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Author:

Shipley, Mackenzie Marie

Title:

Examining the Link Between Viral Genotype and Disease Phenotype Using Clinical Cases of HSV-1 and a Human Neuronal Model

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

herpes simplex virus
genomics
infection
genital
neonatal
neurobiology

File:

Download ShipleyMM_PSU_Dissertation2018_Final.pdf

Committee Members:

Moriah Louise Szpara, Dissertation Advisor/Co-Advisor
Moriah Louise Szpara, Committee Chair/Co-Chair
Melissa Rolls, Committee Member
Richard J. Frisque, Committee Member
John Warren Wills, Outside Member
Lorraine C Santy, Committee Member

Author:

Yang, Tao

Title:

STATISTICAL METHODS FOR COMAPRING NEXT-GENERATION SEQUENCING DATA REPRODUCIBILITY, SIMILARITY AND DIFFERENTIATION

Graduate Program:

Bioinformatics and Genomics

Keywords:

sequencing
reproducibility
quality control
ChIP-seq
Hi-C
differential interaction
genomics

File:

Download TaoYang_dissertation_2018_FinalVersion.pdf

Committee Members:

Qunhua Li, Dissertation Advisor/Co-Advisor
Qunhua Li, Committee Chair/Co-Chair
Shaun Mohany, Committee Member
Yu Zhang, Committee Member
Ross Hardison, Outside Member
Feng Yue, Dissertation Advisor/Co-Advisor

Author:

Gonzalez Angel, Ana Maria

Title:

Genomic and Transcriptomic Insights on the -Orbicella- Species Complex

Graduate Program:

Biology

Keywords:

Coral Reefs
Orbicella
genomics
transcriptomics
speciation
reproductive isolation

File:

Download 2019_11_24_DoctoralDissertation_AMGA_final.pdf

Committee Members:

Monica Medina, Dissertation Advisor/Co-Advisor
James Harold Marden, Committee Chair/Co-Chair
Stephen Wade Schaeffer, Committee Member
Istvan Albert, Outside Member
Stephen Wade Schaeffer, Program Head/Chair

Author:

Reich, Hannah Gallogly

Title:

The importance of trace metals in coral-algal symbiosis

Graduate Program:

Biology

Keywords:

coral-algal symbiosis
Symbiodiniaceae
Trace metals
Metal quota
Iron limitation
Coral bleaching
genomics
Algal culturing
Dinoflagellate
Micronutrients
Physiology

File:

Download reich_dissertation_03202020.pdf

Committee Members:

Todd C Lajeunesse, Dissertation Advisor/Co-Advisor
Iliana Brigitta Baums, Committee Chair/Co-Chair
Roberto Iglesias-Prieto, Committee Member
Erin L Connolly, Outside Member
Tracy Langkilde, Program Head/Chair

Author:

Lasisi, Tina Tina

Title:

The genetic architecture and evolutionary function of human scalp hair morphology

Graduate Program:

Anthropology

Keywords:

hair morphology
human evolution
biological anthropology
human scalp hair
human genetics
genetics
genomics
phenotypic variation

File:

Download Lasisi_2021_Dissertation.pdf

Committee Members:

Nina G Jablonski, Dissertation Advisor/Co-Advisor
Nina G Jablonski, Committee Chair/Co-Chair
George H Perry, Committee Member
Tim Ryan, Major Field Member
Mark Shriver, Dissertation Advisor/Co-Advisor
Mark Shriver, Committee Chair/Co-Chair
William Lawrence Kenney, Jr., Outside Member
George Havenith, Special Member
Tim Ryan, Program Head/Chair

Author:

Benson, Christopher

Title:

Genomic and transcriptomic insight into the evolution and breeding of turfgrass species, Poa annua and Bouteloua dactyloides

Graduate Program:

Plant Biology

Keywords:

Poa annua
turfgrass
genetics
genomics
polyploidy
sequencing
breeding
annual bluegrass
annual meadowgrass
pistil smut
Bouteloua dactyloides
Buffalograss
Salmacisia buchloëana
the genome balance hypothesis
dioecy
tilletia
golf
putting green
homoeolog
polyploid plasticity hypothesis
chromosome modification
chromosome restructuring
fractionation
retrotransposon
synteny
RNA-seq
comparative genomics
pan-genome
transposable element
host manipulation
amphihapoid
haploid plants
allotetraploid
DNA methylation
Poa infirma
Poa supina

File:

Download Benson_dissertation.pdf

Committee Members:

Sally Mackenzie, Major Field Member
David Huff, Chair & Dissertation Advisor
Claude Depamphilis, Outside Field Member
Gary Felton, Outside Unit Member
Teh-Hui Kao, Program Head/Chair

Author:

Manickavasagam Pounraja, Vijay Kumar

Title:

Computational methods for dissecting the genetic basis of neurodevelopmental disorders

Graduate Program:

Bioinformatics and Genomics (PhD)

Keywords:

exome-sequencing
CNV
machine learning
rare variant genetics
genomics
neurodevelopmental disorders
random forest
apriori algorithm
rare combinations
combinatorial analysis

File:

Download Vijay_Kumar_Dissertation.pdf

Committee Members:

Naomi Altman, Major Field Member
Vasant Honavar, Outside Field Member
Yifei Huang, Major Field Member
Santhosh Girirajan, Chair & Dissertation Advisor
Reka Albert, Outside Unit Member
George Perry, Program Head/Chair

Author:

Mandell, Zachary

Title:

MECHANISMS OF INTRINSIC TRANSCRIPTION TERMINATION AND RIBONUCLEOLYTIC DECAY IN Bacillus subtilis

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

transcription
genomics
transcriptomics
RNA biology
translation
Microbiology

File:

Download Electronic_Dissertation.pdf

Committee Members:

Paul Babitzke, Chair & Dissertation Advisor
Istvan Albert, Major Field Member
Timothy Meredith, Outside Field Member
Philip Bevilacqua, Outside Unit Member
Katsuhiko Murakami, Major Field Member
Wendy Hanna-Rose, Program Head/Chair

Author:

Silva Gallardo, Constanza Paulina

Title:

The impact of nicotine exposure and cigarette smoking on gene expression and behavior from a translational perspective

Graduate Program:

Biobehavioral Health

Keywords:

gene expression
genomics
smoking
nicotine
translational
cigarette smoking
reduced nicotine-content cigarettes
RNA-Seq
DNA methylation
sex differences

File:

Download Silva-Dissertation.pdfDownload Appendix-A_Tables.zipDownload Appendix-B_Tables.zipDownload Appendix-C_Tables.zip

Committee Members:

Dajiang Liu, Outside Unit Member
David Vandenbergh, Major Field Member
Steven Branstetter, Outside Field Member
Helen Kamens, Chair & Dissertation Advisor
Thomas Gould, Program Head/Chair

Author:

Ray, Allyson

Title:

Deformed wing virus in the Western Honey Bee (Apis mellifera) : Genotypic and Phenotypic Variation Across Contexts and Scales

Graduate Program:

Molecular, Cellular, and Integrative Biosciences

Keywords:

deformed wing virus
Varroa destructor
Apis mellifera
epidemiology
virus evolution
experimental evolution
viral variation
virulence
transcriptomics
genomics

File:

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Committee Members:

David Kennedy, Outside Field Member
Moriah Szpara, Outside Unit & Field Member
Elizabeth Mcgraw, Major Field Member
Christina Grozinger, Co-Chair & Dissertation Advisor
Jason Rasgon, Co-Chair & Dissertation Advisor
Melissa Rolls, Program Head/Chair