Carlos Santos Carlos Santos


Retinapharma Technologies, Inc.

Brian Athey, David States

Automated Natural-Language Processing for Integration and Functional Annotation of Complex Biological Systems
Sirarat Sarntivijai Sirarat Sarntivijai

ORISE Postdoctoral Fellow

Office of Clinical Pharmacology, FDA

Brian D. Athey and Yongqun He

Novel Integrative Bioinformatics Approaches to Biomedical Ontology Practice for Translational Informatics
Yasin Senbabaoglu Yasin Senbabaoglu

Postdoctoral Researcher

Memorial Sloan-Kettering Cancer Center

Jun Li, George Michailidis

Developing and Application of Statistical Algorithms for High-Demensional Biological Data Analysis
Abhik Shah Abhik Shah

Senior Software and Research Engineer

Brian Athey, Peter Woolf, James Peter

Mechanistic Bayesian Networks for Integrating Knowledge and Data to Unravel Biological Complexity
Erin Shellman

Data Scientist

Nordstrom Inc.

Charles Burant and Charles Burant

Network Motifs Provide Signatures That Characterize Metabolism and Produce Novel Insights into the Evolutionary History of the Eukaryotic Cell
Kraig Stevenson Kraig Stevenson

Patricia Wittkopp

Viktoriya Strumba Viktoriya Strumba

Research Fellow

University of Michigan

Margit Burmeister

Association Analyses of Known Genetic Variants with Gene Expression in Brain
Gang Su Gang Su

Data Mining Scientist and Consultant

Med Data Quest

Brian Athey, Fan Meng

Omics Data Exploration: Across Scales and Dimensions
Zachary Szpiech Zachary Szpiech

Postdoctoral Scholar

School of Pharmacy, University of CA-San Francisco

Noah Rosenberg

Human Migration, Population Divergence, and the Accumulation of Deleterious Alleles: Insights from Private Genetic Variation and Whole-exome Sequencing
Peter Ulintz Peter Ulintz

Special Applications Programmer

University of Michigan

Philip Andrews

Mining Deeper into the Proteome: Computational Strategies for Improving Depth and Breadth of Coverage in High-Throughput Protein Identification Studies
Artur Veloso Artur Veloso

Mats Ljungman

Huy Vuong Huy Vuong

NIH/NLM Postdoctoral Fellow

Vanderbilt University in Nashville, TN

David Lubman

Bioinformatics Analysis of Humoral Immune Response and Protein Microarray for Biomarker Discovery
Chaolong Wang Chaolong Wang

Research Fellow

School of Public Health, Harvard University

Noah Rosenberg

Statistical Methods for Analyzing Human Genetic Variation in Diverse Populations
Ryan Welch Ryan Welch

Research Associate Specialist Lead

University of Michigan

Michael Boehnke, Laura Scott

Bioinformatics Software and Methods for Genome-wide Association and ChIP-Seq Studies
Michelle Leigh Wynn  Michelle Leigh Wynn

James S. McDonnell Postdoctoral Fellow

University of Michigan

Sofia Merajver and Santiago Schnell

Unraveling the Complex Regulatory Relationships between Metabolism and Signal Transduction in Breast Cancer
Jianjun Yu Jianjun Yu


Novartis Oncology, Inc.

Arul Chinnaiyan

Bioinformatics Analysis of 'Omics' Data Towards Cancer Diagnosis and Prognosis
Yan Zhang Yan Zhang

Postdoctoral Fellow

Yale University

Phil Andrews

Network Discovery in Equilibrium-state and Dynamic Data: Applications to Phosphoproteomics and Kinetics
Chunchao Zhang Chunchao Zhang


University of Michigan: Ann Arbor, MI

Phil Andrews

Analysis of Post-translational Modifications of Histones and Myelin Basic Protein: Crosstalk and Beyond
Peng Zhang

Statistical Geneticist

Center for Inherited Disease Research (CIDR), Johns Hopkins University: Baltimore, MD

Sebastian Zoellner

The Road to Identifying Disease Causing Genes: Association Tests, Genotype Imputations, and Sampling Strategies for Sequencing Studies
Dongxiao Zhu Dongxiao Zhu

Assistant Professor

Department of Computer Science, Wayne State University

Alfred O. Hero, III

Reconstructing Signaling Pathways from High Throughput Data