Biochemistry and Molecular Biophysics Graduate Group

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Current students

Ismail Ahmed (matriculated 2012)
B.S., City College of New York, 2011 (Biochemistry)
Understanding protein function and interactions using spectroscopic probes (Dr. Feng Gai)

Dirk Auman (matriculated 2014)
B.S., Miami University, Ohio, 2014 (Biochemistry)
(Dr. P. Leslie Dutton)

Eric Babiash (matriculated 2010)
B.S., University of Wisconsin-Madison, 2010 (Chemistry/Biochemistry)
Structural intermediates in the biogenesis of spliceosomal snRNPs in minimal, model organisms (Dr. Gideon Dreyfuss)

Atrish Bagchi (matriculated 2011)
B.A., Princeton University, 2010 (Chemistry)
Allosteric regulation of receptor tyrosine kinases in the Epidermal Growth Factor receptor (ErbB/HER) family (Drs. Kathryn Ferguson and Mark Lemmon)

Christopher Bialas (matriculated 2011)
B.S., University of Pittsburgh, 2010 (Molecular Biology)
The design of fully synthetic flavoproteins (Dr. P. Leslie Dutton)

Jeffrey Carey (VMD/PhD – matriculated Spring 2013)
MSEChE, University of Michigan, Ann Arbor, 2007 (Chemical Engineering)
BMA, University of Michigan, Ann Arbor, 2007 (Music Composition)
Bacterial two-component signal transduction and commensal host colonization (Dr. Mark Goulian)

Abigail Cember (matriculated 2013)
B.S., University of Maryland, College Park, 2013 (Biochemistry)
Developing tools for biological imaging based on optical and magnetic phenomena not yet applied in that arena (Dr. Sergei Vinogradov)

Mariel Coradin (matriculated 2014)
B.S., University of Puerto Rico, Rio Piedras, 2014 (Biology)
(Dr. Ben Garcia)

Jamie DeNizio (matriculated 2013)
B.S., Haverford College, 2011 (Chemistry)
(Dr. Rahul Kohli)

Catherine DeBrosse (matriculated 2011)
B.S., Temple University, 2010 (Biophysics)
Application of novel MRI contrast agents in neurodegenerative and muscular disorders (Dr. Ravinder Reddy)

Elizabeth (Higbee) Dempsey (matriculated 2012)
B.A., Syracuse University, 2009 (Music)
B.S., Syracuse University, 2009 (Biochemistry)
Synthesis of environmentally responsive materials for nanomedicine (Dr. Andrew Tsourkas)

Valentina Dimitrova (matriculated 2012)
B.A., Agnes Scott College, 2009 (Biochemistry and Molecular Biology)
Comprehensive structure-function analysis of the ion channel polycystin-2 (Dr. Zhe Lu)

Nathan Ennist (matriculated 2009)
B.A., Emory University, 2009 (Physics,)
B.S., Emory University, 2009 (Chemistry)
Metal binding and photoactivatable electron transfer in a de novo-designed protein (Dr. P. Leslie Dutton)

Gozde Eskici (matriculated 2012)
B.S., Istanbul Technical University, 2008 (Molecular Biology and Genetics)
M.S., Koc University, 2010 (Computational Science and Engineering)
Understanding protein structure in reverse micelles (Dr. Paul Axelsen)

Meilin Fernandez Garcia (matriculated 2012)
B.S., University of Puerto Rico-Rio Piedras Campus, 2012 (Chemistry)
Molecular mechanism of direct lineage reprogramming mediated by transcription factors (Dr. Kenneth Zaret)

Bryan Fry (matriculated 2009)
B.A., Pomona College, 1997 (Physics)
M.S., U. Wisconsin, Madison, 1999 (Mechanical Engineering)
Designed amphiphilic proteins for transmembrane electron transfer (Drs. P. Leslie Dutton and Cecilia Tommos)

Carlos Gay-Antaki (matriculated 2004)
B.S. University of California, Santa Barbara, 2004 (Cell and Developmental Biology)
Axonal transport of lysosomal enzymes and engineered lysosomal enzymes in the mouse CNS (Dr. John Wolfe)

Samuel Getchell (matriculated 2008)
B.S., University of Pittsburgh, 2005 (Chemistry)
M.S., Yale University., 2008 (Music)
Impact of hypoxia on tumor dormancy (Dr. Lewis Chodosh)

Alejandro Gozalo (matriculated 2014)
B.S., RIce University, 2014 (Biochemistry and Cell Biology)
(Dr. Maya Capelson)

Lucie Guo (MD/PhD, matriculated 2012)
B.A., Harvard University, 2010 (Biochemical Sciences)
Mechanisms of centromere identity and inheritance (Dr. Ben Black)

Martin Iwanicki (matriculated 2014)
B.S., St. Joseph's University, 2014 (Physics)
Engineering novel neuronal optical voltage-sensing probes using synthetic proteins (Dr. Sergei Vinogradov)

Kevin Janssen (matriculated 2014)
B.S., Lafayette College, 2012 (Biochemistry)
Epigenetics, signalling pathways, mass spec, and chromatography (Ben Garcia)

Earl (Joe) Jordan (matriculated 2011)
B.S., University of Texas at Austin, 2011 (Biochemistry, Computational Mathematics)
Understanding cancer driver mutations (Dr. Ravi Radhakrishnan)

Christine Jorge (matriculated 2011)
B.S., State University of New York at Albany, 2011 (Human Biology/Chemistry)
Measuring hydration dynamics of conserved networks in PDZ domains (Dr. A. Joshua Wand)

Kelly Karch (matriculated 2012)
B.S., Franklin and Marshall College, 2011 (Biochemistry and Molecular Biology)
Understanding histone function and dynamics using mass spectrometry (Dr. Benjamin Garcia)

Simon Kelow (matriculated 2014)
Northern Arizona University, 2013 (Physics and Astronomy)
Structural bioinformatics and protein structure prediction applied to computational antibody design (Dr. Roland Dunbrack)

Sravya Kotaru (matriculated 2014)
B.Tech., Padmashree Dr. D Y Patil University, 2012 (Biotechnology)
M.B.in Biotechnology, Molecular Biology track, University of Pennsylvania, 2014
(Dr. A. Joshua Wand)

Huiguang Li (matriculated 2009)
B.S., Hebei University, 1993 (Biology)
M.S., Peking University, 1997 (Biophysics)
Structural and biochemical studies of the poxvirus resolvase (Dr. Gregory Van Duyne)

Enrique Lin Shiao (matriculated 2013)
B.S., University of Technology, Munich, 2011 (Engineering Physics)
M.S., University of Technology, Munich, 2013 (Biophysics)
(Dr. Shelley Berger)

Lisa Lippert (matriculated 2008)
B.S., University of Washington, 2007 (Biochemistry)
Single molecule studies of dynein force generation mechanism (Dr. Yale Goldman)

Monica Liu (M.D./Ph.D., matriculated 2013)
B.S., M.S., Yale University, 2011(Biology)
Biochemical regulation and genome-wide targeting of TET-catalyzed cytosine oxidation (Dr. Rahul Kohli)

Glennis Logsdon
(matriculated 2011)
B.A., University of Pennsylvania, 2011 (Biochemistry)
Investigating centromere formation using human artificial chromosomes (Dr. Ben Black)

Korrie Mack (matriculated 2013)
B.S., Syracuse University, 2013 (Biochemistry)
Engineering substrate-specific Hsp104 variants to counter protein misfolding in neurodegeneration (Dr. Jim Shorter)

Robert Magin
(matriculated 2012)
B.A., Northwestern University, 2012 (Biology)
The molecular basis for ribosome-associated N-terminal acetylation (Dr. Ronen Marmorstein)

Joshua Mancini (matriculated 2011)
B.S., Wittenberg University, 2007 (Biochemistry and Molecular Biology)
Engineering synthetic proteins to perform light harvesting for novel in vivo function (Dr. P. Leslie Dutton)

Zachery March (matriculated 2014)
B.S., University of Delaware, 2014 (Chemistry)
Understanding the basis of Hsp104 substrate recognition (Dr. Jim Shorter)

Bryan Marques (matriculated 2011)
B.A., University of Pennsylvania, 2011 (Biochemistry)
M.S., University of Pennsylvania, 2011 (Chemistry)
The relationship between hydration and protein function and dynamics (Dr. A. Joshua Wand)

Nicole Martinez-Gonzalez (matriculated 2009)
B.S., University of Puerto Rico - Mayaguez ,2009 (Industrial Biotechnology)
Signal-induced alternative splicing in T-cell activation and development (Dr. Kristen Lynch)

Emily Mattes (matriculated 2014)
B.S., Temple University, 2012 (Biochemistry)
(Dr. Elizabeth Rhoades)

Daniel McCracken (matriculated 2014)
B.S., Rutgers University, 2014 (Biochemistry)
Transcriptional regulation of Epithelial Mesenchymal Transition (EMT) for cancer metastasis (Dr. Frank Rauscher)

Kristen McKibben (matriculated 2014)
B.S., Iowa State University, 2013 (Biochemistry)
(Dr. Sergei Vinogradov)

Charlie Ye Mo
(matriculated 2010)
B.A., Swarthmore College, 2010 (Biochemistry)
Understanding and targeting the diversity-generating enzyme, LexA, in pathogens (Dr. Rahul Kohli)

Evan O'Brien (matriculated 2012)
B.S., University of Pittsburgh, 2012 (Biochemistry and Chemistry)
The potential role of protein conformational entropy in allostery and drug design (Dr. A. Joshua Wand)

Mara Olenick (matriculated 2013)
B.S., Kings College, 2013 (Chemistry/Biology)
Regulation of Dynein-Dynactin by Hook proteins (Dr. Erika Holzbaur)

Lauren Paolella (matriculated 2014)
B.S., University of New Haven, 2013 (Biology, Forensic Science)
(Dr. Joseph Baur)

Jin Park
(matriculated 2008)
B.S., University of California, Berkeley, 2006 (Molecular and Cell Biology)
Reevaluation of psuedokinase CCK4 (Dr. Mark Lemmon)

Nicholas Rego (matriculated 2014)
B.S., University of Pittsburgh, 2012 (Bioinformatics and Economics)
investigating the role of water on protein-protein and protein-ligand interactions (Dr. Amish Patel)

Jarrett Remsberg (matriculated 2011)
B.S., Massachusetts Institute of Technology, 2011 (Chemical-Biological Engineering and Biology)
Role of histone deacetylase 3 in the nuclear receptor corepressor complex (Dr. Mitchell Lazar)

Cory Rice (matriculated 2011)
B.S., Oakland University, 2011 (Biochemistry)
Elucidating the role of human CTC1 at the telomeres (Dr. Emmanuel Skordalakes)

Michael (Dan) Ricketts (matriculated 2010)
B.S., Georgia Institute of Technology, 2010 (Chemistry/Biochemistry Option)
Investigating histone H3.3 deposition by the HIRA/UBN1/CABIN1/ASF1a (HUCA) histone chaperone complex (Dr. Ronen Marmorstein)

Jane Schulte (matriculated 2013)
B.S., University of Maryland, College Park, 2011 (Biochemistry)
(Dr. Mark Goulian)

Emily Schutsky (matriculated 2012)
B.S., University of Massachusetts, Amherst, 2012 (Biochemistry and Molecular Biology)
Elucidating the roles of AID/APOBEC-induced cytosine deamination in oncogenesis (Dr. Rahul Kohli)

Deborah Shroder (matriculated 2010)
B.S., University of Maryland, College Park, 2010 (Biochemistry)
Single molecule studies linking conformation to motility in myosin classes (Dr. Yale Goldman)

Carrie Sims (matriculated 2011)
B.A., Stanford University, 1990 (Human Biology)
M.S., University of California, Berkeley, 1993 (Health and Medical Science)
M.D., University of California, San Francisco, 1995
The impact of sirtuin function on sepsis-induced mitochondrial dysfunction (Dr. Joseph Baur)

Evan Smoak (matriculated 2010)
B.S., Fordham University, 2010 (Chemistry)
Dissecting transgenerational epigenetic propagation of centromere identity (Drs. Ben Black and Michael Lampson)

Shufei (Sophie) Song (matriculated 2012)
B.S., China Agricultural University, 2010 (Biological Sciences)
B.S., Purdue University, 2012 (Biochemistry)
(Dr. Brad Johnson)

Michael Soo (matriculated 2009)
B.A., University of Pennsylvania, 2007 (Chemistry and Political Science)
Defining the Hsp104 folding reservoir: novel prions and toxic, intrinsically aggregation-prone proteins (Dr. James Shorter)

Matthew Stetz (matriculated 2009)
B.S., Haverford College, 2008 (Chemistry)
Protein dynamics and allostery (Dr. A. Joshua Wand)

Daniel (Miklos) Szantai-Kis (matriculated 2013)
Diploma in Chemistry, Karlsruhe Institute of Technology, 2012
(Dr. James Petersson)

Katherine Szigety (MD/PhD - matriculated 2014)
B.S.,Yale University, 2012 (Molecular Biophysics)
M.S., Yale University, 2012 (Molecular Biophysics)
The goal of my project is to understand the role of menin in beta cell physiology (Dr. Xianxin Hua)

Matthew Thompson (matriculated 2013)
B.S., Kent State University, 2012 (Biotechnology)
(Dr .Kristen Lynch)

James Townsend (matriculated 2012)
B.A., University of Chicago, 2012 (Biology)
(Dr. Alison Sweeney)

Bengi Turegun (matriculated 2010)
B.S., Queen's University, 2010 (Biochemistry)
Biophysical studies of nuclear actin-related proteins (Dr. Roberto Dominguez)

Scott Ugras (matriculated 2010)
B.A., University of Pennsylvania, 2010 (Molecular Biology/Biochemistry)
Identification and characterization of novel alpha-synuclein conformers in Parkinson's Disease (Dr. Harry Ischiropoulos)

Robert Warneford-Thomson (matriculated 2014)
B.S., Washington and Lee University, 2012 (Biology)
(Dr. Roberto Bonasio)

Sarah Welsh (matriculated 2013)
B.S., Westminster College, 2013 (Biochemistry)
Role and regulation of DNA methylation in the brain (Dr. Zhaolan Zhou)

Samuel Wein (matriculated 2012)
B.A., Earlham College, 2011 (Biology and Computer Science
(Dr. Ben Garcia)

Michael Woody (matriculated 2012)
B.S., University of North Carolina, Chapel Hill, 2010 (Physics)
Development of optical trapping methods for studying the myosin powerstroke (Drs. Yale Goldman and Michael Ostap)

Christopher Yarosh (matriculated 2010)
B.S., University of Scranton, 2010 (Biochemistry)
Regulation of splicing factor PSF in response to T-cell stimulation (Dr. Kristen Lynch)

Zhenyu Zhao (matriculated 2011)
B.A., University of Pennsylvania, 2011 (Biochemistry)
M.S., University of Pennsylvania, 2011 (Chemistry)
(Dr. P. Leslie Dutton)