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2004 Undergraduate Biochemical Sciences Honors Theses 

Dunia Abdul-Aziz
Folding and Binding Integrity of LDL Receptor Type A Module Variants Possessing Multiple Alanine Substitutions
Dr. Stephen Blacklow, Laboratory Sponsor

Fatima Ahmad
HCMV Proteins US2, US3, and US11 Inhibit the MHC Class I Pathway and Do Not Interfere with the Processing of MHC Class II Molecules
Dr. Hidde Ploegh, Laboratory Sponsor

Heidi Bazick
Mutational Analysis of a Highly Conserved Immunodominant SIV Gag CTL Epitope
Dr. Norman Letvin, Laboratory Sponsor

David K. Breslow
Towards New Tools for Chemical Genetics: Dimeric Small Molecules and FRET-based Detection of Small Molecule-Protein Binding
Dr. Stuart L. Schreiber, Laboratory Sponsor

Jonathan Esensten
Tumor Necrosis Factor Gene Expression Is Activated by NFAT5 Via a Novel Mechanism in Response to Hypertonic Stress
Dr. Anne Goldfeld, Laboratory Sponsor

Victor Yang Gao
Decomposing AA-Transpose: A Computational Approach to Elucidating the Organization of Metabolic Networks Using Singular Value Decomposition (SVD)
Dr. Aviv Regev, Laboratory Sponsor

Lauren M. Goins
The Impact of LTR Variation on Lentiviral Virulence
Dr. Ruth Ruprecht, Laboratory Sponsor

Carleton Goold
Identification of Two Molecularly Distinct Populations of Mitral Cell in the Adult Vomeronasal System
Dr. Catherine Dulac, Laboratory Sponsor

Rozalina Grubina
The Development of DNA-Templated Synthesis for the Creation and Discovery of Synthetic Small Molecules
Dr. David R. Liu, Laboratory Sponsor

Gary P. H. Ho
Regulation of the DNA damage response by the BRCA1-Associated RING Domain (BARD1) Protein
Dr. Alan D'Andrea, Laboratory Sponsor

Gloria Hou
The Development and Application of a High Throughput Screen for Specific Inhibitors of Yeast Histone Deacetylases Hda1 and Rpd3
Dr. Stuart L. Schreiber, Laboratory Sponsor

Susan Jen Huang
Structural Basis for Recognition and Repair of the Adenine:8-oxoguanine Lesion by the Adenine Glycosylase MutY
Dr. Gregory L. Verdine, Laboratory Sponsor

Mai Anh Huynh
Purification and Crystallization of 70S ribosome-bound EF-Tu-GTP-phe-tRNAphe
Dr. Venki Ramakrishnan, Laboratory Sponsor

Jyoti Kandlikar
Identification and Characterization of Small Molecule Suppressors and Enhancers of Histone 3 Lysine 4 Dimethylation
Dr. Stuart L. Schreiber, Laboratory Sponsor

Irene Seungwon Kim
Examining the Role of μ1 N-myristoylation in Reovirus Entry
Dr. Max Nibert, Laboratory Sponsor

Ryan R. Klimczak

Identification of Genes Regulating Longevity Using Enhanced RNAi-sensitive Strains in C. elegans
Dr. Gary Ruvkun, Laboratory Sponsor

André R. Kydd
Molecular Regulation of Protein Tyrosine Phosphatase SHP-1 P2 Promoter Activity in Uninfected and Human T-cell Lymphotropic Virus Type-1 (HTLV-1)-Transformed T-cells
Dr. Wayne A. Marasco,Laboratory Sponsor

Angela Landrigan
Directed Evolution of an RNA-based Transcriptional Activator
Dr. David R. Liu,Laboratory Sponsor

Aaron Yuntai Lee
Computational Methods for Analyzing DNA Variation with a New Ultra-Parallel Sequencing Platform
Dr. George Church,Laboratory Sponsor

David King Lee
Characterization of BAP1: A YY1 Interacting Protein
Dr. Yang Shi, Laboratory Sponsor

Yuen-Jong Liu
An Oligonucleotide Microarray-Based Method for Determining Nucleosome Positioning in Saccharomyces cerevisiae
Drs. Steven J. Altschuler and Lani F. Wu, Laboratory Sponsors

Maria Lonshteyn
Biopolymeric Alchemy and sRNA Metamorphosis: Applying Molecular Evolution Approach to the Elucidation RNA Function
Dr. David R. Liu, Laboratory Sponsor

Karolina Maciag
A Computational Approach to the Identification of Protein Network Elements Involved in the Coupling of Gene Expression Machines in Eukaryotic Cells
Drs. Tom Maniatis, Steven J. Altschuler, and Lani F. Wu, Laboratory Sponsors

Maria Lucia L. Madariaga
Role of the CD47:SIRPα Interaction in Macrophage-mediated Phagocytosis Across a Highly Disparate Xenogeneic Barrier
Dr. Yong-Guang Yang, Laboratory Sponsor

Anna Lenora McLoon
Regulation of Synaptic CaMKII Expression by a Nicotinic Receptor Associated Protein, Rapsyn
Dr. Samuel Kunes, Laboratory Sponsor

Hillary Moberly
Receptor Methylation Profiles in Chemotaxis of Esherichia coli
Dr. Howard Berg, Laboratory Sponsor

Nilah Monnier
High-resolution Structural and Functional Studies of Sialic Acid Binding Variants of Rotavirus VP8*
Dr. Stephen C. Harrison, Laboratory Sponsor

Aaron Nagiel
siRNA-mediated Down-regulation of Caveolin in Endothelial Cells and Cardiomyocytes: Differential Modulation of Signaling Pathways
Dr. Thomas Michel, Laboratory Sponsor

Deipanjan Nandi
Towards the Global Analysis of Tyrosine Phosphorylation in Cellular Signaling
Dr. Gavin Macbeath, Laboratory Sponsor

Kwadwo Asare Oduro, Jr.
In vivo FRET Microscopy assay for SUMOylation
Dr. Kurt S. Thorn, Laboratory Sponsor

Renée M. Paradise
Transcriptional Regulation of Membrane Lipid Homeostasis in Mammalian Cells
Dr. Axel Nohturfft, Laboratory Sponsor

Parin Patel
Biochemical and Functional Characterization of SIRT6 and SIRT7, Mammalian Homologs of the Yeast Silencing Protein Sir2
Dr. Frederick W. Alt, Laboratory Sponsor

Daniel Anthony Pietras
Preliminary Characterization of C3d-Mediated Protection of B Cells Against Apoptosis Using Semiquantitative Real-Time PCR
Dr. Michael C. Carroll, Laboratory Sponsor

Daniel M. S. Raper
γ-Secretase Function and Localization at the Cell Surface:  Implications for APP Function and Alzheimer's Disease
Dr. Dennis Selkoe, Laboratory Sponsor

Felicia Rosario
The role of Jak2 Tyrosine Phosphorylation Sites in Leptin Receptor Signaling
Dr. Martin Myers, Laboratory Sponsor

Robin Jian Tang
Caenorhabditis elegans as a Model to Elucidate Host-Pathogen Interaction with Cryptococcus neoformans: Development and Application of a Progeny Screen for Relevant Mutants
Dr. Stephen B. Calderwood, Laboratory Sponsor

Aaron Mark Udager
A Chondrogenic Cellular Environment Provides a Competence for Runx2 to Induce Collagen X Expression
Dr. Andrew Lassar, Laboratory Sponsor

Jordan M. VanLare
Capsular Polysaccharide Phase Variation in Bacteroides fragilis Mutants
Dr. Dennis L. Kasper, Laboratory Sponsor

Samuel C. Volo
A Novel Role for the Saccharomyces cerevisiae Spt10 Transcription Factor Independent of Spt21 Function
Dr. Fred Winston, Laboratory Sponsor

Andrew Wang
The Role of Complement C4 In B-Cell Tolerance
Dr. Michael C. Carroll,Laboratory Sponsor

Iris Wei
Molecular Characterization of Renal Cell Carcinoma by Gene Expression Profiling
Dr. Marco Ramoni, Laboratory Sponsor

Joanne C. Wen
A Systematic Screen for Synthetic Lethality Reveals Multiple Mechanisms of Genetic Redundancy
Dr. Craig P. Hunter, Laboratory Sponsor

Steven LaCroix Williams
Directed Evolution of Monomeric Red Fluorescent Protein via Random Mutagenesis
Dr. Kurt S. Thorn, Laboratory Sponsor

Albert C. Yeung
Role of Ext2 in Pattern Formation and Hedgehog Signaling in Drosophila melanogaster
Dr. William Gelbart, Laboratory Sponsor

Jackie Yuen
Studies on the Role of the Transmembrane Domains in Oligomerization and Activity of Ectoapyrase CD39
Dr. Guido Guidotti, Laboratory Sponsor

Yipeng “Woodie” Zhao
Functional Genomic Analysis of Acetic Acid Production, Adaptation, and Resistance in Wine Yeasts
Dr. Duccio Cavalieri, Laboratory Sponsor