1. Algorithms for Aligning and Clustering Genomic Sequences that Contain Duplications Open Access Author: Hou, Minmei Title: Algorithms for Aligning and Clustering Genomic Sequences that Contain Duplications Graduate Program: Computer Science and Engineering Keywords: algorithmgenomic sequenceduplicationalignmenthomologousorthologous File: Download MinmeiHou_Dissertation.pdf Committee Members: Webb Colby Miller, Committee Chair/Co-ChairPiotr Berman, Committee MemberHongyuan Zha, Committee MemberRoss Cameron Hardison, Committee Member
2. Advanced algorithms for the design and analysis of synthetic genetic parts Restricted (Penn State Only) Author: Hossain, Ayaan Title: Advanced algorithms for the design and analysis of synthetic genetic parts Graduate Program: Bioinformatics and Genomics (PhD) Keywords: automateddesignsyntheticgeneticpartscombinatorialoptimizationmachinelearningalgorithmpromotermRNAtranscriptiontranslationdecayrepressionCRISPRrepeatsinterferencegraphtheorypathfindingnonrepetitiverepetitivegenesynthesisassemblyoligopooldiscoverybarcodesprimerscountingNGSreadsclassifierclassificationregressorregressionrandomforestLASSOridgehomologousrecombinationinstabilitytuningefficiencyplasmidsgenomeengineeringdegenerateIUPACvertexcoverindependentsetinitiation File: Login to Download Committee Members: Paul Babitzke, Outside Unit MemberHoward Salis, Chair & Dissertation AdvisorCostas Maranas, Major Field MemberReka Albert, Outside Field MemberGeorge Perry, Program Head/Chair