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Author:

Venters, Bryan Jacob

Title:

HIGH-RESOLUTION GENOME-WIDE ORGANIZATION OF THE YEAST TRANSCRIPTION MACHINERY

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

ChIP-chip
Tiling microarrays
Pre-initiation complex
Chromatin
Saccharomyces
Mot1

File:

Download 080724_Venters_Thesis.pdf

Committee Members:

Benjamin Franklin Pugh, Committee Chair/Co-Chair
Joseph C. Reese, Committee Member
Ross Cameron Hardison, Committee Member
David Scott Gilmour, Committee Member
Naomi S Altman, Committee Member

Author:

Wu, Dai-Chen

Title:

FROM EXPLORING ROLES OF SIGNALS IN STRESS ERYTHROPOIESIS TO IN VITRO EXPANDING STRESS ERYTHROID PROGENITORS THAT ALLEVIATE ANEMIA

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

Hedgehog
BMP4
hypoxia
hematopoiesis
erythropoiesis
GDF15
anemia
stem cell

File:

Download DC_Wu_Dissertation_Final_renumbered.pdf

Committee Members:

Robert Paulson, Dissertation Advisor/Co-Advisor
Robert Paulson, Committee Member
Douglas Cavener, Committee Member
David Scott Gilmour, Committee Member
Pamela Hankey Giblin, Committee Member
Ross Cameron Hardison, Committee Member

Author:

Zou, Jizhong

Title:

Cis-elements for Notch-dependent expression and autoregulation of Drosophila AP-2 in developing leg and antenna

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

comparative genomics
Drosophila
enhancer
Notch signaling
leg development
transcription factor AP-2

File:

Download ZouThesisFinalHQ.pdf

Committee Members:

David Scott Gilmour, Committee Member
Ross Cameron Hardison, Committee Member
Zhi Chun Lai, Committee Member
Pamela J Mitchell, Committee Chair/Co-Chair
Kyung An Han, Committee Member

Author:

Cheng, Yong

Title:

MAPPING, CONSERVATION AND FUNCTION OF BINDING SITES FOR ERTHYROID TRANSCRIPTION FACTOR GATA1 IN THE MOUSE GENOME

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

conservation
ChIP-chip
GATA1
function

File:

Download Thesis_yongcheng.pdf

Committee Members:

Ross Cameron Hardison, Dissertation Advisor/Co-Advisor
Ross Cameron Hardison, Committee Chair/Co-Chair
Robert Paulson, Committee Member
Stephan C Schuster, Committee Member
David Scott Gilmour, Committee Member
Reka Z Albert, 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:

Ghosh, Sujana

Title:

Genome-wide studies of transcriptional responses in yeast (Saccharomyces cerevisiae)

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

transcription
microarrays
ChIP-exo

File:

Download Sujana_Ghosh_Thesis_2013.pdf

Committee Members:

Benjamin Franklin Pugh, Dissertation Advisor/Co-Advisor
Benjamin Franklin Pugh, Committee Chair/Co-Chair
Joseph C. Reese, Committee Member
David Scott Gilmour, Committee Member
Ross Cameron Hardison, Committee Member
Dr Debashis Ghosh, Committee Member
Scott Brian Selleck, Special Member

Author:

Jain, Deepti Prakash

Title:

Genome wide dynamics of GATA1 binding provide insights into the mechanisms of erythroid differentiation

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

GATA1
Next generation sequencing
Quality control
reproducibility
eryhtropoiesis

File:

Download DeeptiJain_dissertation.pdf

Committee Members:

Ross Cameron Hardison, Dissertation Advisor/Co-Advisor
Ross Cameron Hardison, Committee Chair/Co-Chair
Qunhua Li, Committee Member
Robert Paulson, Committee Member
David Scott Gilmour, Committee Member
Benjamin Franklin Pugh, Committee Member

Author:

Dogan, Nergiz

Title:

Elucidating Biological Function of Genomic DNA with Robust Signals of Biochemical Activity: Integrative Genome-wide Studies of Enhancers

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

Functional genomics
Gene regulation
TAL1
GATA1
Histone modifications
Enhancer assay

File:

Download Dogan_PhDThesis_final.pdf

Committee Members:

Ross Cameron Hardison, Dissertation Advisor/Co-Advisor
Ross Cameron Hardison, Committee Chair/Co-Chair
David Scott Gilmour, Committee Member
Robert Paulson, Committee Member
Philip L Reno, Committee Member
Anton Nekrutenko, Committee Member

Author:

Miller, Jason Eli

Title:

Detection of mRNA decay machinery association with RNA during unstressed and stressed conditions

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

Gene regulation
RNA decay
RIP-seq
Oxidative Stress
Ccr4-NOT

File:

Download Miller_final_dissertation.pdf

Committee Members:

Joseph C. Reese, Dissertation Advisor/Co-Advisor
Joseph C. Reese, Committee Chair/Co-Chair
Benjamin Franklin Pugh, Committee Member
Ross Cameron Hardison, Committee Member
Michael Axtell, Outside Member
David Scott Gilmour, Committee Member

Author:

Jiang, Haoyang

Title:

CHARACTERIZATION OF THE FUNCTIONS OF THE CCR4-NOT COMPLEX IN DNA DAMAGE RESPONSE

Graduate Program:

Molecular, Cellular and Integrative Biosciences

Keywords:

Ccr4-Not complex
RNAPII ubiquitination
Transcription and DNA damage repair

File:

Download Haoyang_Jiang_Thesis-V12.pdf

Committee Members:

Joseph C. Reese, Dissertation Advisor/Co-Advisor
Joseph C. Reese, Committee Chair/Co-Chair
David Scott Gilmour, Committee Member
Ross Cameron Hardison, Committee Member
Tae-Hee Lee, Outside Member
Melissa Rolls, Program Head/Chair