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Author:

Wall, P. Kerr

Title:

COMPUTATIONAL TOOLS AND THEIR APPLICATIONS IN PLANT COMPARATIVE GENOMICS

Graduate Program:

Biology

Keywords:

Transcriptomics
Phylogenomics
Evolutionary Biology
Gene Family Evolution
Comparative Genomics
Computational Biology
Bioinformatics
Next Generation Sequencing

File:

Download P._Kerr_Wall_PhD_Dissertation.pdf

Committee Members:

Claude Walker Depamphilis, Committee Chair/Co-Chair
Webb Colby Miller, Committee Chair/Co-Chair
Hong Ma, Committee Member
Naomi S Altman, Committee Member
John Edward Carlson, Committee Member

Author:

Wafula, Eric

Title:

Computational methods for comparative genomics of non-model species: a case study in the parasitic plant family Orobanchaceae

Graduate Program:

Biology

Keywords:

Computational biology
Evolutionary biology
Bioinformatics
Comparative genomics
Next-generation sequencing
de novo assembly
Genome annotation
Gene expression
Whole genome duplication
Gene duplication
Phylogenomics
Ancestral reconstruction
Transcriptomics
Orthogroups
Gene family evolution
Parasitic plants
Orobanchaceae
Striga

File:

Download Eric_wafula_dissertation_final_submission.pdf

Committee Members:

Claude Walker Depamphilis, Dissertation Advisor/Co-Advisor
James Harold Marden, Committee Chair/Co-Chair
Istvan Albert, Outside Member
Naomi S Altman, Outside Member
Stephen Wade Schaeffer, Program Head/Chair

Author:

Timilsena, Prakash Raj

Title:

Phylogenomics and comparative transcriptomic analyses of the monocots

Graduate Program:

Biology

Keywords:

Phylogenomics
Plant Biology
Taxonomy
Systematics
Monocots
Genomics
Bioinformatics
Botany
Evolution
Comparative Genomics
Evolutionary Genomics
Transcriptomics
RNASeq
Gene Annotation

File:

Download Supplementary_File_14Apr_2020.xlsxDownload PhD_Dissertation_2020_Prakash_Raj_Timilsena.pdf

Committee Members:

Claude Walker Depamphilis, Dissertation Advisor/Co-Advisor
Kateryna Dmytrivna Makova, Committee Chair/Co-Chair
Heather M Hines, Committee Member
John Edward Carlson, Outside Member
Tracy Langkilde, Program Head/Chair

Author:

Brashear, Awtum

Title:

Next Generation Sequencing In the Understanding of Neglected Malaria Parasites

Graduate Program:

Immunology and Infectious Diseases

Keywords:

Malaria
Genomics
Transcriptomics
RNA Sequencing
Southeast Asia
China
Myanmar
Thailand
Border
Plasmodium vivax
Plasmodium ovale
Antigenic Variation
Drug Resistance
Anti-Malarial Resistance

File:

Download Brashear_Dissertation.pdf

Committee Members:

Runze Li, Dissertation Advisor/Co-Advisor
Runze Li, Committee Chair/Co-Chair
Margarita Maria Lopez-Uribe, Committee Member
Maciej F Boni, Committee Member
Santhosh Girirajan, Outside Member
Liwang Cui, Special Member
Margherita Teresa-Anna Cantorna, Program Head/Chair

Author:

Jensen, Matthew

Title:

Complex genetic interaction patterns determine the phenotypic trajectory of neurodevelopmental disorders

Graduate Program:

Bioinformatics and Genomics (PhD)

Keywords:

Neurodevelopmental disorders
Copy-number variants
Genomics
Transcriptomics
Drosophila melanogaster
Whole genome sequencing
Network analysis

File:

Download Matthew_Jensen_dissertation.pdf

Committee Members:

Dajiang Liu, Outside Unit & Field Member
Ross Hardison, Major Field Member
Santhosh Girirajan, Chair & Dissertation Advisor
Reka Albert, Major Field Member
George Perry, Program Head/Chair

Author:

Henderson, Cory

Title:

Arboviral Infection Dynamics and Evolutionary Genetics of Mosquito Vectors

Graduate Program:

Molecular, Cellular, and Integrative Biosciences

Keywords:

Mosquito
Virus
Mayaro
Zika
Anopheles
Aedes
Genomes
Transcriptomics
RNAi
siRNA
piRNA
Toll Pathway
Apoptosis

File:

Download thesis-submissionVersion-final.pdf

Committee Members:

Elizabeth Mcgraw, Chair of Committee
Jason Rasgon, Major Field Member & Dissertation Advisor
Melissa Rolls, Program Head/Chair
Isabella Cattadori, Major Field Member
Joyce Jose, Outside Unit & Field Member

Author:

Sebastian, Aswathy

Title:

Advancing Genomic and Transcriptomic Knowledge Through Reproducible Bioinformatics Workflows

Graduate Program:

Bioinformatics and Genomics (PhD)

Keywords:

Bioinformatics
Workflows
Genomics
Transcriptomics
Metabarcoding

File:

Download dissertation_AS.pdf

Committee Members:

Andrew Patterson, Major Field Member
Shaun Mahony, Chair of Committee
Istvan Albert, Major Field Member & Dissertation Advisor
Reka Albert, Outside Unit & Field Member
David Koslicki, Program Head/Chair

Author:

Ma, Xinwei

Title:

Transcriptomic and proteomic profiling of Arabidopsis flower and leaf under sufficient or limited water conditions

Graduate Program:

Biology

Keywords:

Drought
Proteomics
Transcriptomics
Plant reproduction

File:

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Committee Members:

Michael Axtell, Chair of Committee
Hong Ma, Major Field Member & Dissertation Advisor
Jesse Lasky, Major Field Member
Teh-Hui Kao, Outside Unit & Field Member
Stephen Schaeffer, Professor in Charge/Director of Graduate Studies

Author:

Gopalan, Lalitha

Title:

Leghorn Chickens: Preclinical model for ovarian cancer prevention and early diagnosis

Graduate Program:

Animal Science

Keywords:

Ovarian cancer
Chickens
Metformin
Transcriptomics
EpCAM

File:

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Committee Members:

Francisco Diaz, Major Field Member
Ramesh Ramachandran, Chair & Dissertation Advisor
Troy Ott, Major Field Member
Kumble Prabhu, Outside Unit & Field Member
Adele Turzillo, Program Head/Chair