DNA METHYLATION-BASED EPIGENETIC BIOMARKERS IN CELL-TYPE DECONVOLUTION AND TUMOR TISSUE OF ORIGIN IDENTIFICATION, Ze Zhang
Dartmouth College Ph.D Dissertations

Tracing Evolution of Gene Transfer Agents Using Comparative Genomics, Roman Kogay
Dartmouth College Ph.D Dissertations

GENOME-SCALE METHYLATION ANALYSIS IN BLOOD AND TUMOR IDENTIFIES IMMUNE PROFILE, AGE ACCELERATION, AND DNA METHYLATION ALTERATIONS ASSOCIATED WITH BLADDER CANCER OUTCOMES, Ji-Qing Chen
Dartmouth College Ph.D Dissertations

Cell-Typing and Interaction Analysis of the Immune Compartment of the Tumor Microenvironment using High-Resolution Omics Modalities, Courtney Taylor Schiebout
Dartmouth College Ph.D Dissertations

Characterization of cell type-specific molecular heterogeneity in cancer using multi-omic approaches, Min Kyung Lee
Dartmouth College Ph.D Dissertations

A Longitudinal Cline Characterizes the Genetic Structure of Human Populations in the Tibetan Plateau, Choongwon Jeong, Benjamin M. Peter, Buddha Basnyat, Maniraj Neupane, Geoff Childs, Sienna Craig, John Novembre, Anna Di Rienzo
Dartmouth Scholarship

Evolutionary Triangulation: Informing Genetic Association Studies with Evolutionary Evidence, Minjun Huang, Britney E. Graham, Ge Zhang, Reed Harder, Nuri Kodaman, Jason H. Moore, Louis Muglia, Scott M. Williams
Dartmouth Scholarship

Detecting Gene-Gene Interactions Using a Permutation-Based Random Forest Method, Jing Li, James D. Malley, Angeline S. Andrew, Margaret R. Karagas, Jason H. Moore
Dartmouth Scholarship

FastPop: A Rapid Principal Component Derived Method to Infer Intercontinental Ancestry Using Genetic Data, Yafang Li, Jinyoung Byun, Guoshuai Cai, Xiangjun Xiao, Younghun Han, Olivier Cornelis, James E. Dinulos, Joe Dennis, Douglas Easton, Ivan Gorlov, Michael F. Seldin, Christopher I. Amos
Dartmouth Scholarship

Identifying Gene-Gene Interactions that are Highly Associated with Body Mass Index Using Quantitative Multifactor Dimensionality Reduction (QMDR), Rishika De, Shefali S. Verma, Fotios Drenos, Emily R. Holzinger
Dartmouth Scholarship

Leveraging Global Gene Expression Patterns to Predict Expression of Unmeasured Genes, James Rudd, René A. Zelaya, Eugene Demidenko, Ellen L. Goode, Casey S. Greene S. Greene, Jennifer A. Doherty
Dartmouth Scholarship

Machine Learning Methods Enable Predictive Modeling of Antibody Feature:Function Relationships in RV144 Vaccinees, Ickwon Choi, Amy W. Chung, Todd J. Suscovich, Supachai Rerks-Ngarm, Punnee Pitisuttithum, Sorachai Nitayapha, Jaranit Kaewkungwal, Robert J. O'Connell, Donald Francis, Merlin L. Robb, Nelson L. Michael, Jerome H. Kim, Galit Alter, Margaret E. Ackerman, Chris Bailey-Kellogg
Dartmouth Scholarship

Loregic: A Method to Characterize the Cooperative Logic of Regulatory Factors, Daifeng Wang, Koon-Kiu Yan, Cristina Sisu, Chao Cheng, Joel Rozowsky, William Meyerson, Mark B. Gerstein
Dartmouth Scholarship

Modeling Neurovascular Coupling from Clustered Parameter Sets for Multimodal EEG-NIRS, M. Tanveer Talukdar, H. Robert Frost, Solomon G. G. Diamond
Dartmouth Scholarship

Systems Level Analysis of Systemic Sclerosis Shows a Network of Immune and Profibrotic Pathways Connected with Genetic Polymorphisms, J. Matthew Mahoney, Jaclyn Taroni, Viktor Martyanov, Tammara A. A. Wood, Casey S. Greene, Patricia A. Pioli, Monique E. Hinchcliff, Michael L. Whitfield
Dartmouth Scholarship

Mapping the Pareto Optimal Design Space for a Functionally Deimmunized Biotherapeutic Candidate, Regina S. Salvat, Andrew S. Parker, Yoonjoo Choi, Chris Bailey-Kellogg, Karl E. Griswold
Dartmouth Scholarship

Phenotypic Robustness and the Assortativity Signature of Human Transcription Factor Networks, Dov A. Pechenick, Joshua L. Payne, Jason H. Moore
Dartmouth Scholarship

OrthoClust: An Orthology-Based Network Framework for Clustering Data Across Multiple Species, Koon-Kiu Yan, Daifeng Wang, Joel Rozowsky, Henry Zheng, Chao Cheng, Mark Gerstein Gerstein
Dartmouth Scholarship

Structural Features of the Pseudomonas fluorescens Biofilm Adhesin LapA Required for LapG-Dependent Cleavage, Biofilm Formation, and Cell Surface Localization, Chelsea D. Boyd, T. Jarrod Smith, Sofiane El-Kirat-Chatel, Peter D. Newell, Yves F. Dufrêne, George A. O'Toole
Dartmouth Scholarship

Integrated Assessment of Predicted MHC Binding and Cross-Conservation with Self Reveals Patterns of Viral Camouflage, Lu He, Anne S. De Groot, Andres H. Gutierrez, William D. Martin, Lenny Moise, Chris Bailey-Kellogg
Dartmouth Scholarship

A Unified Framework Integrating Parent-of-Origin Effects for Association Study, Feifei Xiao, Jianzhong Ma, Christopher I. I. Amos
Dartmouth Scholarship

Transcription Factor Binding Profiles Reveal Cyclic Expression of Human Protein-coding Genes and Non-coding RNAs, Chao Cheng, Matthew Ung, Gavin D. Grant, Michael L. Whitfield
Dartmouth Scholarship

Key Genes for Modulating Information Flow Play a Temporal Role as Breast Tumor Coexpression Networks are Dynamically Rewired by Letrozole, Nadia M. Penrod, Jason H. Moore
Dartmouth Scholarship

Machine Learning and Genome Annotation: A Match Meant to Be?, Kevin Y. Yip, Chao Cheng, Mark Gerstein
Dartmouth Scholarship

How Long is a Piece of Loop?, Yoonjoo Choi, Sumeet Agarwal, Charlotte M. Deane
Dartmouth Scholarship

Identification of SNPs Associated with Variola Virus Virulence, Anne Gatewood Hoen, Shea N. Gardner, Jason H. Moore
Dartmouth Scholarship

Chapter 11: Genome-Wide Association Studies, William S. Bush, Jason H. Moore
Dartmouth Scholarship

Gene Ontology Analysis of Pairwise Genetic Associations in Two Genome-Wide Studies of Sporadic ALS, Nora Chung Kim, Peter C. Andrews, Folkert W. Asselbergs, H Robert Frost, Scott M. Williams, Brent T. Harris, Cynthia Read, Kathleen D. Askland, Jason H. Moore
Dartmouth Scholarship

Additive Functions in Boolean Models of Gene Regulatory Network Modules, Christian Darabos, Ferdinando Ferdinando Di Cunto, Marco Tomassini, Jason H. Moore
Dartmouth Scholarship

Planning Combinatorial Disulfide Cross-Links for Protein Fold Determination, Fei Xiong, Alan M Friedman, Chris Bailey-Kellogg
Dartmouth Scholarship

Evolving Hard Problems: Generating Human Genetics Datasets with a Complex Etiology, Daniel S Himmelstein, Casey S Greene, Jason H Moore
Dartmouth Scholarship

Constraint-Based Model of Shewanella Oneidensis MR-1 Metabolism: A Tool for Data Analysis and Hypothesis Generation, Grigoriy E. Pinchuk, Eric A. Hill, Oleg V. Geydebrekht, Jessica De Ingeniis, Xiaolin Zhang, Andrei Osterman, James H. Scott
Dartmouth Scholarship

Improved IBD Detection Using Incomplete Haplotype Information, Giulio Genovese, Gregory Leibon, Martin R. Pollak, Daniel N. Rockmore
Dartmouth Scholarship

Optimization Algorithms for Functional Deimmunization of Therapeutic Proteins, Andrew S. Parker, Wei Zheng, Karl E. Griswold, Chris Bailey-Kellogg
Dartmouth Scholarship

Minimum Criteria for DNA Damage-Induced Phase Advances in Circadian Rhythms, Christian I. Hong, Judit Zámborszky, Attila Csikász-Nagy
Dartmouth Scholarship

Multifactor Dimensionality Reduction Analysis Identifies Specific Nucleotide Patterns Promoting Genetic Polymorphisms, Eric Arehart, Scott Gleim, Bill White, John Hwa, Jason H. Moore
Dartmouth Scholarship

MicroRNAs and the Advent of Vertebrate Morphological Complexity, Alysha M. Heimberg, Lorenzo F. Sempere, Vanessa N. Moy, Phillip C. J. Donoghue, Kevin J. Peterson
Dartmouth Scholarship

A Novel Ensemble Learning Method for de Novo Computational Identification of DNA Binding Sites, Arijit Chakravarty, Jonathan M. Carlson, Radhika S. Khetani, Robert H H. Gross
Dartmouth Scholarship

Circadian Rhythmicity by Autocatalysis, Arun Mehra, Christian I. Hong, Mi Shi, Jennifer J. Loros, Jay C. Dunlap, Peter Ruoff
Dartmouth Scholarship

Bounded Search for de Novo Identification of Degenerate Cis-Regulatory Elements, Jonathan M. Carlson, Arijit Chakravarty, Radhika S. Khetani, Robert H. Gross
Dartmouth Scholarship

Principal Component Analysis for Predicting Transcription-Factor Binding Motifs from Array-Derived Data, Yunlong Liu, Matthew P Vincenti, Hiroki Yokota
Dartmouth Scholarship

Interpreting Patterns of Gene Expression with Self-Organizing Maps: Methods and Application to Hematopoietic Differentiation, Pablo Tamayo, Donna Slonim, Jill Mesirov, Qing Zhu, Sutisak Kitareewan, Ethan Dmitrovsky
Dartmouth Scholarship