1. Molecular and genetic effect of coding variants in human Zhao, Yige 2024 Theses GeneticsHuman genetics--VariationBioinformaticsHuman genomeAllelomorphismMachine learningAutism--Research
2. Transformer Models for Clinical Target Prediction using Pathology Report Text Kefeli, Jenna 2024 Theses BioinformaticsMedical records--Data processingDiagnosisPathologyNosology
3. Identifying and Targeting Master Regulators of Drug Resistance in Lung Adenocarcinoma through Network Analysis of Tumor Transcriptomic Data Griffin, Aaron Timothy 2023 Theses BioinformaticsBiology--ClassificationStatisticsBiochemical markersLungs--CancerAdenocarcinomaDrug resistance in cancer cellsMachine learning--Industrial applicationsAmerican Society of Clinical OncologyMemorial Sloan-Kettering Cancer Center
4. Prediction of Human Gut Bacterial Secreted Proteins and their Interactions with Human Colonic Proteins Velez-Cortes, Florencia 2023 Theses BioinformaticsIntestines--MicrobiologyDigestive organs--BacteriologyBacteriology
5. The itaconate-driven immunometabolic response to S. aureus promotes persistent lung infection Tomlinson, Kira Leigh 2023 Theses MicrobiologyImmunologyBioinformaticsStaphylococcus aureus infectionsBiofilmsGlycolysisPneumoniaNeutrophils--Immunology
6. Mind the developmental gap: Identifying adverse drug effects across childhood to evaluate biological mechanisms from growth and development Giangreco, Nicholas Paul 2022 Theses BioinformaticsDevelopmental biologyChild developmentDrugs--Safety measuresDrugs--ToxicologyMedical statistics
7. Systems-Level Approaches to Understanding Protein Synthesis Metz, Jordan Benjamin 2022 Theses BiologyComputer scienceBioinformaticsNucleotide sequenceRibosomesProteins--Synthesis--RegulationRNA-protein interactionsAnimal models in research
8. Genetic regulatory variant effects across tissues and individuals Flynn, Elise Duboscq 2021 Theses BioinformaticsMedical geneticsGene expression--ResearchHuman genomeCoronary heart disease--Genetic aspectsCoronary arteriesPhenotype
9. Integration of Functional Genomic Data in Genetic Analysis Chen, Siying 2021 Theses BioinformaticsMedical genetics--ResearchHuman genomeEpigeneticsAutism spectrum disorders--Genetic aspects
10. Electronic Health Record-Derived Phenotyping Models to Improve Genomic Research in Stroke Thangaraj, Phyllis Mary 2020 Theses BioinformaticsGeneticsCerebrovascular diseaseCerebrovascular disease--Risk factorsMedical records--Data processingMachine learning--Industrial applications
11. Generative Models for Synthetic Biology Blazejewski, Tomasz 2020 Theses BioinformaticsBiology--ClassificationMolecular biologySynthetic biologyMachine learningAmino acid sequence
12. Spatial and genomic analysis of the glioblastoma tumor microenvironment Chen, Andrew 2020 Theses BiologyBioinformaticsGlioblastoma multiformeBrain--Cancer--ResearchCancer--Immunotherapy--EvaluationMacrophages--Research
13. Investigating the utility of exome sequencing for kidney disease Groopman, Emily 2019 Theses GeneticsBioinformaticsMedicineKidneys--DiseasesExomes
14. New Tools for Understanding and Engineering Complex Microbial Communities Sheth, Ravi Uday 2019 Theses BiologyBioinformaticsMicroorganismsMicrobial ecology--Technique
15. Analysis of Oncogenic Signal Transduction with Application to KRAS Signaling Pathways Broyde, Joshua 2018 Theses BioinformaticsBiometryMolecular biologyCancer--Molecular aspectsCellular signal transductionOncology
16. Genomic and machine-learning analysis of germline variants in cancer Madubata, Chioma 2018 Theses BioinformaticsCytologyGeneticsMachine learningGerm cellsCancer
17. Quantitative Approaches to the Genomics of Clonal Evolution Zairis, Sakellarios 2018 Theses GeneticsBioinformaticsMathematicsGenomicsClones (Plants)Evolution (Biology)
18. Regulation of splicing networks in neurodevelopment Weyn-Vanhentenryck, Sabastien Matthieu 2018 Theses BioinformaticsNeurosciencesRNA splicingRNA-protein interactions
19. Regulatory logic of cellular diversity in the nervous system Closser, Michael Edward 2018 Theses Molecular biologyNeurosciencesBioinformaticsNervous systemGene expressionCellular control mechanisms
20. Systematically Mapping the Epigenetic Context Dependence of Transcription Factor Binding Kribelbauer, Judith Franziska 2018 Theses BiochemistryBioinformaticsBiophysicsTranscription factorsGene regulatory networksEpigenetics
21. Developing Statistical Methods for Incorporating Complexity in Association Studies Palmer, Cameron Douglas 2017 Theses BioinformaticsHuman genome--ResearchStatisticsGenomics--Statistical methodsResearch--Data processing
22. Using interspecies biological networks to guide drug therapy Jacunski, Alexandra 2017 Theses BioinformaticsCombination drug therapyDrug interactions
23. Genetics of ABCA4-associated Diseases and Retinitis Pigmentosa Xie, Yajing 2016 Theses Retinitis pigmentosaRetinitis pigmentosa--Genetic aspectsMedical geneticsRetinal degenerationGeneticsBioinformatics
24. Transcriptional States and microRNA Regulation of Adult Neural Stem Cells DeLeo, Annina 2015 Theses Molecular biologyNeurosciencesBioinformatics
25. Exploring the Plasmodium falciparum Transcriptome Using Hypergeometric Analysis of Time Series (HATS) Scanfeld, Daniel 2013 Theses BioinformaticsParasitologyPlasmodium falciparumMalariaDrug resistance
26. Probabilistic Reconstruction and Comparative Systems Biology of Microbial Metabolism Plata Caviedes, German 2013 Theses MicrobiologyBioinformaticsEvolution (Biology)BacteriologyPhenotypeGene expression
27. Quantifying Pathogen Surveillance Using Temporal Genomic Data Chan, Joseph Minhow; Rabadan, Raul 2013 Articles BioinformaticsMolecular biologyCommunicable diseasesGenetics
28. BioArray Software Environment (BASE): a platform for comprehensive management and analysis of microarray data Saal, Lao H.; Troein, Carl; Vallon-Christersson, Johan; Gruvberger, Sofia; Borg, Åke; Peterson, Carsten 2002 Articles BioinformaticsDNA microarraysCytologyGenetics