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Author:

Rhee, Ho Sung

Title:

GENOME-WIDE ORGANIZATION OF TRANSCRIPTION MACHINERY DETECTED AT SINGLE NUCLEOTIDE RESOLUTION

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

ChIP-seq
genomic binding locations
transcription factors

File:

Download Rhee_Thesis.pdf

Committee Members:

Benjamin Franklin Pugh, Dissertation Advisor/Co-Advisor
Benjamin Franklin Pugh, Committee Chair/Co-Chair
David Scott Gilmour, Committee Member
Stephan Schuster, Committee Member
Istvan Albert, Committee Member
Debashis Ghosh, Committee Member

Author:

Wu, Weisheng

Title:

ROLES OF HISTONE MODIFICATIONS AND TRANSCRIPTION FACTORS IN TRANSCRIPTION REGULATION IN ERYTHROPOIESIS

Graduate Program:

Integrative Biosciences

Keywords:

Histone modifications
transcription factors
erythropoiesis
epigenetics
chromatin states

File:

Download WeishengWu_Thesis_Dec2011.pdf

Committee Members:

Ross Cameron Hardison, Dissertation Advisor/Co-Advisor
Ross Cameron Hardison, Committee Chair/Co-Chair
Eric Thomas Harvill, Committee Member
Yanming Wang, Committee Member
James Taylor, Committee Member
Francesca Chiaromonte, Committee Member

Author:

Kumar, Swathi Ashok

Title:

Epigenetic Modulation of Erythroid Expression: An Integrative Stud of Histone Modifications, Transcription Factors and Transcriptomes.

Graduate Program:

Genetics

Keywords:

Epigenetics
erythroid differentiation
multivariate statistics
histone modifications
transcription factors
G1E
G1E-ER4+E2

File:

Download KumarSA_May2012.pdf

Committee Members:

Ross Cameron Hardison, Dissertation Advisor/Co-Advisor
Robert Paulson, Committee Chair/Co-Chair
David Scott Gilmour, Committee Member
Kateryna Dmytrivna Makova, Committee Member
Francesca Chiaromonte, Special Member

Author:

Yamada, Naomi

Title:

Computational methods to characterize protein-DNA interactions in ChIP-exo data

Graduate Program:

Bioinformatics and Genomics

Keywords:

protein-DNA interactions
regulatory complexes
ChIP-exo
ChIP-seq
transcription factors
protein-DNA binding event detection

File:

Download NaomiYamada_Dissertation.final.pdf

Committee Members:

Shaun Mahony, Dissertation Advisor/Co-Advisor
Shaun Mahony, Committee Chair/Co-Chair
Benjamin Franklin Pugh, Committee Member
Ross Cameron Hardison, Committee Member
Qunhua Li, Outside Member
George H Perry, Program Head/Chair

Author:

Surrett, Ericka

Title:

Two bacterial enhancer binding proteins LuxO and SypG activate expression of a small RNA Qrr1 in the beneficial microbe Vibrio fischeri

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

Vibrio fischeri
bacterial enhancer binding proteins
Euprymna scolopes
squid
transcription factors
signaling networks
quorum sensing
LuxO
SypG
Qrr1
small regulatory RNA
transcription activation
bEBP
BinK
symbiosis
beneficial microbe
sigma-54
Vibrionaceae
RscS

File:

Download SurrettEricka_Dissertation.pdf

Committee Members:

Charles Fisher, Committee Member & Related Areas Repres
Shaun Mahony, Committee Member & Major Field Represnt
Timothy Miyashiro, Chair & Major Field Represnt
Timothy Meredith, Committee Member & Major Field Represnt
Sarah Ades, Committee Member & Major Field Represnt
James Ferry, Committee Member & Major Field Represnt
Ken Keiler, Professor in Charge/Director of Graduate Studies