Dissertations from Past Students

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2014

Atkins, Benjamin
Inhibition of Cdc42 during mitotic exit is required for cytokinesis in Saccharomyces cerevisiae
Advisor: David Pellman

Blain, Jonathan
Non-Enzymatic Copying of Nucleic Acid Templates
Advisor: Jack Szostak

Bowen, Margot
Applying Next Generation Sequencing to Skeletal Development and Disease
Advisor: Matthew Warman

Cong, Le
Genome Engineering Technology and Its Application in Mammalian Cells
Advisor: George Church

Gasser, Jessica
Serum and Glucocorticoid- Regulated Kinase Signaling in Breast Cancer
Advisor: Alex Toker

Gifford, Casey
Transcriptional and Epigenetic Dynamics Observed During Lineage Specification of Human Embryonic Stem Cells
Advisor: Alexander Meissner

Goodman, Brian
Investigating Cytoskeletal Motor Mechanisms using DNA Nanotechnology
Advisor: Samara Reck-Peterson

Ho, Brian
Characterization of the Antibacterial Activity of the Type VI Secretion System
Advisor: John Mekalanos

Levasseur, Kathryn
Elucidating the virulence control network in Francisella tularensis
Advisor: Simon Dove

Lin, Youshan Melissa
The role of Ppargc1αlpha in neuronal survival and myelination in the neocortex
Advisor: Paola Arlotta

Naxerova, Kamila
Tracing human cancer evolution with hypermutable DNA
Advisor: Rakesh Jain

Ng, Shyh Chang
Regulation of Stem Cell Metabolism by the Lin28/let-7 Axis
Advisor: George Daley

Nizza, Suzanne Josette
The Role of Dendritic Cell Subsets in Cross-presentation and Stimulation of Homing Marker Expression
Advisor: James Campbell

Olive, Andrew
Immunity to Chlamydia trachomatis and Host-Pathogen Interactions During Infection
Advisor: Michael Starnbach

Quan, Jie
The Roles of RNA-binding Proteins in the Developing Nervous System
Advisor: John Flanagan

Ratanasirintrawoot, Sutheera
Defining markers and mechanisms of human somatic cell reprogramming
Advisor: George Daley

Ray, Mridula
Long non-coding RNAs interact with PRC1 to impact Polycomb group protein recruitment and expression of Polycomb regulated genes
Advisor: Robert Kingston

Robinson, Kathleen
Cutaneous Biology and Endogenous Opioids: How the Skin Modulates Pain and Addiction
Advisor: David Fisher

Sharifnia, Tanaz
Genetic and Chemical Modifiers of EGFR Dependence in Non-Small Cell Lung Cancer
Advisor: Matthew Meyerson

Yang, Peter
Central role for Sonic hedgehog-triggered pericytes in hindbrain choroid plexus development
Advisor: Susan Dymecki

2013

Adamson, Brittany
A genome-wide study of homologous recombination in mammalian cells identifies RBMX, a novel component of the DNA damage response
Advisor: Stephen Elledge

Austin-Tse, Christina
Sensational propellers: novel protein functions in cilia assembly and motility
Advisor: Iain Drummond

Baca, Sylvan
The landscape of somatic mutations in primary prostate adenocarcinoma
Advisor: Levi Garraway

Bagchi, Mandrita
Role of Vascular Endothelial Growth Factor Signaling in Brown Adipocyte Survival, Proliferation and Function
Advisor: Patricia D'Amore

Burrill, Devin
Tracking cell fate with synthetic memory circuits
Advisor: Pamela Silver

Cai, Xuyu
Single-Neuron Sequencing to Explore Somatic Genetic Variants in Normal and Pathological Human Brain Development
Advisor: Christopher Walsh

Choi, Seungwon
Regulation of Behavioral Arousal in C.elegans
Advisor: Joshua Kaplan

Christodoulou, Danos
Methods for comprehensive transcriptome analysis using next-generation sequencing and application in hypertrophic cardiomyopathy
Advisor: Jonathan Seidman

Clark, Erin
New Mechanisms of Activation by Histone Demethylases in Gene Regulation
Advisor: Yujiang Shi

Daniels, Rachel
Genomic tools reveal changing Plasmodium falciparum populations
Advisor: Dyann Wirth

Davidowitz, Rachel
Mechanisms Governing Mesothelial Clearance by Ovarian Cancer Spheroids
Advisor: Joan Brugge

Dickson, John
The Role of the Human Tau 3’-Untranslated Region in Regulating Tau Expression
Advisor: Michael Wolfe

Edwards, Amanda
Dissecting and Targeting the PUMA and OLIG2 Control Points of Tumors of Neuroectodermal Origin with Stapled Peptides
Advisor: Loren Walensky

Er, Ekrem
Discovering Novel Feedback and Crosstalk Mechanisms in Cellular Signaling Pathways
Advisor: John Blenis

Evrony, Gilad
Single-cell Sequencing Studies of Somatic Mutation in the Human Brain
Advisor: Christopher Walsh

Fankhauser, Sarah
Characterization of impaired CD8+ T cell responses to Chlamydia trachomatis
Advisor: Michael Starnbach

Grady, Joshua
Adapting Quantitative Protein and Phosphorylation Analyses to a Proteome-Wide Scale
Advisor: Steven Gygi

Hrvatin, Sinisa
Exploring the use of human pluripotent stem cells to create functional pancreatic β cells
Advisor: Douglas Melton

Keskin, Doruk
Functional Contribution of PDGFRbeta+ Cells in Angiogenesis and Metastatic Breast Cancer
Advisor: Raghu Kalluri

Konieczkowski, David
Systematic approaches to overcoming limitations of MAPK pathway inhibition in melanoma
Advisor: Levi Garraway

Kostic, Aleksandar
Deep sequencing and functional analyses identify a role of Fusobacterium species in colorectal tumorigenesis
Advisor: Matthew Meyerson

Kowalko, Johanna
The genetic basis of behavior in the blind Mexican cavefish, Astyanax mexicanus
Advisor: Clifford Tabin

Lohmueller, Jason
Synthetic Biology Approaches to Engineering Human Cells
Advisor: Pamela Silver

Lopez, Lyle Vincent
Regulation of Gli proteins by the Hedgehog Signaling Pathway
Advisor: Adrian Salic

Maeder, Morgan
Engineered DNA-Binding Proteins for Targeted Genome Editing and Gene Regulation
Advisor: Jae Joung

McLaughlin, Sara
Identification and Analysis of a New Tumor and Metastasis Suppressor Gene, RASAL2
Advisor: Karen Cichowski

Montero Diez, Cristina
Functional characterization of a bacteriophage-encoded inhibitor of Staphylococcus aureus transcription
Advisor: Ann Hochschild

Moorjani, Priya
Genetic study of population mixture and its role in human history
Advisor: David Reich

Nedelcu, Daniel
Smoothened regulation in the Hedgehog signaling pathway
Advisor: Adrian Salic

O'Day, Elizabeth
Using NMR to identify structural features of Lin28-regulated miRNAs and mRNAs and as a tool for comparing differences in cellular metabolism
Advisor: Judy Lieberman

Pavlova, Natalya
A Role for PVRL4-driven Cell-Cell Interactions in Tumorigenesis
Advisor: Stephen Elledge

Reavey, Caitlin
Analysis of Transcription Activation Distance as a Polygenic Trait in Saccharomyces cerevisiae
Advisor: Fred Winston

Redwine, William
The Structural Basis for Microtubule Binding and Release by Dynein
Advisor: Andres Leschziner

Rhee, David
Transcription Factor Networks in Drosophila melanogaster
Advisor: Spyridon Artavanis-Tsakonas

Rosen, Jonathan
The function of the Heg-CCM pathway in zebrafish heart development
Advisor: John Mably

Ross, Leila
HARNESSING EVOLUTIONARY FITNESS IN PLASMODIUM FALCIPARUM FOR DRUG DISCOVERY AND SUPPRESSING RESISTANCE
Advisor: Dyann Wirth

Sarraf, Shireen
Defining the landscape of the PARKIN- and PINK1-dependent ubiquitin-modified proteome in response to mitochondrial dysfunction
Advisor: J.Wade Harper

Shao, Diane
Functional Genomics Approaches to Identify and Characterize Oncogenic Signaling
Advisor: William Hahn

Shyer, Amy
The Role of Mechanical Forces in Patterning and Morphogenesis of the Vertebrate Gut
Advisor: Clifford Tabin

Terrell, Shariya
Importance of the Pre-NH2-Terminal Domain of HSV-1 DNA Polymerase for Viral Replication
Advisor: Don Coen

Thompson, Morgan
Evolutionarily Conserved Function of Huntingtin in Cellular Dynamics Related to Cell Adhesion and the Cytoskeleton
Advisor: Marcy MacDonald

Tukachinsky, Hanna
Mechanistic Studies of Vertebrate Hedgehog Signaling
Advisor: Adrian Salic

Vo, Annie
Glucose Metabolism in Cancer-Associated Fibroblasts
Advisor: Raghu Kalluri

Woodworth, Mollie
Transcriptional controls over neocortical projection neuron identity and connectivity
Advisor: Jeffrey Macklis

Wu, Melissa
Enhancing Myoblast Fusion for Therapy of Muscular Dystrophies
Advisor: Emanuela Gussoni

Xiang, Michael
Physiological and Pharmacological Regulation of the STAT3 Pathway in Cancer
Advisor: David Frank

Yang, Luhan
Development of Human Genome Editing Tools for the Study of Genetic Variations and Gene Therapies
Advisor: George Church

Yang, Yawei
ZNF335: A Novel Regulator of Stem Cell Proliferation and Cell Fate in the Cerebral Cortex
Advisor: Christopher Walsh

Yoo, Ronnie
Mechanisms of Stem Cell Regulation in Medulloblastoma
Advisor: Laurie Jackson-Grusby

Yu, Yueyang
Induction of Mitotic Alterations by the Human Papillomavirus Type 16 E7 Oncoprotein: Mechanistic Studies
Advisor: Karl Münger

2012

Albacker, Colleen
Chromatin-modifying factors in zebrafish models of rhabdomyosarcoma and hematopoiesis
Advisor: Leonard Zon

Alston, Jessica
Genetic and Functional Studies of Non-coding Variants in Human Disease
Advisor: David Altshuler

Beier, Kevin
Viral Tracing of Neuronal Circuitry
Advisor: Constance Cepko

Boyle, Patrick
Network-scale engineering: systems approaches to synthetic biology
Advisor: Pamela Silver

Burrows-Mazzucco, Anna
Genome-Wide Loss-of-Function Genetic Screens Identify Novel Senescence Genes and Putative Tumor Suppressors
Advisor: Stephen Elledge

Cenik, Can
Studies on the Evolution and Function of Introns in 5’Untranslated Regions
Advisor: Frederick Roth

Cohen, Nicole
Selective Small Molecule Targeting of Anti-Apoptotic MCL-1
Advisor: Loren Walensky

Dempsey, Jamie
SRPK2 phosphorylation by the AGC kinases, and mTORC1 regulation of alternative splicing
Advisor: John Blenis

DuBoff, Brian
Disruption of mitochondrial dynamics in tauopathy
Advisor: Mel Feany

Eggert, Stacey
Identification and Characterization of Genetic Variants Conveying Risk to Develop Uterine Leiomyomata
Advisor: Cynthia Morton

Finley, Lydia
Regulation of metabolic reprogramming by sirtuins and calorie restriction
Advisor: Marcia Haigis

Follmer, Nicole
Investigation of the inheritance of Polycomb Group-dependent repression through mitosis
Advisor: Nicole Francis

Grau, Daniel
Mechanistic studies of Polycomb group proteins
Advisor: Robert Kingston

Hebert, Alan
Functional Relationship Between Merlin and the ERM Proteins
Advisor: Andrea McClatchey

Hu, Jimmy
Diverse Roles of Cell Signaling during Early and Late phases of Limb Development
Advisor: Clifford Tabin

Huang, Hsuan-Ting
Epigenetic Regulation of Hematopoiesis in Zebrafish
Advisor: Leonard Zon

Hung, Yin
Single Cell Imaging of Metabolism with Fluorescent Biosensors
Advisor: Gary Yellen

Janas, Maja
Novel regulation of microRNA biogenesis and function
Advisor: Carl Novina

Kaanta, Alice
Evidence for a novel multipotent mammary progenitor with pregnancy-specific activity
Advisor: Joan Brugge

Kane, Elizabeth
The sensory and behavioral basis of Drosophila larval phototaxis
Advisor: Aravinthan Samuel

Kawasaki, Jun
RASA1 Function in Vascular Development and Disease
Advisor: Joanne Chan

Kiely, Christine
Spt6 regulates transcription and chromatin structure in the fission yeast, Schizosaccharomyces pombe
Advisor: Fred Winston

Kim, Minsu
Regulatory Interaction of the Class III PI3 Kinase Complex and p53
Advisor: Junying Yuan

Kwiatkowski, Nicholas
Development of Mps1, Aurora and Cdk7 inhibitors and their application to the analysis of the cell cycle
Advisor: Nathanael Gray

Lapan, Ariya
Melanoma Cell Adhesion Molecule is Associated with Myogenicity in Multiple Progenitor Populations within Human Fetal Skeletal Muscle
Advisor: Emanuela Gussoni

Li, Victor
The cell cycle and differentiation in stem cells
Advisor: Marc Kirschner

Lin, Chieyu
Developmental Origins of Aggressive Medulloblastoma
Advisor: Laurie Jackson-Grusby

Liu, Jianing
Molecular Modulators of Hematopoiesis and Leukemogenesis
Advisor: Amy Wagers

Markovski, Monica
Bacterial cell wall synthases require outer membrane lipoprotein cofactors
Advisor: Thomas Bernhardt

Mitra, Devarati
THE ROLE OF PIGMENTATION AND ONCOGENIC BRAF IN MELANOMA
Advisor: David Fisher

Mizeracka, Karolina
Functional analysis of Notch signaling during vertebrate retinal development
Advisor: Constance Cepko

Morris-Singer, Corey
A Role for Nucleoporin Nup211 in Centromere Structure and Function in Schizosaccharomyces pombe
Advisor: Danesh Moazed

Ng, Mei
Mechanical Regulation of Epithelial Cell Collective Migration
Advisor: Joan Brugge

O'Connell, Daniel
An Epithelial-Mesenchymal Gene Regulatory Network that Controls Tooth Organogenesis
Advisor: Richard Maas

Paik, Elizabeth
Caudal transcription factors in hematopoietic development
Advisor: Leonard Zon

Park, Eunyong
Mechanistic studies of SecY-mediated protein translocation in intact Escherichia coli cells
Advisor: Tom Rapoport

Price, Nathan
The role of SIRT1 in preventing mitochondrial dysfunction with obesity and aging
Advisor: David Sinclair

Ramirez, Cherie
Improving Zinc Finger Nucleases –Strategies for Increasing Gene Editing Activities and Evaluating Off-Target Effects
Advisor: Jae Joung

Ramos, Alexis
Cancer Genome Characterization with SNP Array and Whole-Exome Sequencing Analysis
Advisor: Matthew Meyerson

Ramsdell, Talia
Molecular Motors of ESX-type Secretion Systems
Advisor: Sarah Fortune

Rossin, Elizabeth
The proteomic landscape of human disease: construction and evaluation of networks associated to complex traits
Advisor: Mark Daly

Schrock, Alexa
Signaling and Feedback Networks Underlying Sensitivity and Resistance to Kinase Inhibitors in Oncogene Addicted Cancers
Advisor: Jeffrey Engelman

Shore, David
Cytoprotective Pathways that Contribute to Lifespan Extension in C. elegans
Advisor: Gary Ruvkun

Su, Xiaolei
Regulation of Microtubule Dynamics by Molecular Motors
Advisor: David Pellman

Tajonar, Adriana
Genetic Approaches to Study Human Embryonic Stem Cell Self-Renewal and Survival
Advisor: Douglas Melton

Taylor, Alison
Ribosomal Protein Mutations in Hematopoiesis and Zebrafish Development
Advisor: Leonard Zon

Thompson-Peer, Katherine
Transcriptional Regulation of Synapse Remodeling in C. elegans
Advisor: Joshua Kaplan

Turner, Keith
Bistability in Pseudomonas aeruginosa
Advisor: Simon Dove

Vo, Thanh-Trang
Mitochondrial Priming Determines Chemotherapeutic Response in Acute Myeloid Leukemia
Advisor: Anthony Letai

Wang, Charlotte
A ChIP-mass spectrometry approach to analysis of dosage compensation in Drosophila
Advisor: Mitzi Kuroda

Wang, Xun
IRF3 is a Critical Regulator of Adipose Glucose and Energy Homeostasis
Advisor: Evan Rosen

Wivagg, Carl
Molecular Genetics of Beta-Lactam Sensitivity and Resistance in Mycobacterium tuberculosis
Advisor: Deborah Hung

Xu, Cong
Early Cell Fate Determination in Zebrafish
Advisor: Leonard Zon

Yang, Desiree
The ABC’s of Cell Division: Regulation of Peptidoglycan Amidase Activity During Cytokinesis in Escherichia coli
Advisor: Thomas Bernhardt

Yang, Kailin
Regulation of the Fanconi Anemia Pathway by Deubiquitination
Advisor: Alan D'Andrea

Zhou, Alicia
Elucidating the regulation and effectors of the breast cancer oncogene, IKKepsilon
Advisor: William Hahn

Zhou, Vicky
Methods for Global Characterization of Chromatin Regulators in Human Cells
Advisor: Bradley Bernstein

Zwemer, Lillian
Allele-specific gene expression in the laboratory mouse
Advisor: Andrew Chess

2011

Agapakis, Christina
Biological design principles for synthetic biology
Advisor: Pamela Silver

Baughman, Joshua
Computational and Genetic Screens for Regulators of Oxidative Phosphorylation
Advisor: Vamsi Mootha

Billings, Nathan
Thyroid Hormone Signaling during Chick Retinal Development
Advisor: Constance Cepko

Chao, Michael
Post-transcriptional control of the essential autolysin RipA in Mycobacterium tuberculosis
Advisor: Eric Rubin

Chen, An-Jou
Identification and Characterization of Genetic Targets in Gliomagenesis
Advisor: Ronald DePinho

Chiang, Charleston
Considerations of evolutionary conservation and genetic ancestry in human genetic association studies
Advisor: Joel Hirschhorn

Chou, Danny
The DNA Damage Response in Mammalian Cells
Advisor: Stephen Elledge

Christofferson, Dana
A study of necroptosis and its control by RIP1 kinase
Advisor: Junying Yuan

Chung, Hachung
Gut Immune Maturation Depends Upon Colonization with Host-Specific Microbiota
Advisor: Dennis Kasper

Clower- Purington, Cynthia
hnRNPs A1 and A2 Control Alternative Splicing of PK-M and Mediate Metabolic Programming of Cancer Cell Metabolism
Advisor: Lewis Cantley

Cohen, Sonia
Activity-Dependent Phosphorylation of MeCP2 in Neural Development and Rett Syndrome
Advisor: Michael Greenberg

Cohick, Claudine
Protein Kinase D Signaling Through Substrate Phosphorylation in Endocytic Trafficking
Advisor: Alex Toker

Curtis, Stephen
Lung tumor-propagating cells: importance of genotype and a role in metastasis
Advisor: Carla Kim

Feeney, Morgan
Rewiring thiol-redox pathways of electron transfer in Escherichia coli
Advisor: Jonathan Beckwith

Flusberg, Deborah
Life-Death Signaling and Sensitivity to Death Ligands in Subpopulations of Cells
Advisor: Peter Sorger

Ford, Knatokie
Role of VEGF in the Adult: A Tale of Two Epithelia
Advisor: Patricia D'Amore

Gerace, Erica
Regulation of RNA-mediated Heterochromatin Assembly in S. pombe
Advisor: Danesh Moazed

Giusti-Rodriguez, Paola
Assessing the roles of Cdk5/p25 in synaptic plasticity and neurodegeneration
Advisor: Li-Huei Tsai

Grassian, Alexandra
Extracellular Matrix and Oncogene Regulation of Growth Factor Signaling and Cellular Metabolism
Advisor: Joan Brugge

Herman, Daniel
Massively parallel, targeted DNA resequencing and cardiovascular disease
Advisor: Jonathan Seidman

Hite, Richard
Lipid-Protein Interactions in Two-Dimensional Crystals of Aquaporin-0
Advisor: Thomas Walz

Ho, Dennis
Discovery and Validation of Prognosis Determinants in Cancer Progression
Advisor: Ronald DePinho

Hom, Sabrina
Trans-Synaptic Signaling at C. elegans Neuromuscular Junctions
Advisor: Joshua Kaplan

Hu, Chi-Kuo
Spatiotemporal Regulation of Microtubules during Cytokinesis
Advisor: Timothy Mitchison

Hubbard, Basil
Mechanisms of Mammalian Sirtuin Regulation in Health and Disease
Advisor: David Sinclair

Ilic, Nina
The PI3K - pathway in tumorigenesis and cancer drug resistance
Advisor: Thomas Roberts

Jehl, Stephanie
The role of innate and adaptive immune mediators in the intracellular recognition of Shigella flexneri
Advisor: Michael Starnbach

Jun, Lucy
Mechanisms of obesity-induced insulin resistance: A possible role for Lipocalin 2
Advisor: Evan Rosen

Kloimwieder, Anne
An investigation of sporulation and germination in Saccharomyces cerevisiae
Advisor: Fred Winston

Loya, Carlos
MicroRNA Control of Synapse Development
Advisor: David Van Vactor

Lukens, Amanda
The identification of novel variant surface antigens of Plasmodium falciparum
Advisor: Dyann Wirth

Madigan, Cressida
Lipidomic and genetic dissection of the M. tuberculosis iron scavenging response
Advisor: D. Branch Moody

Mahoney, Sarah
AGC kinases: new targets and crosstalk nodes
Advisor: John Blenis

McKenna, Elizabeth
Epigenetically driven tumor suppression by SNF5
Advisor: Charles Roberts

McLoon, Anna
Genetic studies on the regulation of biofilm formation and the domestication of the bacterium Bacillus subtilis
Advisor: Richard Losick

McManus, Heather
Genome-wide location analysis of H-NS family members and studies of the control of cupA gene expression in P. aeruginosa
Advisor: Simon Dove

Mora-Blanco, Eva
Regulation of the Wnt and Hedgehog Signaling Pathways by the Swi/Snf Complex
Advisor: Charles Roberts

Nottke, Amanda
Investigations into the roles of a histone demethylase during meiosis
Advisor: Yang Shi

Olsen, Rachelle
Analysis of Antizyme Inhibitor Function in Prostate Tumor Growth and Centrosome Amplification
Advisor: Bruce Zetter

Pastor, William
Studies of 5.8S ribosomal RNA biogenesis and 5-hydroxymethylcytosine mapping
Advisor: Anjana Rao

Pielak, Rafal
The influenza M2 proton channel: mechanism of proton conductance, inhibition and resistance
Advisor: James Chou

Piskounova, Elena
Post-transcriptional regulation of let-7 microRNA expression in embryonic stem cells and cancer
Advisor: Richard Gregory

Plant, Joshua
ESCRT-II links RNA localization to endosomal trafficking
Advisor: Michael Blower

Puram, Sidharth
Calcium-Regulated Ubiquitin Signaling at the Centrosome Drives Dendrite Patterning in the Mammalian Brain
Advisor: Azad Bonni

Roush- Brown, Rebecca
Biosynthesis of N-P Bond Containing Peptide Natural Products
Advisor: Christopher T Walsh

Russel, Sascha
Genetic and functional genomic analysis of C. elegans molting
Advisor: Gary Ruvkun

Schneiderman, Jonathan
‘Don’t worry, I’ve got it covered!’ – Replication-independent nucleosome assembly and the maintenance of chromatin
Advisor: Kami Ahmad

Senapedis, William
Forkhead at the Crossroads of Cancer and Healthy Lifespan
Advisor: Pamela Silver

Shrestha, Yashaswi
Deciphering Mechanisms of Cell Transformation through Functional Genomics
Advisor: William Hahn

Sikorski, Timothy
Identification of Promoter Associated Factors with Quantitative Proteomics
Advisor: Stephen Buratowski

Smurnyy, Yegor
Studying cytokinesis using small molecule tools
Advisor: Ulrike Eggert

Stewart, Michelle
Targeting the Anti-Apoptotic Protein MCL-1 in Human Cancer
Advisor: Loren Walensky

Storer, Narie
Characterization of the myogenic program in zebrafish rhabdomyosarcoma
Advisor: Leonard Zon

Sung, Jung Hwan
Chemokine Guidance of Anti-Viral Memory T Cell Responses in the Lymph Node
Advisor: Ulrich von Andrian

Terzi, Nihal
A Functional Connection between Noncoding RNA Polymerase II Transcription and Chromatin
Advisor: Stephen Buratowski

Trevino, Simon
Mosaic nucleic acids that bind purine nucleotides
Advisor: Jack Szostak

Tse, Joyce
Functional Heterogeneity of Fibroblasts in Cancer Progression and Metastasis
Advisor: Raghu Kalluri

Tubo, Noah
Molecular Requirements for the Tissue Specific Trafficking of T Cells
Advisor: James Campbell

Vong, Sylvia
The Functional Contribution of Alpha Smooth Muscle Actin-Positive Myofibroblasts in the Initiation of Lung Cancer
Advisor: Raghu Kalluri

Woo, Janghee
Mesenchyme-epithelial interactions in gastrointestinal development and tumorigenesis
Advisor: Ramesh Shivdasani

Yan, Han
NETWORK PERSPECTIVES OF BIOLOGICAL SYSTEMS
Advisor: Marc Vidal

Zeng, Xing
Mechanism of Small Molecule Inhibitors of the Anaphase-Promoting Complex/Cyclosome
Advisor: Randall King

2010

Ahn, Sejin
Regulation of the inv1+ gene in Schizosaccharomyces pombe
Advisor: Fred Winston

Armour, Sean
Characterization of mammalian sirtuin regulators, targets, and complexes
Advisor: David Sinclair

Baca, Quentin
Adaptor proteins regulate cellular functions in the context of a dynamic membrane interface
Advisor: David Golan

Baltz- Adamo, Jennifer
Structural, Biochemical, and Biophysical Characterization of the KSHV DNA Polymerase Accessory Subunit, PF-8
Advisor: James Hogle

Bolcome, Robert
Consequences of Anthrax Lethal Toxin Action on the Vasculature
Advisor: Joanne Chan

Boyden, Steven
Genetics of Exceptional Human Longevity, Interstitial Cystitis, and Hereditary Myopathies
Advisor: Louis Kunkel

Bracha, Abigail
Metabolism-mediated Control of Cellular Differentiation
Advisor: Donald Ingber

Bruckner, Raphael
Material properties of protocellular and biological membranes
Advisor: Jack Szostak

Carmona, Juan
Sirtuin-mediated mechanisms of homeostasis and aging in metazoans
Advisor: David Sinclair

Charity, James
Transcription regulation of virulence gene expression in Francisella tularensis
Advisor: Simon Dove

Dufu, Kobina
Role of the human TREX complex in mRNA Export
Advisor: Robin Reed

Dutton, Rachel
Vitamin K epoxide reductase homologues provide an alternative pathway for bacterial disulfide bond formation
Advisor: Jonathan Beckwith

Elenko, Mark
Single-Molecule Studies of RNA Aptamer Binding
Advisor: Jack Szostak

Erwin, Jennifer
Regulation of Imprinted X-Chromosome Inactivation in Stem Cells and the Early Embryo
Advisor: Jeannie Lee

Fell, Gillian
The role of the endogenous opioid beta-endorphin in systemic and behavioral responses to radiation exposure
Advisor: David Fisher

Floyd, Daniel
Single particle studies of influenza viral membrane fusion
Advisor: Antoine van Oijen

Fry, Jessica
ADAM9 Metalloproteases and Breast Cancer Cell Migration
Advisor: Alex Toker

Garrity, Sean
A bacteria-based experimental system for the study of prion proteins
Advisor: Ann Hochschild

Goldman, Joseph
Roles for histone H2A variants in gene regulation
Advisor: Robert Kingston

Gray, Andrew
Characterization of the role of YidC in Escherichia coli membrane protein biogenesis
Advisor: Marcia Goldberg

Hartlerode, Andrea
Studies on Sister Chromatid Recombination in Mammalian Cells
Advisor: Ralph Scully

Heindl, Jason
Host Complicity in Intercellular Spread of Shigella flexneri
Advisor: Marcia Goldberg

Huynh, Mai Anh
Role of the Cdh1-APC/SnoN Pathway in Neuronal Morphogenesis
Advisor: Azad Bonni

Jang, Il Ho
The role of Notch signaling in hemogenic endothelial cell development
Advisor: George Daley

Jensen- Rajani, Danielle
Degradation of multiple hnRNPs during apoptosis
Advisor: Judy Lieberman

Kamei, Caramai
Patterning the Vertebrate Mesoderm: Functional Analysis of Bone Morphogenetic Protein-responsive Genes in Vasculogenesis and Kidney Development
Advisor: Clifford Tabin

Kamp, Heather
Regulatory mechanisms controlling temperature-dependent transcription of flagellar motility genes in Listeria monocytogenes
Advisor: Darren Higgins

Knowlton, Melodie
Analysis of CSF-1R and SRC-induced tyrosine phosphorylation in breast epithelial cells
Advisor: Joan Brugge

Kolokotrones, Thomas
Curvature in Metabolic Scaling
Advisor: Walter Fontana

Le, Xiuning
RAS related cancer modeling and chemical genetics in the zebrafish
Advisor: Leonard Zon

Li, Geng
The Mechanism of Sir3-Nucleosome Interaction and its Implications in Silent Chromatin Assembly in Saccharomyces cerevisiae
Advisor: Danesh Moazed

Li, Linyu
TRPML3, an endosomal cation channel, regulates polarized membrane trafficking in epithelial cells
Advisor: David Clapham

Lucas, Carrie
Mechanisms of Deletional Tolerance of Peripheral CD8+ T Cells Induced by Anti-CD40L and Allogeneic Bone Marrow Transplantation
Advisor: Megan Sykes

Ma, Amy
Characterization of type VI secretion in Vibrio cholerae
Advisor: John Mekalanos

Mammarella, Nicole
The role of apoplastic peroxidases in the Arabidopsis thaliana defense response
Advisor: Frederick Ausubel

Marotta , Lauren
Investigations of intra-tumor heterogeneity in breast cancer
Advisor: Kornelia Polyak

Mermel, Craig
The Analysis of Somatic Copy Number Alteration in Human Cancers
Advisor: Matthew Meyerson

Moore, Michael
Alternative Splicing Networks in Cell Differentiation and Programmed Cell Death
Advisor: Pamela Silver

Nielsen, Corinne
Epithelial-vascular co-development in the hindbrain choroid plexus
Advisor: Susan Dymecki

Nowakowski, Dan
Novel Activities of Adenomatous Polyposis Coli (APC) Protein and Type III Neuregulin1 in the Developing Nervous System
Advisor: John Flanagan

Powell, Maria
A proteomic and functional analysis of the human papillomavirus E8^E2C protein
Advisor: Peter Howley

Rodgers, Mary
Hepatitis B and C viruses alter cholesterol metabolism by novel mechanisms
Advisor: Priscilla Yang

Rosenbaum, Abraham
Technologies for Sequencing and Interpreting Personal Genomes
Advisor: George Church

Schrum, Jason
Function and Properties of Phosphoramidate DNA as a Model Protocell Genome
Advisor: Jack Szostak

Schulman, Sol
Secretory Protein Biogenesis: From Membrane Translocation to Vitamin K-Dependent Disulfide Bridge Formation
Advisor: Tom Rapoport

Sheu, Shu-Hsien
Postnatal reorganization of axons that innervate a parasympathetic end-organ
Advisor: Jeff Lichtman

Shibata, Yoko
Mechanisms shaping the peripheral endoplasmic reticulum
Advisor: Tom Rapoport

Silva, Lindsey
Role for the nuclear lamina during early stages of herpes simplex virus 1 infection
Advisor: David Knipe

Spivey, Kristin
Analyses of collagen XXIII expression and function in non-small cell lung cancer
Advisor: Bruce Zetter

Tanner, Nathan
Single-Molecule Studies of Escherichia coli DNA Replication
Advisor: Antoine van Oijen

Terashima, Alexandra
Negative feedback regulation of Nodal signaling in zebrafish mesendoderm patterning
Advisor: Iain Drummond

Tian, Meng
The molecular cloning and characterization of Fam46c RNA stability factor
Advisor: Mark Fleming

Umbarger, Mark
New Tools to Probe Bacterial Chromosome Folding
Advisor: George Church

Yuan, Tina
Contributions of Phosphoinositide-3-Kinase to Tumorigenesis both Inside and Outside the Tumor
Advisor: Lewis Cantley

2009

Adamo, Luigi
Biomechanical Control of Hematopoiesis
Advisor: Guillermo Garcia-Cardeña

Ang Cambronne, Xiaolu
Substrates of the SCF-beta-TRCP E3 Ubiquitin Ligase Complex: Mechanisms of Recognition and Delivery to the Proteasome.
Advisor: J.Wade Harper

Arboleda-Velasquez, Joseph
NOTCH SIGNALING IN ISCHEMIC STROKE AND CADASIL
Advisor: Spyridon Artavanis-Tsakonas

Aw, Sherry
Potassium channel function as a regulator of developmental morphogenesis
Advisor: Michael Levin

Buker, Shane
Two Different Argonaute Complexes are Required for siRNA Generation and Heterochromatin Formation in Fission Yeast
Advisor: Danesh Moazed

Cameron, Douglas
An ordered mutant library and its use in defining flagellar biosynthesis and biofilm formation in Vibrio cholerae
Advisor: John Mekalanos

Chang, Jennifer
The histone regulatory proteins Spt10 and Spt21: roles in growth and silencing in Saccharomyces cerevisiae
Advisor: Fred Winston

Chen, Allen
Aph-1 functions as a substrate docking site within the Alzheimer’s disease relevant gamma-secretase complex
Advisor: Dennis Selkoe

Chen, Yao
Mechanism to Establish Graded Mapping Labels in the Embryonic Midbrain
Advisor: John Flanagan

Cherry, Timothy
An Analysis of Amacrine Cell Diversity and Development
Advisor: Constance Cepko

Choo, Andrew
mTOR, Metabolism, and Cancer
Advisor: John Blenis

Chou, Michael
Algorithms for the analysis of biological sequence data
Advisor: George Church

Dermody, Jessica
Identification of novel functions of the Paf1C and Npl3 during RNA polymerase II transcription elongation
Advisor: Stephen Buratowski

Dong (Shore), Carolyn
The essential role of the mitochondrial electron transport chain in Plasmodium falciparum
Advisor: Dyann Wirth

Dovey, Michael
Genetic analysis of vertebrate cell cycles and melanoma in zebrafish
Advisor: Leonard Zon

Farny, Natalie
REGULATING MRNA METABOLISM: ALTERNATIVE SPLICING, NUCLEAR MRNA EXPORT, AND TRANSLATIONAL CONTROL
Advisor: Pamela Silver

Faulkner, Melinda
Functional plasticity of alkyl hydroperoxide reductase
Advisor: Jonathan Beckwith

Fixen, Kathryn
Characterization of factors mediating localization of the Shigella actin assembly protein IcsA to the bacterial pole
Advisor: Marcia Goldberg

Gajdos, Zofia
Genetic analysis of the timing of human puberty
Advisor: Joel Hirschhorn

Gonzalez, Mark
Interactions in a multi-protein complex required for bacterial cell division
Advisor: Jonathan Beckwith

Hollstein, Pablo
Proteasomal regulation of the NF1 tumor suppressor and Ras signaling
Advisor: Karen Cichowski

Hurt, Jessica
SYSTEMS AND TARGETED ANALYSES OF mRNA EXPORT IN METAZOANS
Advisor: Pamela Silver

Iweala, Onyinye
The enterohepatic microenvironment modulates immune responses to vaccination
Advisor: Cathryn Nagler

Jeanson, Nathaniel
Metabolic Regulation of Hematopoietic Stem Cells
Advisor: David Scadden

Kennedy, Caleb
Multidimensional analysis of cellular regulation in perturbed metabolic systems
Advisor: Pamela Silver

Koo, Sumin
The Role of Caudal Genes in Adult Hematopoiesis and Leukemogenesis
Advisor: D. Gary Gilliland

Lebensohn, Andres
Biochemical studies on the regulation of actin assembly by N-WASP and WAVE protein complexes
Advisor: Marc Kirschner

LeBleu, Valerie
The Pathobiochemistry of Alport Syndrome and Mechanism of Cell-Based Therapy
Advisor: Raghu Kalluri

Lee, Jennifer
Post-translational Modification and Regulation of Phosphoinositide 3-Kinase
Advisor: Lewis Cantley

Morris, Zachary
Regulation of EGFR by the NF2 Tumor Suppressor, Merlin
Advisor: Andrea McClatchey

Mowrer, Karen
Alternative Splicing Of BACE1 Pre-mRNA And Its Implications For Alzheimer Disease
Advisor: Michael Wolfe

Naveiras Torres-Quiroga, Olaia
Novel Determinants of the Hematopoietic Microenvironment in Development and Homeostasis
Advisor: George Daley

Naylor, Maria
Mrc1 phosphorylation in response to DNA replication stress is required for Mec1 accumulation at the stalled fork
Advisor: Stephen Elledge

Nhek, Sokha
Protein Kinase D Signaling Through Substrate Phosphorylation
Advisor: Alex Toker

Nunes, Paula
Exploring Regulated Membrane Protein Trafficking of the Aquaporin-2 Water Channel in Renal Epithelial Cells
Advisor: Dennis Brown

Oh, Sungwhan
Life of Resolvins: Synthesis, bioactions and metabolic inactivation of novel anti-inflammatory and pro-resolving mediators
Advisor: Charles Serhan

Ozsolak, Fatih
Integrated Epigenomics Analyses to Understand MicroRNA Transcriptional Regulation
Advisor: David Fisher

Potenta, Scott
Endothelial-to-Mesenchymal Transition in Cancer Progression and Tissue Fibrosis
Advisor: Raghu Kalluri

Roberts, Kristina
Mutation of a Novel Non-Coding RNA Causes Vestibular Malformation in the Epistatic circler Mouse
Advisor: Nancy Andrews

Rompani, Santiago
Lineage tracing in the vertebrate CNS: neuronalsubtype specification and a shared lineage for astrocytes and oligodendrocytes
Advisor: Constance Cepko

Sankaran, Vijay
Molecular Mechanisms of Erythropoiesis and Globin Gene Regulation
Advisor: Stuart Orkin

Schlabach, Michael
High throughput genetic screens in mammalian cells
Advisor: Stephen Elledge

Sero, Julia
Integrated Mechanochemical Control of Directional Cell Migration Through Paxillin
Advisor: Donald Ingber

Sims, Jennifer
Transcriptional activity and regulation of gene expression during the intraerythrocytic developmental cycle of Plasmodium falciparum
Advisor: Dyann Wirth

Songnuan, Wisuwat
Studies of Pathogen Defense in Arabidopsis Roots
Advisor: Frederick Ausubel

Sullivan, Nora
Chromosome Dynamics in Bacillus subtilis
Advisor: David Rudner

Svendsen, Jennifer
The SLX4/BTBD12 complex: a molecular toolkit for DNA repair
Advisor: J.Wade Harper

Thompson, Cheryl
Signaling mechanisms that control presynaptic morphogenesis at the Drosophila neuromuscular junction
Advisor: David Van Vactor

Troy, Erin
Microbial colonization shifts the Vbeta repertoire of intestinal T cells and polysaccharide expression in the microbiota
Advisor: Dennis Kasper

Viswanathan, Srinivas
Lin28: An Inhibitor of microRNA Biogenesis with Roles in Cancer and Development
Advisor: George Daley

West, Jason
Modeling Primordial Germ Cell Formation In Vitro
Advisor: George Daley

Yi, Caroline
Genetic and Biochemical Approaches Reveal Integration of Metabolism and Apoptosis
Advisor: Junying Yuan

Zappaterra, Mauro
Analysis of Cerebrospinal Fluid in Brain Development
Advisor: Christopher Walsh

Zhang, Dan (Phoebe)
Noncatalytic Effect of the Ubiquitin Ligase Hul5 on Proteasome Function
Advisor: Daniel Finley

2008

Adamovich, David
Activating Mutations of N-WASP Reveal Novel Roles for N-WASP During Shigella Infection
Advisor: Scott Snapper

Agosto, Melina
Reovirus outer-capsid disassembly and the mechanism of membrane penetration
Advisor: Max Nibert

Arroyo, Jason
Protein phosphatase 2A complexes and human cell transformation
Advisor: William Hahn

Asthana, Saurabh
Rehabilitating Junk DNA
Advisor: Shamil Sunyaev

Bakalarski, Corey
Understanding Protein Regulation through Novel Computational Approaches to High-Throughput Proteome Analysis
Advisor: Steven Gygi

Balibar, Carl
Intercepting Intermediates in Amino Acid-Derived Natural Product Biosynthesis
Advisor: Christopher T Walsh

Brown, Christopher
TRANSCRIPTIONAL REGULATION AT THE NUCLEAR PORE COMPLEX
Advisor: Pamela Silver

Brown, Kerry
Identification of Auditory Genes and Regulatory Elements Using a Cytogenetic Approach
Advisor: Cynthia Morton

Buchberger, Johannes
The role of Sir3 in spreading of silent chromatin in Saccharomyces cerevisiae
Advisor: Danesh Moazed

Burrack, Laura
Host cell factors involved in the vacuolar biology of Listeria monocytogenes infection
Advisor: Darren Higgins

Butler, Maurice
Negative Regulation of RNA Interference in Caenorhabditis elegans
Advisor: Gary Ruvkun

Cheung, Vanessa
Investigation of transcription initiation from cryptic promoter sites in Saccharomyces cerevisiae
Advisor: Fred Winston

Choi, Andrew
Dimer Stabilization and Aggregation of Superoxide Dismutase
Advisor: Peter Lansbury

Chun, Denise
Regulators of AMPA-Type Glutamate Receptor Trafficking in C. elegans
Advisor: Joshua Kaplan

Cotner, Elizabeth
Structure and Mechanism of Human DNA Ligase III, An Essential Repair Enzyme
Advisor: Tom Ellenberger

Cruz-Guilloty, Fernando
Transcriptional and epigenetic regulation of CD8+ T cell differentiation and function
Advisor: Anjana Rao

DiPietrantonio, Heather
Toward understanding how mossy fiber neuron diversity in the brain stem is generated
Advisor: Susan Dymecki

Dodson, Allen
Screening for Novel, Stage-Specific Inhibitors of Herpes Simplex Virus Replication
Advisor: Don Coen

Dudnik, Nina
Histone dimers on the move: Nucleosome assembly systems for H2A and H2AV in Drosophila
Advisor: Kami Ahmad

Frank, Christopher
Regulated ATF4 persistence in cell cycle control and neurogenesis
Advisor: Li-Huei Tsai

Gabel, Harrison
Genetic analysis of small RNA-mediated gene silencing in C. elegans
Advisor: Gary Ruvkun

Gierahn, Todd
The T cell response to Chlamydia trachomatis: Identification of new antigens and characterization of their presentation
Advisor: Darren Higgins

Greer, Paul
Molecular mechanisms underlying synapse development: From axon guidance to synapse formation
Advisor: Michael Greenberg

Groen, Aaron
Chromatin Dependent Microtubule Assembly During Meiosis
Advisor: Timothy Mitchison

Hsu, Jeanne
Mechanisms Coupling Steps in Gene Expression
Advisor: Robin Reed

Hutti, Jessica
Characterization of Inflammatory Signaling Networks
Advisor: Lewis Cantley

Johannessen, Cory
Exploiting neurofibromatosis type 1-associated cancer models to identify novel therapeutic targets
Advisor: Karen Cichowski

Kamberov, Yana
Mechanisms of Halofuginone Activity
Advisor: Malcolm Whitman

Kerr, Monica
Proteomic Screen Identifies Novel Phosphatidylinositol 3,4-bisphosphate Binding Protein
Advisor: Lewis Cantley

Korol, Oksana
Dkk1 domains in heart induction and axial development in Xenopus laevis
Advisor: Mark Mercola

Lamming, Dudley
The regulation of lifespan by sirtuins in Saccharomyces cerevisiae
Advisor: David Sinclair

Lan, Fei
Dynamic Regulation of Histone Lysine Methylation
Advisor: Yang Shi

Lee, Yang
Regulating the Ribonucleotide Reductase Pathway in S. cerevisiae Through Nuclear Retention and Import Mechanism
Advisor: Stephen Elledge

Leed, Alison
Structure Determination and Interaction Studies of the Human Gamma-Glutamylcysteine Synthetase Light Subunit by Nuclear Magnetic Resonance
Advisor: Gerhard Wagner

Li, Ju-Mei
Cellular responses that preserve genome stability in S. cerevisiae
Advisor: Stephen Elledge

Li, Qianru
SYSTEMATIC ANALYSES OF INTERACTOME NETWORKS
Advisor: Marc Vidal

Libuda, Diana
Identification and characterization of histone gene amplification as a method for dosage compensation in Saccharomyces cerevisiae
Advisor: Fred Winston

McGillicuddy, Lauren
Regulation and function of the NF1 tumor suppressor
Advisor: Karen Cichowski

Onishi-Seebacher, Megumi
The Role of Nucleosomes in Heterochromatin Assembly in Saccharomyces cerevisiae
Advisor: Danesh Moazed

Ooi, Liang Yee
The role of microcephalin in cell cycle regulation and embryonic development
Advisor: Marc Kirschner

Parmar, Kush
Kruppel-like factor 2 as a Central Link Between Blood Flow and Vascular Endothelial Function
Advisor: Guillermo Garcia-Cardeña

Patel, Vishal
Small Molecule Inhibitors of Plasmodium falciparum
Advisor: Jon Clardy

Poling, Laura
Dysregulation of the MiT family of transcription factors in melanoma
Advisor: David Fisher

Pollington McGehee, Annette
Class II MHC trafficking and XBP-1 in immune cells
Advisor: Hidde Ploegh

Possemato, Richard
The interface between telomerase, the telomere and replicative senescence
Advisor: William Hahn

Runner, Vanessa
Function of the Rpb4 Subunit of RNA Polymerase II during Transcription
Advisor: Stephen Buratowski

Scott, Jamil
Tissue Interactions and Molecular Factors Involved in Indifferent Gonad Specification in the Avian Embryo
Advisor: Thomas Schultheiss

Shaw, Christine
T cell responses induced by bacterial toxin fusion proteins
Advisor: Michael Starnbach

Singh, Gitanjali
Examination of the final steps in the biosynthesis of Syringomycin E
Advisor: Christopher T Walsh

Sogah, Dodzie
Molecular Mechanisms of Crosstalk between Apoptotic and Metabolic Regulation
Advisor: Junying Yuan

Soohoo, Christina
Structure and Function of the Telomerase Inhibitor PinX1
Advisor: Kun Ping Lu

Spencer, Rebecca
Identification of an Xist RNA binding protein and a novel genetic element at the X inactivation center
Advisor: Jeannie Lee

Sural, Tuba
The role of MSL3 in Drosophila dosage compensation
Advisor: Mitzi Kuroda

Swinburne, Ian
Dynamic and Temporal Aspects of RNA Production and Processing
Advisor: Pamela Silver

Tam, Vincent
Characterization of the Type III Secretion System in non-O1, non-O139 strains of Vibrio cholerae
Advisor: John Mekalanos

Tulpule, Asmin
Congenital disease-specific human embryonic stem cells reveal developmental defects in the hematopoietic lineage
Advisor: George Daley

Valencia, Patricia
Splicing promotes mRNA export in mammalian cells
Advisor: Robin Reed

Vashlishan, Amy
Identification and Characterization of Genes that Regulate GABA Synapses
Advisor: Joshua Kaplan

Wang, Jian
Characterization of the tumor suppressor PTEN in zebrafish
Advisor: Thomas Roberts

Williams, Benjamin
Somatic Homolog Pairing in Drosophila Cell Culture
Advisor: Chao-ting Wu

Williams, Grace
Identification and characterization of critical phosphorylations required for Bub1 function
Advisor: Thomas Roberts

Wojiski, Sarah
Regulation of self-renewal by leukemogenic mutations associated with acute promyelocytic leukemia
Advisor: D. Gary Gilliland

Xu, Lai
FUNCTIONAL ANALYSIS OF CULLIN-BASED UBIQUITIN LIGASE AND A NOVEL UBC DOMAIN-CONTAINING PROTEIN
Advisor: J.Wade Harper

Xu, Lei
A study of the mechanism and method to control the degradation of Mad1 by regulating ubiquitin ligase activity of c-IAP1
Advisor: Junying Yuan

Zhou, Zhe
Carrier Protein Tailoring, Recognition, and Applications for Protein Labeling
Advisor: Christopher T Walsh

2007

Anderson, Sarah
Post-Translational Regulation of TGF-b Superfamily Ligands in Skeletal Muscle and During Xenopus Embryogenesis
Advisor: Malcolm Whitman

Bajmoczi, Milan
Internalization of Pseudomonas aeruginosa by Non-polarized and Polarized Epithelial Cells: a CFTR- and Caveolin-1-dependent Process
Advisor: David Golan

Beausoleil, Sean
Large-scale Analysis of Protein Phosphorylation
Advisor: Steven Gygi

Boehm, Jesse
Experimental models of transformation as platforms for oncogene discovery
Advisor: William Hahn

Campbell, Catarina
Implications of population structure and regulatory variation for genetic association studies
Advisor: Joel Hirschhorn

Chan, Betty
Functional Studies of the Calcineurin-DSCR1 Complex
Advisor: Tom Ellenberger

Chao, Wendy
IGF2: Epigenetic Regulation and Role in Development and Disease
Advisor: Patricia D'Amore

Christofk, Heather
The M2 Splice Isoform of Pyruvate Kinase is a Phosphotyrosine Binding Protein Critical for Tumor Cell Metabolism and Proliferation
Advisor: Lewis Cantley

Cole, Banumathi
Membrane Distribution of the Nf2 Tumor Suppressor, Merlin
Advisor: Andrea McClatchey

Colmenares, Serafin
The Mechanism of RNAi Assembly and siRNA Generation in Fission Yeast Centromeres
Advisor: Danesh Moazed

Cui, Can
Herpes Simplex Virus DNA Replication and MicroRNA Expression: Molecular Pharmacological, Computational, and Genetic Approaches
Advisor: Don Coen

Dobi, Krista
Upstream Activation Sequence Function in Saccharomyces cerevisiae: the Potential for Long Distance Transcriptional Activation and the Role of Sin4
Advisor: Fred Winston

Elson-Schwab, Ilan
Mechanisms Underlying Ab- and Tau-Induced Neuronal Degeneration in Alzheimer's Disease
Advisor: Mel Feany

Field, Christine
Genetic and Biochemical Studies of Cytokinesis
Advisor: Marc Kirschner

Friedman, Adam
Genomic dissection of receptor tyrosine kinase activation of extracellular signal-regulated kinase in Drosophila
Advisor: Norbert Perrimon

Frietze, Seth
GENOME-WIDE ANALYSIS OF THE COACTIVATOR-ASSOCIATED ARGININE METHYLTRANSFERASE CARM1 IN BREAST CANCER CELLS
Advisor: Pamela Silver

Garibyan, Lilit
The Role of TACI Mutations in Common Variable Immunodeficiency
Advisor: Raif Geha

Gurtan, Allan
Characterization of a Novel E3 Ubiquitin Ligase in Fanconi Anemia
Advisor: Alan D'Andrea

Hathaway, Nathaniel
Mechanism of APC Catalyzed Ubiquitination of Cyclin B1 and Analysis of Degradative Role of Ubiquitin Linkage
Advisor: Randall King

Ho, Diana
The role and regulation of TGF-b signaling during Xenopus regeneration and development
Advisor: Malcolm Whitman

Huang, Franklin
The role of hemojuvelin in systemic iron homeostasis
Advisor: Nancy Andrews

Hunter, Nina
Redefining the dorsal hindbrain based on genetic lineage
Advisor: Susan Dymecki

Ichida, Justin
In Vitro Selection Systems for TNA
Advisor: Jack Szostak

Khoo, Christine
Adaptive Responses of Oncogenic Cells to Dysfunctional Telomeres
Advisor: Ronald DePinho

Kim, Dohoon
Insights into Neurodegeneration from p25/cdk5
Advisor: Li-Huei Tsai

Koralova, Anne
Trans interactions at the yellow gene in Drosophila melanogaster
Advisor: Chao-ting Wu

Latorre-Esteves, Magda
Characterization of the Saccharomyces cerevisiae sirtuin family and their roles in lifespan regulation.
Advisor: David Sinclair

Leibman, Mark
Modulation of promoter escape by s-core interactions of the bacterial RNA polymerase holoenzyme
Advisor: Ann Hochschild

Leptos, Kyriacos
Computational Tools for Peptide Quantification Using Mass Spectrometry and Their Application to the Proteome of Prochlorococcus marinus MED4
Advisor: George Church

Li, Juying
Characterization of the Role of Caspase-11 in Regulating Actin Dynamics and Cell Migration
Advisor: Junying Yuan

Liou, Kwa
A chemical genetic screen to identify small molecule inhibitors of HPV E6-mediated p53 degradation.
Advisor: Peter Howley

Liu, Zhenning
The role of PI3K p110a and p110b isoforms in oncogenesis
Advisor: Thomas Roberts

Maharaj, Arindel
VEGF IS REQUIRED FOR VASCULAR AND TISSUE HOMEOSTASIS
Advisor: Patricia D'Amore

Malecki, Michael
The Notch Negative Regulatory Region: Mutations and Mechanisms
Advisor: Stephen Blacklow

Marcotte, Laura
STRUCTURAL AND BIOCHEMICAL STUDIES OF THE POLIOVIRUS PRECURSOR PROTEIN 3CD AND THE COMPONENTS OF THE VIRAL REPLICATION COMPLEX
Advisor: James Hogle

McEwen, Jason
Trafficking of Synaptic Proteins and Tomosyn inhibits Synaptic Vesicle Priming
Advisor: Joshua Kaplan

McKee, Adrienne
Systems analysis of RNA-binding proteins and regulated mRNA processing
Advisor: Pamela Silver

Meray, Robin
Biochemical and cell biological studies of the Parkinson's disease-associated ubiquitin hydrolase UCH-L1
Advisor: Peter Lansbury

Paffett-Lugassy, Noëlle
Hematopoiesis and angiogenesis in the zebrafish
Advisor: Leonard Zon

Porreca, Gregory
Multiplex Polony Sequencing for Analysis of Genomes, Transcriptomes, and Exonomes
Advisor: George Church

Rivera-Feliciano, José
Genetic regulation of heart-valve development
Advisor: Clifford Tabin

Roan, Nadia
Antigen-specific T cell responses to Chlamydia trachomatis
Advisor: Michael Starnbach

Rohas, Lindsay
A Fundamental System of Cellular Energy Homeostasis Regulated by PGC-1a
Advisor: Bruce Spiegelman

Schwabish, Marc
Asf1 and Swi/Snf Function in RNA Polymerase II Elongation and Histone Dynamics
Advisor: Kevin Struhl

Shakhnovich, Elizabeth
Small molecules as novel probes for understanding Vibrio cholerae virulence mechanisms and regulation in vitro and in vivo
Advisor: John Mekalanos

Shao, Yu
Regulation of axon guidance and dendritic spine development by Vav family GEFs
Advisor: Michael Greenberg

Shen, Aimee
Transcriptional repression, anti-repression, and glycosylation in the regulation of flagellar motility in Listeria monocytogenes
Advisor: Darren Higgins

Smith, Donald
The role of innate immune signaling in generating tolerance and immunity to orally administered antigens
Advisor: Cathryn Nagler

Soriano, Michelle
Regulation of STAT Signal Transduction by Posttranslational Modifications
Advisor: Michael Grusby

Stover, Elizabeth
FIP1L1-PDGFRalpha, a tyrosine kinase fusion protein involved in chronic eosinophilic leukemia
Advisor: D. Gary Gilliland

Teer, Jamie
Function of Replication Initiation Proteins ORC and Cdt1
Advisor: Anindya Dutta

Tomov, Vesselin
Codon-Optimized and Reporter-Packaging Strains of HIV-1
Advisor: Brian Seed

Tothova, Zuzana
The Role of Forkhead Transcription Factors in Hematopoiesis and Leukemogenesis
Advisor: D. Gary Gilliland

Vanderspurt, Cecily
Post-Transcriptional Control of Cholera Toxin and Factors Affecting the Virulence of V. cholerae
Advisor: Stephen Calderwood

Wai-Huang, Stephanie
Regulation of the Rho GTPase Cdc42 During Cell Polarization in Budding Yeast
Advisor: Rong Li

Wrighting, Diedra
Transcriptional Regulation of Hepcidin, a hormone that maintains iron homeostasis
Advisor: Nancy Andrews

Xu, Na
The Mechanism of Homologous Interaction at the X-Inactivation Center
Advisor: Jeannie Lee

Xu, Qing
Discovery of modifiers and biomarkers for prostate cancer
Advisor: William Sellers

Yang, Annie
Transcriptional Targets and Functional Activities of the p53 Gene Family
Advisor: Kevin Struhl

2006

Arias- Foley, Emily
Replication-dependent destruction of Cdt1 restricts DNA replication to once per cell cycle
Advisor: Johannes Walter

Aron, Kathryn
Genetic and Genomic Studies of Ubiquitin-Proteasome System Activities
Advisor: Pamela Silver

Ayala, Ramses
Nudel, a multifaceted cytoskeleton-associated protein involved in neuronal development
Advisor: Li-Huei Tsai

Balazs, Alejandro
Purification and Characterization of Hematopoietic Stem Cells by Microarray Analysis
Advisor: Richard Mulligan

Becker, Esther
Signaling Mechanisms Regulating Neuronal Apoptosis
Advisor: Azad Bonni

Bellovin, David
Impact of Epithelial-Mesenchymal Transition on the Regulation of Cell Motility and Colon Cancer Progression
Advisor: Arthur Mercurio

Bernstein-Hanley, Isaac
Genetic analysis of susceptibility to Chlamydia trachomatis in mouse
Advisor: William Dietrich

Boyden, Eric
Identification and characterization of a novel gene that controls mouse macrophage susceptibility to anthrax lethal toxin
Advisor: William Dietrich

Dandapani, Savita
Role of a-actinin-4 in the kidney
Advisor: Martin Pollak

Dickman, Dion
A Genetic Screen for Mutants in Synaptic Transmission and an Analysis of Endocytosis at the Synapse
Advisor: Thomas Schwarz

Dimitri, Christopher
Analysis of the Ras-MAPK Pathway: Spatially Separate Docking Sites on ERK2 Regulate Distinct Signaling Events and Biological Processes
Advisor: John Blenis

Elias, Joshua
Proteome analysis by tandem mass spectrometry: Improvements and biological applications
Advisor: Steven Gygi

Everley, Patrick
The development of quantitative and functional proteomic technologies and their application to the study of prostate cancer
Advisor: Bruce Zetter

Farago, Anna
Uncovering molecular and spatial predictors of brainstem neuron identity
Advisor: Susan Dymecki

Fredenburg, Ross
An Evaluation of the Molecular Model of alpha-Synuclein-mediated Cytotoxicity
Advisor: Peter Lansbury

Galloway, Jenna
Hematopoietic stem cell formation and differentiation in zebrafish
Advisor: Leonard Zon

Goehring, Nathan
Assembly of the Bacterial Divisome
Advisor: Jonathan Beckwith

Goldman, Seth
The role of the shf operon in the biology of Shigella flexneri
Advisor: Marcia Goldberg

Goodman, Andrew
Regulation of acute and chronic virulence phenotypes in Pseudomonas aeruginosa
Advisor: Stephen Lory

Hanna, John
Functional Analysis of Ubp6, a Proteasome-Associated Deubiquitinating Enzyme
Advisor: Daniel Finley

Holz, Marina
Identification of Novel Binding Partners and Substrates of S6 Kinase 1 (S6K1)
Advisor: John Blenis

Horwitz, Andrew
Regulation of RNA Polymerase II by BRCA1, the breast cancer tumor suppressor
Advisor: Jeffrey Parvin

Huber, Damon
A Genetic Analysis of Protein Folding and Protein Translocation in Escherichia coli
Advisor: Jonathan Beckwith

Jagani, Zainab
The Regulation of the FOXO3a Transcription Factor in BCR-ABL-mediated Leukemogenesis
Advisor: Roya Khosravi-Far

Jung, David
Cis-acting elements controlling antigen receptor gene assembly
Advisor: Frederick Alt

Kelly-Quintos, Casie
The contribution of epitope specificity in the human antibody response to the widely expressed bacterial surface polysaccharide PNAG
Advisor: Gerald Pier

Kollipara, Ramya
Genetic Analysis of the FoxO Transcription Factors in the Mouse
Advisor: Ronald DePinho

Kowalski, Jennifer
Regulation of Normal and Malignant Cellular Processes by the Cytoskeletal Scaffold, Cortactin
Advisor: Sheila Thomas

Lee, Jeff
Novel Activating EGFR Mutations in Human Cancers
Advisor: Matthew Meyerson

Liddle, Forrester
Mechanisms of STAT1 Activation and its Role in Colon Cancer
Advisor: David Frank

Lim, Jackie
Identifying and Characterizing a Mutation in Sec15l1, the Cause of Iron Deficiency Anemia in Hemoglobin Deficit (hbd) Mice
Advisor: Nancy Andrews

Liu, Chih Long
Dynamic high-resolution mapping of histone tail modifications in S. cerevisiae
Advisor: Stuart Schreiber

Luo, Ji
Role of The Class IA Phosphoinositide 3-Kinase Regulatory Subunit p85 in Metabolism, Development and Cancer
Advisor: Lewis Cantley

Medvedik, Oliver
Mechanisms of replicative lifespan extension during caloric restriction in Saacharomyces cerevisiae
Advisor: David Sinclair

Moerke, Nathan John
Structural and Chemical Genetic Studies of Eukaryotic Translation Initiation Factors
Advisor: Gerhard Wagner

Murphey, Ryan
Chemical genetics and cancer models in zebrafish
Advisor: Leonard Zon

Nam, Yunsun
Structure and Function of Notch Transcription Complexes
Advisor: Stephen Blacklow

Ohgami, Robert
Identification and characterization of the Steap family of metalloreductases
Advisor: Mark Fleming

Osterfield, Miriam
Identification and characterization of binding partners for a cell surface receptor in chick brain development
Advisor: John Flanagan

Paz, Carlos
Circadian Clock Function in the Mammalian Retina
Advisor: Charles Weitz

Pfaff, Kathleen
Genetic analysis of the cell cycle and cancer in zebrafish
Advisor: Leonard Zon

Reiniger, Nina
Initiation of innate immunity to Pseudomonas aeruginosa lung infection: impact of wild type and mutant CFTR
Advisor: Gerald Pier

Rhee, James
Partnership of HNF4a with the transcriptional coactivator PGC-1a in the regulation of hepatic glucose and lipid homeostasis
Advisor: Bruce Spiegelman

Sánchez Irizarry, Cheryll
Functional and Biochemical Characterization of the Negative Regulatory Region of Mammalian Notch
Advisor: Stephen Blacklow

Sauer, Noel
Shigella Activation of the Actin Assembly Switch Protein N-WASP
Advisor: Marcia Goldberg

Schwartz, Daniel
Computational Algorithms for Spectral Prediction and Motif Discovery in Proteomic Sequence Data
Advisor: Steven Gygi

Simons, Amanda
Biochemical Functions of BRCA1 Protein Complexes
Advisor: Jeffrey Parvin

Solimini, Nicole
Regulation of Mammary Epithelial Cell Survival and Acinar Morphogenesis by Proliferation Arrest
Advisor: Joan Brugge

Steffen, Leta
Zebrafish as a Model of Muscular Dystrophies and Insights into Titin's Role in Sarcomerogenesis
Advisor: Louis Kunkel

Stremlau, Matthew
TRIM5alpha: An Intracellular Defense Against Retroviruses
Advisor: Joseph Sodroski

Sun, Bryan
Mechanisms of Tsix-mediated repression of Xist
Advisor: Jeannie Lee

Taniguchi, Cullen
The Dissection of Insulin Signaling Isoforms In Vivo: Molecular Mechanisms of Hepatic Insulin Action
Advisor: C. Ronald Kahn

Ulm, Jacob Wesley
Elucidation of retroviral capsid residues involved in modulation of murine and human cell post-entry restriction
Advisor: Richard Mulligan

Vrabioiu, Alina
Structural and biochemical insights into yeast septin biology
Advisor: Timothy Mitchison

Walker, Sarah
Opposing Roles of STAT5 and STAT3 on Gene Regulation and Cancer
Advisor: David Frank

Wang, Jing
Exploring the mechanisms of axonal degeneration
Advisor: Zhigang He

Whitehead, Geoffrey
Genetic requirements for blastema formation and maintenance in zebrafish fin regeneration
Advisor: Mark Keating

2005

Aguirre, Andrew
Genetic Determinants of Pancreatic Ductal Adenocarcinoma
Advisor: Ronald DePinho

Aguirre, James
STAT3 signal transduction in human malignancy
Advisor: David Frank

Auty, Roy
The purification and characterization of TFIID from Saccharomyces cerevisiae
Advisor: Stephen Buratowski

Bassik, Michael
Regulation of ER Calcium Homeostasis and Apoptosis by Phosphorylation of BCL-2
Advisor: Stan Korsmeyer

Bates, Emily Anne
Genetic analysis of neurodegeneration in Caenorhabditis elegans
Advisor: Anne Hart

Begun, Jakob
Investigating the host-pathogen interaction using a Staphylococcus-Caenorhabditis elegans model system
Advisor: Frederick Ausubel

Boyce, Michael
Chemical and cell biological approaches to study ER stress-induced apoptosis
Advisor: Junying Yuan

Bromley, Mary
Characterization of Cell Cycle and Morphology of an Avian Heart from Gastrulation through Looping and Chamber Outgrowth
Advisor: Clifford Tabin

Carothers, James
Experimental investigations of informational complexity and RNA functional activity
Advisor: Jack Szostak

Carthon, Brad
D-Type Cyclin Specificity in Murine Development
Advisor: Piotr Sicinski

Casolari, Jason
Coupling of Transcription and Nuclear Organization
Advisor: Pamela Silver

Cohen, Dena
Genetic and Molecular Analysis of X Chromosome Choice Elements at Tsix
Advisor: Jeannie Lee

Comander, Jason
Transcriptional and Functional Modulation of the Endothelial Cell Inflammatory Response by a Biomechanical Stimulus
Advisor: Michael Gimbrone

Custodio, Ángel
Analysis of Genetic Modifiers of Murine Iron Homesotasis
Advisor: Nancy Andrews

Dalkilic, Isin
Insights into the Role of FLNc in Muscle
Advisor: Louis Kunkel

Davis, Nicole
Molecular and Cellular Mechanisms of Left-Right Asymmetric Organ Morphogenesis
Advisor: Clifford Tabin

Devroe, Eric
Novel Interactions Between Human Cell Proteins and Human Immunodeficiency Virus Type 1
Advisor: Pamela Silver

Elia, Andrew
Proteomic Screen Reveals that the Polo-box Domain is a Phosphoserine/threonine-binding Module
Advisor: Lewis Cantley

Erwin, Phillip
Dynamic S-Nitrosylation of Endothelial Nitric Oxide Synthase in Vascular Endothelial Cells
Advisor: Thomas Michel

Farazi, Paraskevi
Modeling Liver Cancer in the Mouse
Advisor: Ronald DePinho

Frieden, Leslie
The role of a-actinin-2 in sarcomere development and function
Advisor: Alan Beggs

Gadea, Bedrick
Requirement of Aurora Kinases for M phase in Xenopus Egg Cycles
Advisor: Joan Ruderman

Gaudillière, Brice
Transcriptional Regulation of Neuronal Morphogenesis
Advisor: Azad Bonni

Gauguet, Jean-Marc
Normal and Malignant Lymphocyte Migration: Glycosyltransferases and Integrins in Lymphocyte Homing and CXCR4 Inhibition of Multiple Myeloma
Advisor: Ulrich von Andrian

Gregory, Brian
Molecular Interactions of E. coli s70 Region 4 Involved in Transcription Initiation
Advisor: Ann Hochschild

Hayes, Gabriel
Control of developmental timing by microRNAs in C. elegans
Advisor: Gary Ruvkun

Hershey, Christine
The Role of the Microphthalmia Transcription Factor in Osteoclast Differentiation and Bone Development
Advisor: David Fisher

Hieronymus, Haley
Nuclear mRNA Export
Advisor: Pamela Silver

Huang, Julie
The role of ribosomal DNA silencing in the regulation of chromatin structure in Saccharomyces cerevisiae
Advisor: Danesh Moazed

Jadhav, Ashutosh
Regulation of vertebrate retinal development by the Notch signaling pathway
Advisor: Constance Cepko

James, Richard
Tissues and Molecules that Regulate Specification of the Avian Embryonic Kidney
Advisor: Thomas Schultheiss

Janse, Daniel
Pleiotropy in Saccharomyces cerevisiae and Small Molecule-Inducible Degradation of Proteins
Advisor: George Church

Jonsdottir, Gudrun
The Role of Myosin I in Actin Assembly and Endocytosis in Budding Yeast
Advisor: Rong Li

Kau, Tweeny
Targeting the Nuclear Transport of a Forkhead Transcription Factor
Advisor: Pamela Silver

Kowalski, Michael
Cystic Fibrosis Transmembrane Conductance Regulator Signaling in Epithelial Cells in Response to Pseudomonas aeruginosa
Advisor: Gerald Pier

Landis, Mark
Function of Cyclin D1 in Development and Cancer
Advisor: Philip Hinds

Lilley, Brendan
Viral manipulation of endoplasmic reticulum protein degradation machinery
Advisor: Hidde Ploegh

Liu, Zhihua
The farnesylation of UCH-L1 enhances a-synuclein toxicity
Advisor: Peter Lansbury

Manchanda, Nitasha
The role of the Neurofibromatosis 2 tumor suppressor merlin and the related ERM proteins in signaling to the actin cytoskeleton
Advisor: James Gusella

Misaghi, Shahram
The Herpes virus US-region Gene Products and Glycoprotein turnover
Advisor: Hidde Ploegh

Motyckova, Gabriela
Microphthalmia Transcription Factor Family Target Genes in Osteoclasts
Advisor: David Fisher

Munkittrick, Christin
The Roles of DNA Binding Specificity and ATPase Activity in Human Origin Recognition Complex Function
Advisor: Johannes Walter

Nissim, Sahar
Signaling Centers in Early Limb Development
Advisor: Clifford Tabin

Ou, Sharon
An Analysis of the Pairing Requirements for Transvection
Advisor: Chao-ting Wu

Pacholec, Michelle
Aminocoumarin Antibiotic Biosynthesis
Advisor: Christopher T Walsh

Pesola, Jean
Herpes Simplex Virus Gene Expression During Latency and Reactivation
Advisor: Don Coen

Petti, Allegra
Computational approaches to the inference of biological network connectivity
Advisor: George Church

Prather, Donald
Characterization of the transcription elongation factors Elf1 and TFIIS in S. cerevisiae
Advisor: Fred Winston

Protas, Meredith
The genetic basis of morphological evolution in Astyanax mexicanus, the Mexican cave tetra
Advisor: Clifford Tabin

Rutenberg, Joshua
Hairy-related transcription factors determine cardiac atrioventricular canal fate through Notch-dependent and -independent mechanisms
Advisor: Mark Mercola

Scherz, Paul
The Role of Descendants of Sonic Hedgehog-Expressing Cells in Limb Development
Advisor: Clifford Tabin

Shalizi, Aryaman
MEF2 Functions in the Nervous System
Advisor: Azad Bonni

Shendure, Jay
Multiplex Genome Sequencing and Analysis
Advisor: George Church

Starita, Lea
Substrates for the BRCA1/BARD1 ubiquitin ligase
Advisor: Jeffrey Parvin

Takeda, David
Regulation of Mammalian Replication Initiators During the Cell Cycle
Advisor: Anindya Dutta

Tenney, Alan
Ligands for Receptor Tyrosine Phosphatases in Neural Development
Advisor: John Flanagan

Wang, Jing
Analysis of the Mixed Lineage Leukemia Protein in Transcriptional Regulation and Leukemogenesis
Advisor: Stan Korsmeyer

Williamson, Robin
Cytogenetic Approaches to Finding Auditory Genes
Advisor: Cynthia Morton

Winckler, Wendy
Human Genetic Variation in the Study of Recombination and Disease
Advisor: David Altshuler

Wingert, Rebecca
Genetic analysis of vertebrate hemoglobin synthesis: Characterization of the zebrafish hypochromic mutants chianti and shiraz
Advisor: Leonard Zon

Wood, Jason
Regulation of yeast and metazoan lifespan by sirtuins and the NAD+ salvage pathway
Advisor: David Sinclair

Wrobel, Carolyn
An Analysis of the Consequences of Colony-Stimulating Factor Receptor Hyperstimulation to Mammary Epithelial Cell Behavior and Morphogenesis
Advisor: Joan Brugge

Zhang, Lan
Functional Inference and Pattern Discovery from Integrated S. cerevisiae Networks
Advisor: Frederick Roth

Zhu, Zhou
Deciphering Gene Regulatory Networks via Integrative Genomic Approaches
Advisor: George Church

2004

Bitterman, Kevin
Regulation of the Sir2 Family of Deacetylases
Advisor: David Sinclair

Brent, Ava
Developmental Regulation of Somitic Tendon Progenitors
Advisor: Clifford Tabin

Brock, Amy
Control of Directional Extension of Lamellipodia by Extracellular Matrix and Mechanical Forces
Advisor: Donald Ingber

Cho, Glen
In Vitro Selection to Create New Protein Libraries and Directed Evolution of New ATP-Binding Proteins from a Zinc Finger Scaffold Using mRNA-Display
Advisor: Jack Szostak

Datta, Sandeep Robert
Coupling Growth Factors to the Apoptotic Machinery: Biochemical and Genetic Elucidation of the PI-3-Kinase/Akt/BAD Survival Signaling Cascade
Advisor: Michael Greenberg

Dodge, Matthew
The Localization and Action of an Intracellular MultiDrug Resistance Gene Product in Leishmania Parasites
Advisor: Dyann Wirth

Du, Jinyan
Identification and Characterization of MITF Target Genes in Melanocytes and Melanomas
Advisor: David Fisher

Elkin, Sheryl
The Role of the Carboxy Terminus of RAG2 in V(D)J Recombination
Advisor: Marjorie Oettinger

Fan, Melina
Regulation of the metabolic coactivator PGC-1a by p160 myb binding protein and by the anaphase promoting complex
Advisor: Bruce Spiegelman

Fukuto, Hana
Genetic Analysis of Chemosensation in C. elegans: the Role of G Protein-Coupled Receptor Kinase
Advisor: Anne Hart

Ge, Hui
Integrating Functional Genomic Information for Caenorhabditis elegans Early Embryonic Development
Advisor: Marc Vidal

Giraud, Jodel
Identification of Serine and Threonine Phosphorylation Sites in Insulin Receptor Substrate-1 and 2 that Regulate Insulin Signaling
Advisor: Morris White

Goodwin, Anne
Characterization of the Expression and Function of Wnt Signaling Components in Vascular Cells
Advisor: Patricia D'Amore

Grad, Yonatan
Computational Analysis and Prediction of Regulatory Sequences in Bilaterians
Advisor: George Church

Guogas, Laura
Structural and Biochemical Studies of RNA-Protein Interactions in Alfalfa Mosaic Virus
Advisor: Lee Gehrke

Gupta, Amitabh
Molecular and Cellular Mechanisms of the Cyclin-Dependent Kinase 5 (Cdk5) in Neocortical Migration and Layer Formation
Advisor: Li-Huei Tsai

Heller, Elizabeth
Targeting Chromatin Remodeling through Ikaros
Advisor: Katia Georgopoulos

Hess, David
Genetic and molecular analysis of Spt10 and Spt21 of Saccharomyces cerevisiae: Roles in Histone Gene Transcription and other Chromatin-Related Processes
Advisor: Fred Winston

Ho, Hsin-Yi
Regulatory mechanisms of Cdc42-mediated actin assembly
Advisor: Marc Kirschner

Kao, Wynn
Degradation of E6AP in the Absence and Presence of HPV E6
Advisor: Peter Howley

Katz, Samuel
Regulation of Hematopoietic and Cardiac Development Mediated by the GATA Transcription Cofactor FOG-1
Advisor: Stuart Orkin

Kessler, Jeffrey
alpha-Synuclein Sequence Variants: Secondary Structure Formation and Aggregation
Advisor: Peter Lansbury

Kim, Sonia
Antizyme Inhibitor: A Novel Efector of Cell Growth and Proliferation
Advisor: Bruce Zetter

King, Ian
Transcriptional Repression by Polycomb-Group Proteins: in vitro Analysis and Correlation to in vivo Function
Advisor: Robert Kingston

Kohli , Rahul
Macrocyclization Catalysis by Excised Thioesterase Domains from Natural Product Synthetases
Advisor: Christopher T Walsh

Kwan, Kristen
Developmental and Cytoskeletal Control of Xenopus Cell Motility
Advisor: Marc Kirschner

Langenau, David
Transgenic Models of T-cell Acute Lymphoblastic Leukemia in the Zebrafish
Advisor: A. Thomas Look

Larschan, Erica
Coactivator function during Gal14-activation in S. cerevisiae
Advisor: Fred Winston

Levine, Stuart
Purification and Characterization of Silencing Complexes in Humans
Advisor: Robert Kingston

Lieberman, Soyan
Regulation of Mos Kinase by CK2b
Advisor: Joan Ruderman

Majewski, Michael
Molecular Characterization and Dynamic Properties of the PSD-95/d-catenin Interaction
Advisor: Kenneth Kosik

Miller, Arlo
The Regulation of Melanoma Antigens by the Microphthalmia Transcription Factor
Advisor: David Fisher

Mills-Shaw, Kenna
Bim and TRAIL control two distinct death processes that mediate lumen formation during mammary morphogenesis
Advisor: Joan Brugge

Miyamoto, David
Probing the Functions of Kinesins in Mitosis
Advisor: Timothy Mitchison

Owens, Christopher
Viral Determinants of Post-Entry Restrictions on HIV-1/SIV Replication in Monkey Cells
Advisor: Joseph Sodroski

Roehrl, Michael
Structural and Chemical Genetic Insights into Protein-Protein Interactions of Phosphate-Dependent Cell Signaling: The Cases of Calcineurin and Protein Kinase C lota
Advisor: Gerhard Wagner

Seton-Rogers, Sarah
Cooperation of ErbB2 and TGF-beta in Mammary Epithelial Cell Migration and Invasion
Advisor: Joan Brugge

Shepard, Jennifer
Genetic Control of Cell Proliferation and Cancer Susceptibility in Zebrafish
Advisor: Leonard Zon

Srinivasan, Dayalan
Identification and Characterization of Regulators of Mitotic Division and Spindle Position in Caenorhabditis elegans
Advisor: Sander van den Heuvel

Stanford, Jennifer
Regulation of Cdc25 and Wee1 in Xenopus Egg Cell Cycles
Advisor: Joan Ruderman

Stolt, Peggy
The Structure and Function of the Phosphotyrosine Binding Domain of the Disabled-1 Adaptor Protein
Advisor: Stephen Blacklow

Sun, Edna
Ephrin-B reverse signaling and cellular guidance
Advisor: John Flanagan

Tseng, Claire
Diversity-Generating Mechanisms of Non-Ribosomal Peptide Synthetases: I. Enzymes in the Biosynthesis of 3,5-Dihydroxy-L-phenylglycine II. Thioesterase Domain of the Surfactin Synthetase
Advisor: Christopher T Walsh

Volles, Michael
The Aggregation and Membrane Permeabilizing Activity of alpha-Synuclein
Advisor: Peter Lansbury

Weaver, Valerie
Molecular Analyses of the Interactions Between Pseudomonas aeruginosa and Burkholderia spp.
Advisor: Roberto Kolter

Willmann, Matthew
Calcium Sensor Kinases in Arabidopsis Innate Immunity: A Functional Genomics Approach
Advisor: Jen Sheen

Woo, Michele
Ribosomal S6 Kinase (RSK) Phosphorylates Filamin A on an Important Regulatory Site: Implications for RSK in the Control of Cell Migration
Advisor: John Blenis

Woolsey, Aaron
Characterization of a Novel Mechanism for Trypanosoma cruzi Invasion of Non-Phagocytic Mammalian Cells
Advisor: Barbara Burleigh

Wu, Pei-Yun Jenny
Functional and Structural Analysis of the S. cerevisiae SAGA Coactivator Complex
Advisor: Fred Winston

Yarrow, Justin
The Use and Discovery of Small Molecules that Affect the Actin Cytoskeleton
Advisor: Timothy Mitchison

Young-Pearce, Tracy
Taurine and Ligand Ion Channels in Photoreceptor Development
Advisor: Constance Cepko

2003

Baur, Scott
Developmental Genetics of the Distal Limb Skeleton
Advisor: Susan Dymecki

Chen, Wen
Activation and Repression of Activity-Dependent Expression of Brain-Derived Neurotrophic Factor (BDNF)
Advisor: Michael Greenberg

Cowley, Glenn
A Molecular and Genetic Analysis of Neurofibromatosis Type 1
Advisor: James Gusella

Fisher, Tracey
In Vitro Characterization of p90 Ribosomal S6 Kinase Domains and In Vivo Analysis of Insulin Receptor Substrate-2 Hepatic Function
Advisor: Morris White

Fisk, Ridgely
Identification and Characterization of Proteins Interacting with the C. elegans Spindle Component LIN-5
Advisor: Sander van den Heuvel

Fujikawa, Shelly
Possible Role of Membrane Compartments in the Origin of Life
Advisor: Jack Szostak

Hansen, Michael
Ephrins as Positional Mapping Cues and Their Topographically Specific Effects on Retinal Axon Growth
Advisor: John Flanagan

Haslett, Judith
Molecular Pathology of Muscle Disease
Advisor: Louis Kunkel

Hitchcock- Camp, Amy
Regulation of Ubiquitinated Membrane Proteins
Advisor: Pamela Silver

Hongay, Cintia
Mot3 is a Transcriptional Repressor of Ergosterol Biosynthetic Genes in Saccharomyces cerevisiae
Advisor: Fred Winston

Kaplan, Craig
Spt6, a Conserved, Essential Regulator of Chromatin Structure and Transcription Elongation by RNA Polymerase II
Advisor: Fred Winston

Larvie, Mykol
X-ray Crystallography and Electron Microscopy of Cell Surface Receptors I. CD46 II.Transferrin Receptor
Advisor: Stephen Harrison

Leader, Benjamin
Identification and Characterization of Formin-2, a Gene Required for Meiosis in the Oocyte
Advisor: Philip Leder

Lee, Michelle
Endogenous Activin-like Signals in the Early Xenopus Embryo: Regional Specification and Timing of Smad2 Phosphorylation
Advisor: Malcolm Whitman

Lei, Elissa
Messenger RNA Nuclear Export
Advisor: Pamela Silver

Li, Hanjun
Application and Development of Multi-Dimensional NMR Spectroscopic Techniques to Study Protein Structure in Solution
Advisor: Gerhard Wagner

Littlepage, Laurie
Regulation of the Mitotic Kinase Aurora-A
Advisor: Joan Ruderman

Losey, Heather
Glycosyltransferases Involved in the Biosynthesis of Glycopeptide Antibiotics
Advisor: Christopher T Walsh

Martinez Gakidis, Maria Angelica
Vav Guanine Nucleotide Exchange Factors are Required for Integrin-Dependent Functions of Leukocytes
Advisor: Joan Brugge

Ned, Renée
Characterization of the in vivo Requirement for Transferrin Receptor (TfR) in Tissue Development and Immune Function
Advisor: Nancy Andrews

Palmer, Rachel
Transcriptional Targets of the Wilms Tumor Suppressor WT1 and Its Tumor-Associated Variants
Advisor: Daniel Haber

Patel, Hiten
Biosynthesis of the Pseudomonas aeruginosa Siderophore Pyochelin: Peptide Synthesis and Tailoring
Advisor: Christopher T Walsh

Paulding, Charles
Representational Difference Analysis (RDA) of Human and Mouse Cancers, and the Identification of the Tre2 (USP6) Oncogene as a Hominoid-Specific Gene.
Advisor: Daniel Haber

Powelka, Aimee
Arf6 Regulates Endocytic Trafficking in Two Examples of Polarized Cells
Advisor: Victor Hsu

Rowan, Sheldon
Regulation and function of the retinal homeoprotein Chx10
Advisor: Constance Cepko

Schierle, Clark
Protein Targeting in Escherichia coli
Advisor: Jonathan Beckwith

Selinger, Douglas
High-resolution Microarray Analysis of RNA Degradation in Escherichia coli
Advisor: George Church

Stavropoulos, Nicholas
Gain-of-Function Manipulation and Expression Analysis of the Xist Antisense GeneTsix
Advisor: Jeannie Lee

Swilling, Nathan
Functional Analysis of the RBCK Proteins
Advisor: Philip Hinds

Tanny, Jason
The mechanism of NAD-dependent deacetylation and its role in gene silencing in Saccharomyces cerevisiae
Advisor: Danesh Moazed

Tseng, Ai-Sun
Regulators of Growth and Cell Proliferation in Drosophila melanogaster
Advisor: Iswar Hariharan

Yu, Channing
Genetics and Genomics of GATA-1 Function in Hematopoiesis
Advisor: Stuart Orkin

2002

Aguirre, Vincent
Identification of Serine Phosphorylation Sites in IRS1 that Inhibit Insulin Action
Advisor: Morris White

Borodovsky, Anna
Development and Application of Novel Inhibitors of Deubiquitinating Enzymes.
Advisor: Hidde Ploegh

Bradley, Kenneth
The Use of Somatic Cell Genetics to Identify Cellular Factors Involved in Host-Pathogen Interactions
Advisor: John Young

Chang, Aaron
Genetic Dissection of the Zinc Finger Transcription Factor GATA-2 in Mouse Development
Advisor: Stuart Orkin

Corey, Laura
Chromatin Remodeling in the Mammalian Heat Shock Response
Advisor: Robert Kingston

Dhavan, Rani
The Function and Regulation of Cyclin-Dependent Kinase 5
Advisor: Li-Huei Tsai

Doling, Amy
The Role of Antigen Compartmentalization in the Priming of CD8+ T Cells
Advisor: Michael Starnbach

Evans, Sarah
Analysis of the Rad3 and Cds1 Fission Yeast Checkpoint Kinases
Advisor: Tamar Enoch

Frantsve, Julie
Characterization of the Transformation and Signal Transduction Properties of TEL/JAK2 Fusion Proteins Associated with Human Leukemias
Advisor: D. Gary Gilliland

Judson, Nicholas
Identification and Characterization of Essential Genes in Vibrio cholerae
Advisor: John Mekalanos

Kim, Peter
Refolding and NMR Structures of CD4-Lck and CD8a-Lck Complexes: A Novel Zinc-Mediated Dimerization Motif
Advisor: Michael Eck

Koontz, Jason
Frequent Fusion of JAZF1 and JJAZ1 Genes in Endometrial Stromal Tumors
Advisor: Jeffrey Sklar

Lee, Ming-Sum
The Role of Cyclin-Dependent Kinase 5 in Alzheimer's Disease Pathogenesis
Advisor: Li-Huei Tsai

Liao, Chienwei
Genetic Analysis of Hematopoiesis in Zebrafish: Hemangioblast, Stem Cell, and Erythroid Differentiation in the cloche, bloodless, and riesling Mutants
Advisor: Leonard Zon

Lin, Michael
EphA Regulation of Rho GTPases through the Exchange Factor Ephexin during Axon Guidance
Advisor: Michael Greenberg

McGill, Gael-Christophe
Regulatory Pathways in Melanoma Cell Apoptosis
Advisor: David Fisher

Miller, Deborah
Biosynthesis of the Plague Iron Chelator Yersiniabactin and Characterization of its NRPS/PKS/NRPS Hybrid System
Advisor: Christopher T Walsh

Moy, Terence
Assembly and Nuclear Export of Ribosomal Subunits in Saccharomyces cerevisiae
Advisor: Pamela Silver

Nickels, Bryce
The Interactions of Transcription Regulators with the s70 Subunit of RNA Polymerase
Advisor: Ann Hochschild

O'Brien, Kristine
Insights into the Role of Sarcospan in the Dystrophin-Associated Protein Complex
Advisor: Louis Kunkel

Peters, Maureen
Patterning the Dorsal-Ventral Axis of the Vertebrate Retina
Advisor: Constance Cepko

Piscopo, Denise
Characterization and Functional Analysis of the Cyclin G1 Protein
Advisor: Philip Hinds

Rohatgi, Rajat
Biochemical Dissection of a Signaling Pathway that Controls Actin Assembly
Advisor: Marc Kirschner

Sarraf, Pasha
A Role for the Nuclear Receptor PPARg in Cancer
Advisor: Bruce Spiegelman

Serluca, Fabrizio
Genetic Dissection of Kidney Development: Distinct Pathways for Glomerulus and Tubule
Advisor: Mark Fishman

Shaywitz, Adam
Role of the Phosphorylation-Dependent CREB/CBP Interaction in Transcriptional Activation by CREB
Advisor: Michael Greenberg

Smith, Jodi
Abl: Mechanism of Activation by Nck
Advisor: Bruce Mayer

Smith, Kristen
Activation of the Abl Tyrosine Kinase by Oligomerization
Advisor: Rick Van Etten

Stein, Pascal
A Visual Screen to Identify Proteins Based on Subcellular Localization: Characterization of Nurim and MIR1
Advisor: Tom Rapoport

Syken-Tolliday, Nicola
Assembly and Function of a Cytokinetic Ring in Saccharomyces cerevisiae
Advisor: Rong Li

Takasu- Scheiffele, Mari
Regulation of Excitatory Synapse Development by EphB Receptors
Advisor: Michael Greenberg

Woda, Juliana
Regulation of Neural Plate Border Formation by Distal-less Proteins
Advisor: Mark Mercola

Wohlschlegel, James
Regulated Assembly of Protein Complexes at Origins of Replication
Advisor: Anindya Dutta

Wong, Jenise
Indentification and Functional Analysis of EWS-WT1 Target Genes in Desmoplastic Small Round Cell Tumor
Advisor: Daniel Haber

Yang, Hong
Molecular Inquiries into the Functions of the Retinoblastoma Protein
Advisor: David Livingston

Yoon, Clifford
Transcriptional Regulation of Metabolism by PPARg and PPARg coactivator-1
Advisor: Bruce Spiegelman

2001

Aalfs, Jeffery
A Biochemical Comparison of the Human ATP-dependent Nucleosome Remodeling Proteins SNF2 Homolog, SNF2-Like, and Brahma-Related Gene 1
Advisor: Robert Kingston

Alexander, Kamilah
The Role of the Retinoblastoma Protein in Senescent Cell Cycle Exit, Survival, and Morphological Alteration
Advisor: Philip Hinds

Ballif, Bryan
Molecular Mechanisms Regulating MEK-MAP Kinase Cell Survival: A Critical Role for RSK and PDK1
Advisor: John Blenis

Bateman, Jack
Genetic Analysis of the Guanine Nucleotide Exchange Factor Trio and the Receptor Tyrosine Phosphatase Dlar in Drosophila melanogaster
Advisor: David Van Vactor

Best, Jennifer
Identification and Characterization of a Novel SUMO-1 Protease, SuPr-1, that Regulates Transcription
Advisor: Leonard Zon

Chen, Andy
The Role of Ox40-Ligand in Costimulation
Advisor: Arlene Sharpe

Chen, Clark
Replication Accessory Factors and Genome Stability
Advisor: Richard Kolodner

Chen, Joseph
The Role of an Essential Membrane Protein (FtsQ) in Escherichia coli Cell Division
Advisor: Jonathan Beckwith

Criss, Alison
Mechanisms of Salmonella typhimurium Invasion and Signaling in Polarized Epithelial Cells
Advisor: James Casanova

Estep, Preston
Genomic Approaches to Connecting the Transcriptional Regulatory Network of Saccharomyces cerevisiae Stress Responses
Advisor: George Church

Fitzgerald, Daniel
Mechanism of Polycomb Repression in Drosophila Melanogaster
Advisor: Welcome Bender

Growney, Joseph
Genomic Analysis of the Mouse Legionella pneumophila Susceptibility Locus
Advisor: William Dietrich

Johnson Hamlet, Michelle
Genetic Analysis of the Nonreceptor Protein Tyrosine Phosphatase corkscrew throughout Drosophila Development
Advisor: Lizabeth Perkins

Karpova, Alla
Fine-tuning the Cellular Antiviral Response through the Regulation of Interferon Regulatory Factor-3
Advisor: Peter Howley

Karuman, Philip
Functional Analysis of LKB1, the Tumor Suppressor Found in Peutz-Jegher's Syndrome
Advisor: Junying Yuan

Kaufmann, Nancy
Genetic Analysis of Dlar in Axon Guidance and Synaptic Development in Drosophila melanogaster
Advisor: David Van Vactor

Korey, Christopher
A Screen for New Motor Axon Guidance Mutants: The Genetic and Molecular Analysis of small bristles
Advisor: David Van Vactor

Langdon, Robert
Transcriptional Activation by Natural and Artificial cAMP Receptor Proteins in Escherichia coli
Advisor: Ann Hochschild

Lechler, Terry
Generation and Polarization of the Yeast Actin Cytoskeleton
Advisor: Rong Li

Lostroh, Candi Phoebe
Activation of the invF and prgH Promoters by HilA, a Virulence Factor from S. enterica sv. Typhimurium
Advisor: Cathy Lee

Lucas- Orwant, Robin
Regulation of hilA Expression in Salmonella typhimurium
Advisor: Cathy Lee

Million, Ryan
Study of Oncogenic Abl Translocations in a Murine Model of Leukemogenesis
Advisor: Rick Van Etten

Monroe, Robert
Developmental Regulation of the RAG2 Gene and the T Cell Receptor Delta Locus
Advisor: Frederick Alt

Morehouse Ettinger, Heather
Analysis of Nucleocytoplasmic Transport Receptors
Advisor: Pamela Silver

Morrow, Eric
The Function of Crx and NeuroD Transcription Factors in the Development of the Neural Retina in Rodent
Advisor: Constance Cepko

Mundy, Cynthia
Initiation of V(D)J Recombination by the Recombination Activating Genes, RAG1 and RAG2
Advisor: Marjorie Oettinger

Purcell, Patricia
Genes Involved in Early Development of the Mouse Cranial Sensory Placodes
Advisor: Richard Maas

Rolls, Melissa
Establishing Domains within the Continuous Endoplasmic Reticulum Membrane
Advisor: Tom Rapoport

Rones, Melissa
Patterning of the Heart and Kidney Fields by Notch Signaling
Advisor: Mark Mercola

Schneider, Valerie
Head and Heart Induction in Xenopus laevis
Advisor: Mark Mercola

Schuyler, Scott
Ase1p is a Dynamic Microtubule Crossbridge Essential for Anaphase B
Advisor: David Pellman

Stevenson, Lauren
Identification and Analysis of S. cerevisiae Genes that Affect Cell Cycle when Overexpressed
Advisor: Ed Harlow

Sullivan, Eileen Kelly
Transcriptional Control by Human Heat Shock Factor One
Advisor: Robert Kingston

Tian, Hongping
A Genetic Study of Membrane Protein Insertion and Disulfide Bond Formation in Escherichia coli K-12
Advisor: Jonathan Beckwith

Weiss, Valerie
The Function and Three-Dimensional Structure of the Oligomeric Yeast Arginine Methyltransferase, Hmt1
Advisor: James Hogle

Yeo, Chang-Yeol
Mechanisms of TGFb Family Signaling During Early Vertebrate Embryogenesis
Advisor: Malcolm Whitman

Zinser, Erik
A Genetic Analysis of the Physiological Basis of Microbial Evolution during Prolonged Starvation
Advisor: Roberto Kolter

2000

Adams, Amy
Identification of the Hormone Contact Domains and Early Signaling Events of the Human Parathyroid Hormone 1 (hPTH1) Receptor
Advisor: Michael Rosenblatt

Baker, Gregory
Characterization of the Functional Domains of the D-Type Cyclins
Advisor: Philip Hinds

Beck, Laurence
Cell-Cell Interactions and Microenvironmental Influences in Vascular Development and Pathology
Advisor: Patricia D'Amore

Boerger, Adrienne
The Use of Retroviral Vectors Preloaded with a Retroviral Receptor-Ligand Bridge Protein for Cell-Type Specific Viral Targeting and as a System for Studying Avian Leukosis Virus Entry
Advisor: John Young

Brasher, Bradley
Mechanism of Regulation of the c-Abl Tyrosine Kinase: Mutagenic and Enzymological Studies
Advisor: Rick Van Etten

Chen, Hsiuchen
A Transgenic Approach to Studying Prostate Growth Regulation
Advisor: Philip Leder

Das, Ananya
Evolutionary Analysis of in vitro Selected Ligase Ribozymes
Advisor: Jack Szostak

Donovan, Adriana
A Genetic Analysis of Vertbrate Iron Metabolism: Characterization of the Zebrafish Blood Mutants weissherbst and chardonnay
Advisor: Leonard Zon

Ehmann, David
Enzymology of Domains of Non-ribosomal Peptide Synthetases Involved in Lysine and Enterobactin Biosynthesis
Advisor: Christopher T Walsh

Fitzgerald, Marilyn
Regulation of Syndecan Ectodomain Shedding
Advisor: Merton Bernfield

Garcia, Claudia
Development of the Blood-Brain Barrier: Investigations of the Role of Astrocyte-Endothelial Cell Interactions Using an in Vitro Coculture Model
Advisor: Patricia D'Amore

Harper, Jay
Expression of VEGF and the VEGF Receptor Neurophilin-1 during Endochondral Ossification
Advisor: Michael Klagsbrun

Healy, Vicki
Investigation of the Mechanism and Specificity of D-Ala-D-Ala Ligases in Bacterial Cell Wall Biosynthesis and the VanA (D-Ala-D-Lac Ligase) and VanC2 (D-Ala-D-Ser Ligase) Variants that Underlie Vancomycin Resistance
Advisor: Christopher T Walsh

Heanue, Tiffany
Vertebrate Dachshund Genes Function in Evolutionarily Conserved Regulatory Cassettes to Control Developmental Fate
Advisor: Clifford Tabin

Hood, Jennifer
Studies of Nuclear Trafficking in Saccharomyces cerevisiae
Advisor: Pamela Silver

Huber, Tara
Studies of the Induction of Hematopoietic Mesoderm in Xenopus
Advisor: Leonard Zon

Kass, Jamie
Genetic Analysis of a Polymodal Sensory Neuron in C. elegans
Advisor: Joshua Kaplan

Lin, Robert
The Roles of the T-box Transcription Factor Genes TBX3 and TBX5 in Limb and Cardiac Development
Advisor: Jonathan Seidman

Lippincott, John
Identification and Characterization of an Actomyosin Contractile Ring Involved in S. cerevisiae Cytokinesis
Advisor: Rong Li

Martin, III, Glover
Regulation of Selenocysteine Insertion in Eukaryotes: Functional Parameters of the SECIS Element and in vivo Efficiency of Selenoprotein Synthesis
Advisor:

Murtaugh, Lewis
Molecular Mechanisms Regulating Cartilage Formation and Maturation
Advisor: Andrew Lassar

Ng, Yin-Shan
Differential Roles of Vascular Endothelial Growth Factor (VEGF) Isoforms in Vascular Development
Advisor: Patricia D'Amore

Nolan, Katherine
Characterization of Rac Signaling Pathways in Drosophila melanogaster
Advisor: Jeffrey Settleman

Patrick, Gentry
Regulation of the p35/cdk5 Kinase in Neuronal Development and Neurodegenerative Disease
Advisor: Li-Huei Tsai

Pfleger, Cathie
Regulation and Substrate Specificity of the Anaphase Promoting Complex
Advisor: Marc Kirschner

Phillips, Dereth
Competitive Growth Analysis of E. coli In-Frame Deletion Mutants across a Spectrum of Environmental Conditions
Advisor: George Church

Pollard, Jack
Surveying Functional Nucleic Acid Sequence Space
Advisor: Jack Szostak

Porro, Elena
Characterization of cfap, a Novel cdk5 Associated Protein
Advisor: Li-Huei Tsai

Rehm, Heidi
Toward an Understanding of Norrie Disease and the Putative Growth Factor Norrin
Advisor: Cynthia Morton

Salic, Adrian
Biochemical and Developmental Studies of the Wnt Signaling Pathway
Advisor: Marc Kirschner

Schechter, Lisa
Indentification of Transcription Factors and DNA Elements that Control hilA Expression in Salmonella typhimurium
Advisor: Cathy Lee

Shannon, Katie
Regulation of Actomyosin Ring Assembly and Contraction in Budding Yeast
Advisor: Rong Li

Shen, Elisa
The Role of RNA-binding Proteins in mRNA Metabolism in Saccharomyces cerevisiae
Advisor: Pamela Silver

Smith, Devyn
Patterning and Evolution of the Vertebrate Gut
Advisor: Clifford Tabin

Syken, Josh
TID1 Encodes Two Mitochondrial Modulators of Apoptosis
Advisor: Karl Münger

Wawersik, Stefan
A Role for the Growth Factor Bone Morphogenetic Protein 7 in Early Development of the Murine Eye
Advisor: Richard Maas

Weinstein, Edward
Involvement of the Heregulin/Neu Axis in Breast Cancer Growth and Development
Advisor: Philip Leder

Wills, Zachary
Signaling Components Regulating Motor Axon Guidance in the Fruitfly Drosophila melanogaster
Advisor: David Van Vactor

Winter, Dirk
Indentification and Characterization of the Budding Yeast Arp2/3 Complex
Advisor: Rong Li

Yballe, Claudine
Roles of Phosphoinositide 3-Kinase (PI3K) p85 Regulatory Subunits in Development and Physiology
Advisor: Lewis Cantley

1999

Barrett, Peter
tkr-1, a C. elegans tachykinin receptor homolog
Advisor:

Beauregard- Garber, Kathryn
Interactions of Anthrax Toxin with Mammalian Cells
Advisor: R. John Collier

Behar, Vered
Insights into the Bimolecular Interactions in the Parathyroid Hormone--Receptor System
Advisor: Michael Rosenblatt

Brownlie, Alison
Characterization of the hypochromic blood mutants zinfandel, chianti and sauternes: A genetic analysis of hemoglobin synthesis in the zebrafish, Danio rerio.
Advisor: Leonard Zon

Chapman, Carolyn
Analysis of the Fission Yeast Cell Cycle Checkpoint Gene rad3+
Advisor: Tamar Enoch

Chou, Susanna
Mechanisms of Accessibility and Activation at Eukaryotic Promoters: the Role of TFIIA, TFIIB and Promoter Accessibility in Yeast
Advisor: Kevin Struhl

Dudley, Aimée
The SAGA Complex and Spt-dependent Promoter Function in Saccharomyces cerevisiae
Advisor: Fred Winston

Elliott, Jennifer
Assembly and Translocation of Anthrax Toxin
Advisor: R. John Collier

Fanning, Paul
Regulation of Endochondral Bone Growth in Mice by the Gene for Osteochondrodystrophy (ocd)
Advisor: Bjorn Olsen

Forbes, Kristi
Regulation of Cdc25p in the Fission Yeast DNA Replication Checkpoint
Advisor: Tamar Enoch

Fox, Jeremy
Identification of Genes Required for Neuronal Migration in the Developing Mammalian Cerebral Cortex
Advisor: Christopher Walsh

Garber, David
Phenotypic Analysis of Latency-Associated Transcript Mutants of Herpes Simplex Virus Type 1
Advisor: David Knipe

Garraway, Levi
Genetic Studies of Oxidant Resistance Determinants in the Leishmania Parasite
Advisor: Stephen Beverley

Gozani, Or Pinchas
Functional Analysis of RNA-Protein and Protein-Protein Interactions during Spliceosomal Assembly
Advisor: Robin Reed

Juo, Peter
Characterization of Signaling Pathways Involved in Fas-Mediated Apoptosis
Advisor: John Blenis

Kahana, Jason
Mitotic Spindle Positioning and Microtubule Dynamics in Saccharomyces cerevisiae
Advisor: Pamela Silver

Kostrub, Corwin
Analysis of the Fission Yeast Cell Cycle Checkpoint Gene hus1+
Advisor: Tamar Enoch

Kwon, Young
The role of the p35/cdk5 kinase in cortical development
Advisor: Li-Huei Tsai

Lu, Yu
Cloning and Functional Characterization of Drosophila Pkn, a Rho/Rac Effector Target Kinase, Required for Embryogenesis
Advisor: Jeffrey Settleman

Ma, Le
Regulation of the Actin Cytoskeleton by Cell Signaling
Advisor: Marc Kirschner

Moore Rodriguez, Christine
Characterization of mRNA Capping Enzyme and its Recruitment to RNA Polymerase II
Advisor: Stephen Buratowski

Morris, James
A Genetic and Molecular Analysis of Transvection at the yellow Locus of Drosophila melanogaster
Advisor: Chao-ting Wu

Moynihan, Elizabeth
The Identification and Characterization of Fission Yeast Genes Required for Normal Cell Division When Ribonucleotide Reductase Is Inhibited
Advisor: Tamar Enoch

Nguyen-Huynh, Anh
The Roles of Origin-Flanking Sequences and Cellular Transcription Factors in Herpes Simplex Virus OriS-Dependent DNA Replication
Advisor: Priscilla Schaffer

Pagan Westphal, Sylvia
The Transfer of Left-Right Positional Information During Chick Embryogenesis and Situs-Specific Morphogenesis
Advisor: Clifford Tabin

Paradis, Suzanne
Molecular and Genetic Analysis of an Insulin Receptor-like Signaling Pathway in C. elegans
Advisor: Gary Ruvkun

Provoda, Chester
Biogenesis of Synaptic Vesicles
Advisor: Kathleen Buckley

Reinhart, Brenda
The Regulation of Developmental Timing in Caenorhabditis elegans
Advisor: Gary Ruvkun

Stewart, Eric
The Role of Two Thiol-Disulfide Redox Pathways in Escherichia coli.
Advisor: Jonathan Beckwith

Sudarsanam, Priya
Transcriptional Control by Snf/Swi in S. cerevisiae
Advisor: Fred Winston

Tsang, Alice
Identification of Friend of GATA-1 (FOG), an Essential Cofactor for Transcription Factor GATA-1 in Hematopoiesis
Advisor: Stuart Orkin

Zhou, Heng
A Study of Transcriptional Regulation of the SUC2 Gene of S. cerevisiae : Promoter Analysis and Characterization of a New Repressor, Nrg1
Advisor: Fred Winston

1998

Arany, Zoltan
E1A Oncoprotein-Targeted Transcriptional Coactivators
Advisor: David Livingston

Bader, Debra
A Molecular and Genetic Analysis of Imprinting and Methylation in the Mouse
Advisor: Philip Leder

Benson, Ericka
Pore Formation and Translocation by Anthrax Protective Antigen
Advisor: R. John Collier

Berger, Allison
Genetic Analysis of G Protein-Induced Neuronal Degeneration in C. elegans
Advisor: Joshua Kaplan

Brook, Adam
E2F Functions and Pathways
Advisor: Nick Dyson

Brown, Jennifer Ruth
The Role of fos Family Genes in Adaptive Neuronal Responses and Cell Proliferation
Advisor: Michael Greenberg

Buggs, Colleen
Novel Aspects of Gene Regulation by the SRY Family of DNA-Binding Proteins
Advisor:

Cheatham, Lynn
Structural and Functional Analysis of p70S6k and its Role in the Control of Cell Proliferation
Advisor: John Blenis

Chiang, Su
Genetic Analysis of the Colonization Mechanisms of Vibrio cholerae
Advisor: John Mekalanos

Cohen, Barak
Selection of Peptide Aptamers that Recognize and Inhibit Intracellular Proteins
Advisor: Roger Brent

Esler, William
Alzheimer's Disease b-Amyloid Peptide Assembly and Deposition in vitro
Advisor: John Maggio

Finger, Erik
Regulation of Selectin-mediated Leukocyte Adhesion
Advisor: Timothy Springer

Garrity, Lynne
The Identification of Virulence Genes of Leishmania major by Functional Rescue
Advisor: Stephen Beverley

Gehring, Amy
Phosphopantetheinyl Transferase Catalyzed Activation of Polyketide and Nonribosomal Peptide Synthases and Deconvolution of Enterobactin and Yersiniabactin Siderophore Biosyntheses
Advisor: Christopher T Walsh

Huang, Hsueh-Cheng
Mechanism of ATP-dependent Proteases and Role of Molecular Chaperones in Protein Degradation in Escherichia coli
Advisor: Alfred Goldberg

Hurford, Jr., Robert Kenneth
Analysis of E2F Activity in Primary Cells Deficient for pRB Family Member Proteins
Advisor: Nick Dyson

Jones, Dana
The Human Papillomavirus E7 Oncoprotein Utilizes Multiple Mechanisms to Overcome Cellular Growth Arrest Signals
Advisor: Karl Münger

Kadosh, David
Evidence for Targeted Histone Deacetylation as a Mechanism of Transcriptional Repression
Advisor: Kevin Struhl

Koepp, Deanna
Analysis of Nuclear Transport Factors in Saccharomyces cerevisiae
Advisor: Pamela Silver

Kwon, David
Enzymology of the Bifunctional Glutathionylspermidine Synthetase/Amidase from Eshcerichia coli
Advisor: Christopher T Walsh

Lin, Chia-Yang
Lineage and Molecular Analysis of the Developing Chick Cerebellum
Advisor: Constance Cepko

Luo, Daniel Biao
Isolation and Functional Analysis of a cDNA for Human Jagged2, a Gene Encoding a Ligand for the Notch Receptor
Advisor: Jeffrey Sklar

Novitch, Bennett
Regulation of Skeletal Muscle Differentiation by the Retinoblastoma Tumor Suppressor Protein and Cyclin-Dependent Kinase Inhibitors
Advisor: Andrew Lassar

O'Reilly, Alana
The Role of the Protein Tyrosine Phosphatase SHP-2 in bFGF Signaling in Xenopus Animal Caps
Advisor: Benjamin Neel

Petrovick, Martha
Regulation of Myeliod-Specific Genes: Analysis of Protein-Protein Interactions Involving the Transcription Factors PU.1, AML1 and C/EBPa
Advisor: Daniel Tenen

Prahalad, Murali
The Induction of Vancomycin Resistance and Crosstalk Among Bacterial Two-Component Systems
Advisor: Christopher T Walsh

Rietsch, Arne
Disulfide Bond Formation and Isomerization in Escherichia coli
Advisor: Jonathan Beckwith

Rohrwild, Markus
The ATP-dependent HsIVU Protease Complex from Escherichia coli
Advisor: Alfred Goldberg

Sadler, Kirsten
Components of the Signaling Pathway Leading to Cell Cycle Activation and Meiotic Maturation in Starfish Oocytes
Advisor: Joan Ruderman

Sadoulet-Puccio, Helene
Cloning and Characterization of Dystrobrevins, Dystrophin Related and Associated Proteins
Advisor: Louis Kunkel

Sewack, Gerald
Chromatin Structure of the pS2 Promoter and its Influence on Transcription Factor Binding
Advisor: Ulla Hansen

Smith, Laura
A Model for Neutrophil Differentiation Involving Synergistic Upregulation of the G-CSFR Promoter by Ras and C/EBPa
Advisor: Daniel Tenen

Stevens, Lisa
Analysis of Virulence of Pseudomonas syringae on Arabidopsis thaliana
Advisor: Frederick Ausubel

Talis, Andrea
Functions of the E6AP Ubiquitin Protein Ligase
Advisor: Peter Howley

Tolias, Kimberley
Role of Lipid Kinases in Rac1 GTPase Signaling to the Actin Cytoskeleton
Advisor: Lewis Cantley

Volker, Janet
Regulation of the Mammalian Transcription Factor LSF at the G0/G1 Boundary
Advisor: Ulla Hansen

Wang, Cindy Chi-Wen
Molecular Analysis of the Mouse formin Gene
Advisor: Philip Leder

Westphal, Christoph
Ataxia-telangiectasia: A Disease of Defective Signaling
Advisor: Philip Leder

Yenush, Lynne
Essential Elements in Insulin-Stimulated Cell Growth and Survival
Advisor: Morris White

Yoder, Jeffrey
DNA Methyltransferases in Mammalian Development and Host Defense
Advisor: Timothy Bestor

1997

Alexiades-Armenakas, Macrene
Retinal Progenitor Cells Are Heterogeneous in Antigen Expression and the Fate of their Progeny
Advisor: Constance Cepko

Bajaj, Vivek
HilA-a Transcriptional Activator of Salmonella typhimurium Invasion Genes
Advisor: Cathy Lee

Benson- Berkenblit, Gail
The Role of Hoxa-10 in Reproductive Tract Morphogenesis and Uterine Implantation
Advisor: Richard Maas

Bortvin, Aleksey
Genetic and Biochemical Analysis of SPT6 Function in the Control of Chromatin Structure in S. cerevisiae
Advisor: Fred Winston

Bricker, Angela Lowry
Control of mRNA Stability in Escherichia coli: Structure and Function of Two 5' Untranslated Regions
Advisor: Joel Belasco

Brown, Steven Andrew
Roles for Activators and Chromatin in the Regulation of Transcriptional Elongation
Advisor: Robert Kingston

Campbell, Kathryn
Functional Analysis of Conserved Sequence Motifs in Polyomavirus Tumor Antigens Required for Interactions with Cellular Proteins
Advisor: Thomas Roberts

Chen, Haiyan
Regulation of Signaling Pathways in Macrophages by the Protein Tyrosine Phosphatase SHP1
Advisor: Benjamin Neel

Chen, Xin
Composition and Assembly of an Activin Response Factor during Early Xenopus Development
Advisor: Malcolm Whitman

Chiang, Ming-Ko
Identification and Characterization of Novel Extracellular Signaling Molecules in Embryonic Development
Advisor: John Flanagan

Elkes, Daniel Arthur
Genetic Analysis of Serotonin Regulated Behaviors in C. elegans
Advisor: Joshua Kaplan

Ezzeddine, Zahra Diala
Cell Type Specification in the Mammalian Retina: Developmental Plasticity of Postmitotic Progenitors Revealed by CNTF
Advisor: Constance Cepko

Fazeli, Pooya
Role of Non Receptor Tyrosine Kinases in Fcg Receptor Mediated Phagocytosis: Studies in a Heterologous System
Advisor: Brian Seed

Field, Seth Joel
Genetic Analysis of Two Mammalian Oncogenic Transcription Factors: c-fos and E2F1
Advisor: Michael Greenberg

Galvin, Katherine Margaret
Transcriptional Repression by YY1
Advisor: Yang Shi

Goff, Deborah Jeanne
Functional Analysis of the Roles of Hoxd-13 and Hoxd-11 During Chick Limb Development
Advisor: Clifford Tabin

Grammer, Timothy
Characterization of the Regulation of pp70 S6 Kinase and the MAP Kinases, ERK1 and ERK2
Advisor: John Blenis

Gueiros Filho, Frederico
Genetic Studies of Leishmania
Advisor: Stephen Beverley

Halachmi, Shlomit
Characterization and Cloning of an Estrogen Receptor Coactivator
Advisor: Myles Brown

Hendrickson, Erik
Role of the rpoN-Encoded Alternative Sigma Factor in Pseudomonas syringae and Pseudomonas aeruginoas Pathogenesis
Advisor: Frederick Ausubel

Ho Pao, Chrystal L.
Generation and Analysis of Mice Deficient in a Calcium-Sensing Receptor
Advisor: Jonathan Seidman

Hoock, Thomas Carl
Lysosomal Ankyrins: Characterization of Unique Isoforms of Ankyrin-3 in the Mouse Macrophage
Advisor: Samuel Lux

Huizenga, David Everett
Isolation and Analysis of Novel Functional Single Stranded DNAs
Advisor: Jack Szostak

Jost, Christine Arlette
Functional Analysis of the p53-like Gene, NBS-1
Advisor:

Kantor, Jason
Inhibition of Tumor Cell Motility by the Metastasis Supressor Gene, NM23
Advisor: Bruce Zetter

Kim, Dennis
Enzyme Mechanism, Inhibition, and Antibiotic Resistance in the First Step of Bacterial Peptidoglycan Biosynthesis Catalyzed by MurA
Advisor: Christopher T Walsh

Konzak, Kristin Elaine
Functional Analysis of Pit-1 Isoforms
Advisor: David Moore

Koweek, Allison
Analysis of Maternal Effect Genes and daf-3 in C. elegans dauer Formation
Advisor: Gary Ruvkun

Lazar, Sara Whitney
Survival of Ecscherichia coli in Stationary Phase
Advisor: Roberto Kolter

Lee, Mark
The Role of the TATA-binding Protein in Transcriptional Activation
Advisor: Kevin Struhl

Lien, Lester
Regulation of the Myeloid-cell Expressed Human gp91-phox Gene as Studied by Transfer of Yeast Artificial Chromosome Clones into Embryonic Stem Cells
Advisor: Stuart Orkin

Madison, Jon Morrow
Analysis of SPT3, a Conserved Transcription Factor, in the Control of Promoter-Specific Transcription in S. cerevisiae
Advisor: Fred Winston

Madison, Lara L.
Oxazole and Thiazole Moieties in Peptides: Post-translational Modification of Serines and Cisteines
Advisor: Roberto Kolter

McKinney, Patricia Ansel
A Specific RNA-Protein Interaction in Alfalfa Mosaic Virus: Identification of an RNA Binding Consensus Sequence and Conserved RNA Determinants
Advisor: Lee Gehrke

Moqtaderi, Zarmik
TBP-associated Factors in Saccharomyces cerevisiae
Advisor: Kevin Struhl

Morris, Jason
Cloning and Characterization of age-1, a Phosphatidylinositol 3-OH Kinase Family Member that Regulates Life Span and Life Cycle in C. elegans
Advisor: Gary Ruvkun

Myers, Martin
The Function of Insulin Receptor Substrate-1 in Insulin Signal Transmission
Advisor: Morris White

Nascone, Nanette
The Induction and Left-Right Patterning of the Heart in Xenopus laevis
Advisor: Mark Mercola

Nelson, Craig Emory
Hox Genes and the Development and Evolution of Tetrapod Limbs
Advisor: Clifford Tabin

Phelan, Shelley
A Role for Pax-3 in Maternal Diabetes-Induced Neural Tube Defects, and Characterization of DNA Sequences which Mediate Pax-3 Binding and Transactivation
Advisor: Mary Loeken

Prinz, William
Studies on Protein Folding and Protein Export in Escherichia coli
Advisor: Jonathan Beckwith

Roberts, Shannon
Identification and Analysis of Spt20: Connections to Histone Acetyltransferases and Large Transcription Complexes
Advisor: Fred Winston

Rogers, Elizabeth
Genetic Analyses of the Arabidopsis thaliana - Pseudomonas syringae Interaction
Advisor: Frederick Ausubel

Rosania, Gustavo Rafael
Spatial Control of Protrusive Activity and Cell Shape by Microtubules
Advisor: Joel Swanson

Rosen, Laura
Calcium Activation of the Ras/MAP Kinase Signaling Pathway
Advisor: Michael Greenberg

Saltsman, Kirstie Ann
The Regulation of Heat Shock Factor in the Fission Yeast, Schizosaccharomyces pombe
Advisor: Robert Kingston

Stanger, Ben
Molecular Characterization of the Cell Death Inducers Fas/APO-1 and RIP
Advisor: Philip Leder

Tissenbaum, Heidi
Genetic and Molecular Analysis of Genes Controlling Diapause and Longevity in Caenorhabditis elegans
Advisor: Gary Ruvkun

Tung, Rosann
Cloning and Functional Characterization of KHS, a Novel SPS1/STE20 Homologue
Advisor: John Blenis

Vines, Charlotte Mary
Cloning, Localization and Expression of Rat Brain Cytoplasmic Dynein Heavy Chain
Advisor: Frank McKeon

Wen, Shih-Te
Regulation and Function of the c-Abl Tyrosine Kinase
Advisor: Rick Van Etten

Xing, Jun
Regulation of CREB Activation by Nerve Growth Factor
Advisor: Michael Greenberg

Yeh, Lily
The L/S Junction-Spanning Transcripts (L/STs) of Herpes Simplex Virus Type 1
Advisor: Priscilla Schaffer

Zinkl, Gregory Martin
Cell-Laminin Interactions in the Polarization of Madin-Darby Canine Kidney (MDCK) Epithelial Cells
Advisor: Karl Matlin

1996

Benson, Timothy
Mechanistic and Structural Studies of UDP-N-Acetylenolpyruvylglucosamine Reductase Catalyzing the Synthesis of UDP-N-Acetylmuramic Acid
Advisor: Christopher T Walsh

Chan, David
Molecular Analysis of Two Mouse Limb Mutants: Limb Deformity and Strong's Luxoid
Advisor: Philip Leder

Chang, Ted Hung-Tse
Disregulation of Mitotic Checkpoints and Regulatory Proteins by SV40 T Antigen in Human Diploid Cells
Advisor: Robert Schlegel

Cuomo, Christina Ann
The Role of the Recombination Activating Genes, RAG1 and RAG2, in V(D)J Recombination
Advisor: Marjorie Oettinger

Dohrmann, Cord E.
The Role of TGF-b Molecules in the Establishment of the Dorsal-ventral Axis and Mesoderm Induction in Xenopus laevis and Brachydanio rerio.
Advisor: Douglas Melton

Donovan, John William
Rad51 Protein Interactions in DNA Repair and Recombination
Advisor: David Weaver

Frazier, David
Regulation of Herpes Simplex Virus Type 1 Latency-Associated Transcript Promoter Activity by Nerve Growth Factor and Sodium Butyrate
Advisor: Priscilla Schaffer

Gastier, Julie
Anatomy of a Pericentric Inversion and other Instances of Genomic Instability
Advisor: Geoffrey Duyk

Hanna-Rose, Wendy
Molecular Analysis and Functional Characterization of Two Transcriptional Repression Regions in Drosophila Krüppel
Advisor: Ulla Hansen

Haqq, Christopher M.
Mammalian Sexual Dimorphism: Regulation of Müllerian Inhibiting Substance Gene Expression by SRY
Advisor: Patricia Donahoe

Heng, John Edward
Ca2+ Channel Modulation of Neuronal Viability and Outgrowth
Advisor:

Himawan, Jeff
Genetic and Biochemical Analysis of the Interaction between Bacteriophage T7 DNA Polymerase and Escherichia coli Thioredoxin
Advisor: Charles Richardson

Houser-Scott, Felicia
Identification of Nucleotide Sequence and Structural Elements Required for Specific RNA-Protein Interactions in Alfalfa Mosaic Virus
Advisor: Lee Gehrke

Iyer, Vishwanath
Studies on the Constitutive Transcription of HIS3 in Saccharomyces cerevisiae
Advisor: Kevin Struhl

Jander, Georg
Genetic Studies on Protein Folding and Protein Secretion in Escherichia coli
Advisor: Jonathan Beckwith

Joung, Jae
Studies of Prokaryotic Transcriptional Activator Synergy and Dimerization Specificity
Advisor: Ann Hochschild

Keller, Tracy
Study of Lyme Neuroborreliosis using Polymerase Chain Reaction
Advisor: Thomas Roberts

Kim, Jae Bum
Cloning and Characterization of ADD1: Role in Adipocyte Differentiation and Fatty Acid Metabolism
Advisor: Bruce Spiegelman

LaBonne, Carole B.
FGF Generated Signals During Mesoderm Formation in Xenopus
Advisor: Malcolm Whitman

Levin, Michael
The Molecular Basis of Left-Right Asymmetry in Embryonic Development
Advisor: Clifford Tabin

Liu, Dong
The Crystal Structure of the Zeta Isoform of the 14-3-3 Protein
Advisor: Robert Liddington

MacBeth, Kyle James
Identification and Characterization of an Endoribomuclease Activity of Leishmaniavirus Capsids
Advisor: Jean Patterson

Milne, George
The Role of Rad52 in DNA Double-Strand Break Repair and Recombination
Advisor: David Weaver

Moghal, Nadeem
Regulation of RARb Expression in Normal and Neoplastic Lung
Advisor: Benjamin Neel

Monroe-Gonzalez, James Joseph
Mechanism of Palytoxin Action on Human Osteoblast-like Cells: Studies on the Molecular Physiology of the Na+, K+-ATPase
Advisor: Armen Tashjian

Nam O, Hyun-Joo
Three Dimensional Structures of SH2 and SH3 Domains of the Abl and Shc Oncoproteins
Advisor: Christin Frederick

Newton, Elizabeth Marguerite
Regulation of Transcriptional Activation by Human Heat Shock Factor 1
Advisor: Robert Kingston

Petosa, Carlo
Crystal Structure of the Anthrax Protective Antigen
Advisor: Robert Liddington

Pogliano, Joseph Anthony
Genetic Studies on the Localization and Regulation of Escherichia coli Cell Envelope Proteins
Advisor: Jonathan Beckwith

Shirra, Margaret
Characterization of DNA-Binding and Oligomerization Properties of the Mammalian Transcription Factor LSF
Advisor: Ulla Hansen

Spiro, David Jonathan
Regulation of Early Endosomal Sorting by ADP-Ribosylation Factors and Phosphatidylinositol 3-Kinases
Advisor: Marianne Wessling-Resnick

Tontonoz, Peter
PPARg: A Dominant Regulator of Adipocyte Gene Expression and Differentiation
Advisor: Bruce Spiegelman

Zavacki, Ann Marie
Defining Mechanisms of Thyroid Hormone Action
Advisor: P. Reed Larsen

1995

Akhtar, Irfan
Biology of Ia-restricted Autoreactive T cell clones that inhibit Insulin Dependent Diabetes Mellitus (IDDM) in NOD mice
Advisor:

Bunker, Christopher
Transcriptional Activator Functions in Genomic Chromatin and Repressor Functions of Polycomb Group Proteins
Advisor: Robert Kingston

Cheng, Hwai-Jong
Identification, Cloning and Characterization of ELF-1, a Member of a New Ligand Family Implicated in Development of the Topographic Retinotectal Projection Map
Advisor: John Flanagan

Chiang, Anne
The Interaction of Polycomb Protein with the Bithorax Complex in Drosophila melanogaster
Advisor: Welcome Bender

Fingar, Diane
Identification of Signal Transduction Pathways Involved in Insulin Regulated Glucose Transport
Advisor: Morris Birnbaum

Gansheroff, Lisa
Characterization of SPT7, a Gene Important for Transcription in S. cerevisiae
Advisor: Fred Winston

Goad, Dale
Down-Regulation of Parathyroid Hormone Receptor Expression in SaOS-2 Human Osteoblast-like Cells by Insulin-like Growth Factor-I
Advisor: Armen Tashjian

Han, Bomie
Identification of Ligand Binding Sites in the Thyrotropin-Releasing Hormone Receptor
Advisor: Armen Tashjian

Hann, Louane
The Roles of 5'- and 3'- Untranslated Regions in Alfalfa Mosaic Virus RNA Translation
Advisor: Lee Gehrke

Hirschhorn, Joel
Genetic and Molecular Analysis of Histones and SNF/SWI Proteins: Effects on Chromatin Structure and Transcription in S. cerevisiae
Advisor: Fred Winston

Hudson, Amy
Insulin-Responsive Glucose Transport and Regulated Secretion
Advisor: Morris Birnbaum

Kaushal, Sunjay
Regulatory Networks of Muscle Gene Activation
Advisor: Nadia Rosenthal

Kelley, Clair
The Induction of Hematopoiesis in the Early Xenopus Embryo
Advisor: Leonard Zon

Klein, Charles
Mechanisms of Transcriptional Induction in Yeast
Advisor: Kevin Struhl

Kundra, Vikas
Signal Transduction Pathways Involved in Platelet Derived Growth Factor-BB Mediated Chemotaxis
Advisor: Bruce Zetter

Langston, Alexander
Regulation of Vertebrate Hox Genes by Retinoic Acid
Advisor:

Lee, Frederick
Analysis of pregnancy-dependent mammary neoplasia in MMTV int-2/FGF-3 transgenic mice
Advisor: Philip Leder

Lee, Jie-Oh
Crystal Structure of the I Domain from the a Subunit of Integrin CR3 (CD11b/CD18)
Advisor: Robert Liddington

Liu, Vivian
G1 and S phase DNA Damage Checkpoints Induced by Ionizing Radiation in Normal Human and Ataxia Telangiectasia Cells
Advisor: David Weaver

McCall, Kimberly
Analysis of Regulatory Mechanisms in the Drosophila Bithorax Complex
Advisor: Welcome Bender

McNamee, Helen
Control of Inositol Lipid Signaling by Extracellular Matrix and Integrins
Advisor: Donald Ingber

Melnick, Michael
Structure/Function Analysis of Drosophila-raf and corkscrew
Advisor: Norbert Perrimon

Merzdorf, Christa
Formation of Functional Tight Junctions in Early Embryonic Development of Xenopus
Advisor: Daniel Goodenough

Milne, Jill
Entry of Anthrax Toxin into Mammalian Cells: Structure and Role of Protective Antigen
Advisor: R. John Collier

Miranti, Cynthia
How Signaling Pathways Regulate c-fos Transcription
Advisor: Michael Greenberg

Morris, Robert
Axonal Transport of Mitochondria
Advisor: Peter Hollenbeck

Nadeau, Kari
Biochemical Studies on Protein Folding Chaperones: Hsp90 and Cyclophilin and on Trypanosomal Enzymes: Trypanothione and Glutathionylspermidine Synthetases
Advisor: Christopher T Walsh

Price, Edward Royden
Cyclophilin B: Cloning, Trafficking and Interactions with Calcineurin
Advisor: Frank McKeon

Ralph, Walter
Regulation of Herpes Simplex Virus Type 1 Gene Expression by Viral and Cellular Factors
Advisor: Priscilla Schaffer

Reinertsen, Kerry
Characterization of a Role for Platelet-Derived Growth Factor in Early Mammalian Development
Advisor: Charles Stiles

Rivera-Gonzalez, Ramon
Temporal Regulation of Herpes Simplex Virus Type 1 Gene Expression
Advisor: Neal DeLuca

Rooney, John
Regulation of the Interleukin 2 and Interleukin 4 Genes in Murine T Helper 1 and T Helper 2 Cell Clones
Advisor: Laurie Glimcher

Saez, Enrique
Characterization of the Role of c-fos in Cancer Development
Advisor: Bruce Spiegelman

Schoenberg Fejzo, Marlena
Cytogenic and Molecular Analysis of Chromosomal Translocations in Uterine Leiomyoma
Advisor: Cynthia Morton

Shifrin, Victor
Post-transcriptional and Post-translational Modifications of Non-transmembrane Protein Tyrosine Phosphatase PTP-1B
Advisor: Benjamin Neel

Shima, David
Identification of Vascular Endothelial Growth Factor (VEGF) as an Oxygen-Regulated Mediator of Ocular Angiogenesis
Advisor: Patricia D'Amore

Soto, Martha
Characterization of the Distal Bithorax Complex and Phenotypic Studies of Polycomb Group Genes
Advisor: Welcome Bender

Staknis, David
Protein-pre-mRNA Interactions during Mammalian Spliceosome Assembly
Advisor: Robin Reed

Tong, Xiao
Genetic and Biochemical Study of Epstein-Barr Virus Nuclear Protein 2 and Associated Cellular Proteins
Advisor: Elliott Kieff

van Heeckeren, Willem
Two Studies Related to Transcriptional Regulation in the Budding Yeast and the Fission Yeast
Advisor: Kevin Struhl

Verhey, Kristen
Subcellular Trafficking of the GLUT4 Glucose Transporter in Fibroblasts and Adipocytes
Advisor: Morris Birnbaum

Vincent, Alice
ATF/CREB Proteins in Saccharomyces cerevisiae
Advisor: Kevin Struhl

Yaglom, Julia
Studies of the degradation pathway of Cln3, a G1 cyclin from Saccharomyces cerevisiae
Advisor: Daniel Finley

Yeh, Jih-I
Studies on the Physiology of Glucose Transporter Proteins
Advisor: Morris Birnbaum

Yoffee, Kenneth
Examination of wingless Signaling and Regulation in Drosophila
Advisor: Norbert Perrimon

1994

Altshuler, David
Endogenous Retinal Activities that Influence the Development of Rod Photoreceptors in vitro
Advisor: Constance Cepko

Bennett, Maria
Identification, Characterization and Cloning of Mammalian Spliceosomal Components
Advisor: Robin Reed

Binari, Richard
Analysis of a Unique Segmentation Phenotype in Drosophila melanogaster
Advisor: Norbert Perrimon

Blotnick, Srully
T Lymphocytes Synthesize and Export Heparin-Binding Epidermal Growth Factor-Like Growth Factor and Basic Fibroblast Growth Factor, Mitogens for Vascular Cells and Fibroblasts: Differential Production and Release by CD4+ and CD8+ T Cells
Advisor: Michael Klagsbrun

Cadd, Tamarra
Identification, Characterization and Expression of the Capsid Protein of Leishmania RNA Virus LRV1-4
Advisor: Jean Patterson

Chi, Nai-Wen
Biochemical and Genetic Characterization of MSH1, a Mitochondrial Protein of Saccharomyces cerevisiae that Binds to DNA Mismatches.
Advisor: Richard Kolodner

Choy Tomlinson, Lisa
Investigation of the Alternative Pathway of Complement in the Biology of white and brown adipocytes
Advisor: Bruce Spiegelman

Collazo, Diana
Role of Neurotrophin-3 and TrkC in Rat Hippocampal Development in vitro
Advisor:

Derman, Alan
Escherichia coli Alkaline Phosphatase Lacking its Signal Sequence: Folding in the Cytoplasm and Export to the Periplasm
Advisor: Jonathan Beckwith

Diamond, Michael
The Structure, Function, and Regulation of the Leukocyte Integrin Mac-1 (CD11b/CD18)
Advisor: Timothy Springer

Dunn, Michael
Mechanism of Action of Cyclopamine, A Steroidal Vertebrate Teratogen
Advisor: David Moore

Hall, Kathryn
Complementation and Chromosomal Localization of Mutants of V(D)J Recombination and Double-Strand Break Repair
Advisor: David Weaver

Harbury, Pehr
Protein Design of Coiled Coils
Advisor:

Hotamisligil, Gökhan
Tumor Necrosis Factor-a: A Key Component of the Obesity-Diabetes Link
Advisor: Bruce Spiegelman

Jean, Serge
Activation of Herpes Simplex Virus Type 1 Late Gene Expression during Lytic Infection
Advisor: David Knipe

Jesaitis, Lynne
Molecular Characterization and Tissue Distribution of the Tight Junction Protein ZO-2
Advisor: Daniel Goodenough

Ku, Po
Regulation and Role of Basic Fibroblast Growth Factor in Subleathal Injury in Vitro and in Vivo
Advisor: Patricia D'Amore

Kuldell, Natalie
Molecular Mechanisms of Transcriptional Regulation at the Phage l Promoter, PRM
Advisor: Ann Hochschild

Laham, Lorraine
The Regulation of Gelsolin and Actin Interactions by Adenine Nucleotides
Advisor: Paul Janmey

Larson, Jeffrey
Mechanism of Activation of Human Heat Shock Factor
Advisor: Robert Kingston

Lin, Chung-Wu
Guanosine-RNA Interactions
Advisor: Jack Szostak

Link, Andrew
Experimental Tools for the Analysis of Genomes: Applications to Escherichia coli
Advisor: George Church

Magovcevic- Liebisch, Ivana
Characterization, Localization and Expression of G Proteins, and their Potential Role in the Human Inner Ear
Advisor: Cynthia Morton

Musacchio, Michele
Identification of a New Group of Immunoglobulin Superfamily Genes Expressed in the Central Nervous System of Drosophila melanogaster
Advisor: Norbert Perrimon

Myrick, Kyl
Molecular Genetic Analyses of the Replication of Primate Immunodeficiency Viruses
Advisor: Joseph Sodroski

Ofori-Darko, Ernest
Biochemical and Cellular Actions of Thrombin on Human Osteoblast-Like SaOS-2 Cells
Advisor: Armen Tashjian

Ottemann, Karen
Structure-Function Analysis of the ToxR Transmembrane Regulatory Protein
Advisor: John Mekalanos

Ozelius, Laurie
Definition of the region of human chromosome 9q containing a dystonia gene
Advisor: Xandra Breakefield

Qin, Xiao-Qiang
The Role of RB-E2F Complexes in the RB-Mediated Growth Suppression
Advisor: David Livingston

Ruiz, Maria
The Cloning of an Olfactory Channel from Mouse Heart
Advisor:

Satterberg, Brett
G1 cell cycle arrest in S. cerevisiae
Advisor: Elaine Elion

Schott, Eric
Mutliple Genes Regulate Pathogenicity Determinants in Pseudomonas cichorii
Advisor: Frederick Ausubel

Shamah, Steven
Functional Analysis of Platelet-Derived Growth Factor Using Dominant-Negative Mutations
Advisor: Charles Stiles

Shaw, Leslie
Regulation of a6b1 Integrin Function by the Cytoplasmic Domains of the a6 Subunit
Advisor: Arthur Mercurio

Smiley, Stephen
Analysis of Transgenic Mice Expressing MHC Class II Ab Molecules with Truncated Cytoplasmic Domains
Advisor: Laurie Glimcher

Staunton, Jane
Non-V(D)J Recombination and DNA Repair Processes in the Scid Mouse
Advisor: David Weaver

Tang, Terry
Signal Transduction by the SH2-containing Protein Tyrosine Phosphatase SH-PTP2
Advisor: Benjamin Neel

Wagner, Kimberly
Mechanisms Controlling Cytosolic Free Calcium Concentration in Single GH4C1 Rat Pituitary Cells
Advisor: Armen Tashjian

White, Thomas
Molecular Cloning and Functional Analysis of Connexins Expressed in the Vertebrate Lens
Advisor: Daniel Goodenough

Williams, Nidhi
Signal Transduction Pathways Involving the Raf-1 Kinase
Advisor: Thomas Roberts

Winkler, David
Regulation of p56lck N-Terminal Seryl Phosphorylation Regulates the p56lck Kinase and Src Homology Two Domains
Advisor: Christopher T Walsh

Zhang, Jue Jillian
Studies of a Germline Promoter in the Murine IgH Constant Region and Its Involvement in Class Switch Recombination
Advisor: Frederick Alt

Zhu, Zhimin
Intracellular Localization of HSV-1 Immediate-Early Regulatory Proteins: Cooperativity among ICP0, ICP4 and ICP27
Advisor: Priscilla Schaffer

1993

Alberta, Julia
Selective Degradation of an Immediate Early mRNA
Advisor: Charles Stiles

Barondess, James
Envelope Proteins Involved in Cell Division and Lysogenic Conversion
Advisor: Jonathan Beckwith

Birch, Kimberly
The Signal Transduction Mechanism of Thrombin-Stimulated von Willebrand Factor Secretion in Human Umbilical Vein Endothelial Cells
Advisor:

Bishop, Amy
The Role of Methoxatin (PQQ) in the Respiratory Burst of Phagocytes
Advisor: Paul Gallop

Brightman, Shannon
Molecular Cloning and Characterization of IC47: An Inducible Membrane-Associated Protein
Advisor: Bruce Zetter

Chen, Rey-Huei
Signal Transduction from Cytoplasm to Nucleus by MAP Kinase and RSK
Advisor: John Blenis

Chung, Jongkyeong
Characterization of two families of growth-regulated S6 kinases, 70kd S6 kinase and RSK
Advisor: John Blenis

Cormack, Brendan
The TATA-Binding Protein: A Mutational Analysis
Advisor: Kevin Struhl

Dewdney, Julia
Light Regulation of Glyceraldehyde-3-phosphate Dehydrogenase Genes of Arabidopsis thaliana
Advisor: Howard Goodman

Fath, Michael
Studies on the Secretion of Colicin V
Advisor: Roberto Kolter

Frangioni, John
Structure and Function of the Nontransmembrane Protein Phosphotyrosine Phosphatase 1B (PTP-1B)
Advisor: Benjamin Neel

Guevara, Pablo
Cloning and characterization of the rpoN gene of the phytopathogen Pseudomonas syringae pv. maculicola
Advisor: Frederick Ausubel

Hall, Sharynn
Homologous Pairing Proteins Involved in RecE Pathway Recombination of Escherichia coli Biochemical Characterization of ExoVIII and RecT Recombination Activities
Advisor: Richard Kolodner

Heald, Rebecca
Regulation of Nuclear Lamina Disassembly in Mitosis
Advisor: Frank McKeon

Hosler, Betsy
Characterization of the Zinc Finger Gene Rex-1 (Zfp-42) whose Expression is Reduced in Murine F9 Embryonal Carcinoma Cells Treated with Retinoic Acid
Advisor:

Huertas, Pedro
Modulation of Signal Transduction of the Insulin Receptor by the Lipid Membrane Environment
Advisor: C. Ronald Kahn

Johnson, Randall
Genetic Analyses of AP-1 Factors: Gene Targeting of c-fos and c-jun
Advisor: Bruce Spiegelman

Klingensmith, John
Genetic Dissection of an Intercellular Signalling Pathway in Drosophila Pattern Formation
Advisor: Norbert Perrimon

Levinson, Douglas
Molecular Characterization of Transgene-Induced Immunodeficiency in B-less Transgenic Mice
Advisor: Philip Leder

Lien, Lyndon
Characterization of Human Microtubule-Associated Protein 1B and Analysis of it as a Candidate Gene for Spinal Muscular Atrophy
Advisor: Louis Kunkel

Lo, Su-Hao
Molecular Cloning and Functional Studies of the Actin-binding and SH2 Domain-containing Protein Tensin
Advisor:

Marquardt, John
Studies of the Enzymes Involved in UDP-N-acetylmuramic Acid Biosynthesis
Advisor: Christopher T Walsh

McClatchey, Andrea
The Role of the Voltage-Gated Skeletal Muscle Sodium Channel in Inherited Neuromuscular Disease
Advisor: James Gusella

McMorrow, Isabel
Structural and Functional Studies of a Human Nuclear Pore Complex Protein
Advisor: Brian Burke

Michaud, Susan
Characterization of the Early Steps in Mammalian Spliceosome Assembly
Advisor: Robin Reed

Nibert, Max
Structure and Function of Reovirus Outer Capsid Proteins as they Relate to Early Steps in Infection
Advisor: Bernie Fields

Oh, Suk
Structure and Expression of Non-Fibrillar Collagens XII and XVIII in Mice
Advisor: Bjorn Olsen

Papoulas, Ophelia
Biochemical Characterization of the c-Myc Oncoprotein
Advisor: Robert Kingston

Plopper, George
Isolation of Focal Adhesion Complexes that Retain Chemical Signalling Activity
Advisor: Donald Ingber

Pogliano, Kit
A Genetic Analysis of Protein Export in Escherichia coli
Advisor: Jonathan Beckwith

Racoosin, Esther
Characterization of Macropinocytosis in Mouse Macrophages
Advisor: Joel Swanson

Ryder, Elizabeth
Migration patterns of clonally related granule cells and their progenitors in the developing chick cerebellum
Advisor: Constance Cepko

Satterthwaite, Anne
Structure and Regulation of the Human CD34 Gene
Advisor: Daniel Tenen

Saunders, Kim
An In Vitro Model for the Study of Cell-Cell Interactions: Application to the Blood Vessel Wall
Advisor: Patricia D'Amore

Silverman, Jared
Mutational Analysis of the Diphtheria Toxin Translocation Domain
Advisor: R. John Collier

Tishkoff, Daniel
Genetic Analysis of Sep1, a Gene Required for Meiotic Recombination and Cell-Cycle Progression in Saccharomyces cerevisiae
Advisor: Richard Kolodner

Wurgler-Murphy, Susannah
Deoxyguanosine Triphosphate Triphosphohydrolase of Escherichia coli
Advisor: Charles Richardson

Yan, WenLiang
Genetic and Biochemical Analyses of Neuronal Ceroid Lipofuscinoses
Advisor: James Gusella

Yang, Junping
Molecular Cloning and Regulation of the Thyrotropin-Releasing Hormone Receptor in Rat Pituitary Lactotrope Cells
Advisor: Armen Tashjian

Yorgey, Peter
The Biosynthesis and Structure of Microcin B17, A Novel DNA Gyrase Inhibitor
Advisor: Roberto Kolter

Zambrano, Maria
Escherichia coli with a Growth Advantage in Stationary Phase
Advisor: Roberto Kolter

Zheng, Xiao-Feng
Regulation of Cyclin B/cdc2 Kinase Activity
Advisor: Joan Ruderman

Student Body

2013-2014 Enrollment


 

Total Enrollment: 349

Average Size of Incoming Class: 60

Average Time to Degree:

Ph.D. Students: 6.06 years

M.D./Ph.D. Students: 4.56 years

 

Women: 185 (53%)

Men: 164 (47%)

 

Underrepresented Minority: 25 (7%)

 

Domestic: 264 (76%)

International: 85 (24%)

 

PhD: 318 (91%)

MD-PhD: 31 (9%)


© 2013 by the President and Fellows of Harvard College