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Education / Graduate Education / PhD Programs / Biochemistry & Molecular Biology

Biochemistry & Molecular Biology

The Biochemistry & Molecular Biology (BMB) Program is designed for students interested in obtaining a Ph.D. in Biochemistry. As such, the program represents a group of faculty that may mentor a student pursuing thesis research toward the Biochemistry Ph.D. Students interested in a Ph.D. in Biochemistry should apply to the Biochemistry & Molecular Biology Program for admission to graduate studies at the University of Rochester Medical Center.

Chenguang Gong in Maquat Lab

Chenguang Gong working in the Maquat Lab

We offer in-depth coursework and diverse research opportunities that focus on understanding the biochemical mechanisms of life’s critical molecular processes.

World-class research in our laboratories exposes our students to a variety of the latest methods for sophisticated biochemical analysis, including mass spectrometry, crystallography, microcalorimetry, surface plasmon resonance, microarrays, fluorescence activated cell sorting, light scattering, and spectroscopic methods (including fluorescence lifetime and energy transfer measurements), as well as modern methods for cell culture, protein purification, genetic analysis, and reconstitution of biochemical complexes and reactions.

The flexibility of our training program allows students to train in a number of exciting research areas, and often allows students to develop highly effective interdisciplinary collaborations, resulting in cutting edge thesis projects.

NIH T32 Sponsored Programs

Training Grant in Cellular, Biochemical & Molecular Sciences

Graduate Women in Science (GWIS)

Research

We have several research areas, fully supported by an array of labs and centers. For a full view of our research efforts and Facilities, see our research page.

For a list of recent student publications, please visit the student publications page.

 

Events

Upcoming20172016201520142013

Investigating an SF3b155 Scaffold for UHM-Containing Pre-mRNA Splicing Factors

Sarah Loerch - PhD Candidate
Jan 12, 2016 - 1:00 p.m.
Medical Center 3-6408 (K-307)

Characterizing the Substrate Specificity of the Rapid tRNA Decay Pathway

Matthew Payea - PhD Candidate
Jan 19, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Determining the role of G-protein βγ translocation in GPCR-mediated activation of perinuclear PI4P hydrolysis in cardiac myocytes

Jerry Madukwe - PhD Candidate
Jan 26, 2016 - 1:00 p.m.
Medical Center 1-7619 (Adolph Auditorium)

Unexpected Structure and Stabilities for RNAs Containing GU Base Pairs Near Loops

Kyle Berger - PhD Candidates
Feb 02, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Mapping multiple nucleosome interaction sites of linker histone H1

Amber Cutter - PhD Candidates
Feb 02, 2016 - 1:30 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Substrate specificity of the Trm140 C32 methyltransferase

Lu Han - PhD Candidates
Feb 09, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

3' UTR SINEs and Staufen-mediated mRNA decay regulate orthologous human and mouse genes

Bronwyn Lucas - PhD Candidates
Feb 09, 2016 - 1:30 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Prediction of RNA secondary structure including non-canonical pairs

Michael Sloma - PhD Candidates
Feb 16, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Signaling Response and Cell Surface Abundance of Ste2p, a Saccharomyces cerevisiae G Protein-Coupled Receptor

Shairy Danial - PhD Candidates
Feb 16, 2016 - 1:30 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

"SLNC"-ing Towards Invasion: A Long Non-Coding RNA Implicates the Androgen Receptor and Brn3a in Melanoma Invasion

Karyn Schmidt, Ph.D. - Postdoctoral Fellow, Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA
Feb 17, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: Dr. Lynne Maquat

TurboFold II: structure based RNA multiple sequence alignment

Zhen Tan - PhD Candidates
Feb 23, 2016 - 1:00 p.m.
Medical Center 1-7619 (Adolph Auditorium)

Exploring the Basis of U2AF65-Purine Degeneracy and its Relevance in Human Genetic Disease

Steven Henderson - PhD Candidates
Feb 23, 2016 - 1:30 p.m.
Medical Center 1-7619 (Adolph Auditorium)

Ribosomal Response to Damaged mRNA

Hani Zaher, Ph.D. - Assistant Professor, Department of Biology, Washington University in St. Louis, MO
Feb 24, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: Dr. Xin Li

The Human Cytomegalovirus UL26 Protein Modulates the NFκB Host Defense Pathway

Christopher Goodwin /Debapratim Dutta - PhD Candidates
Mar 01, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Structure and function investigation of a riboswitch

Debapratim Dutta - PhD Candidates
Mar 01, 2016 - 1:30 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

The Regulation of Poly(A) Site Utilization by Intragenic Transcriptional Enhancers

Jonathan Flax, M.D. - Research Assistant Professor, Department of Urology, University of Rochester, NY
Mar 02, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: Dr. Lynne Maquat

GPCRs, Powerful Allosteric Switches to Regulate G Proteins and Cell Signaling

Roger K. Sunahara, Ph.D. - Professor, Department of Pharmacology, University of California, San Diego, CA
Mar 09, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: NIH T32 Training Grant in Cellular, Biochemical and Molecular Sciences Graduate Students

Defining mechanisms that maintain reading frame in eukaryotic translation

Jiyu Wang - PhD Candidates
Mar 15, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Yeast Cell Surface Display of HIV Envelope Glycoprotein for Vaccine Development

Hong Zhu - PhD Candidates
Mar 15, 2016 - 1:30 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Competition for a Hungry Spliceosome Shapes mRNA Populations and Cell Phenotypes

Manuel Ares, Jr., Ph.D. - Professor, Department of Molecular, Cell and Developmental Biology, University of California, Santa Cruz, CA
Mar 16, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: Dr. Clara Kielkopf

An Editor’s Eye View of Publishing in Science

Guy Riddihough, Ph.D. - Senior Editor; Research, Perspectives Editor at Science, Washington, D.C.
Mar 18, 2016 - 1:00 p.m.
Medical Center 3-6408 (K-307)

Dissecting the Function of Domain-Forming Transcriptional Enhancers

Sierra Fox - PhD Candidates
Mar 22, 2016 - 1:00 p.m.
Medical Center Upper S-Wing (3-7619)

Investigating genome-wide patterns of secondary structure in mRNA sequences

Mohammad Kayedkhordeh - PhD Candidates
Mar 22, 2016 - 1:30 p.m.
Medical Center Upper S-Wing (3-7619)

VEGF-Ax, an Anti-angiogenic VEGF-A Isoform Generated by Programmed Stop Codon Readthrough of vegfa mRNA

Paul L. Fox, Ph.D. - Professor, Department of Cellular and Molecular Medicine, Lerner Research Institute, Cleveland Clinic, Cleveland, OH
Mar 23, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: Dr. Eric Phizicky

Transcriptional Coactivation Through 5'-End Binding of Nascent RNAs

Christopher Phipps - PhD Candidates
Mar 29, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Pseudouridylation of S. cerevisiae U2 snRNA by Box H/ACA Ribonucleoprotein Guided Mechanism

Meemanage De Zoysa - PhD Candidates
Mar 29, 2016 - 1:30 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

The Structures of E. coli HipBA-promoter Complexes Reveal the Molecular Basis of HipBA Repression and Heritable Multidrug Tolerance

Richard G. Brennan, Ph.D. - James B. Duke Professor of Biochemistry; Chairman, Department of Biochemistry, Duke University School of Medicine, Durham, NC
Mar 30, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: NIH T32 Training Grant in Cellular, Biochemical and Molecular Sciences Graduate Students

TBD

Fanfan Hao - PhD Candidate
Apr 05, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Transcriptome Analysis by Integrating Third Generation Sequencing and Second Generation Sequencing

Kin Fai Au, Ph.D. - Assistant Professor, Departments of Internal Medicine and Biostatistics, University of Iowa, Iowa City, IA
Apr 06, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: Dr. Xin Li

TBD

Luke Marr/Louis Smith - PhD Candidates
Apr 12, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Chromatin Dynamics of Histone Variants H2A.Z and CENP-A at Yeast Promoters and Centromeres

Carl Wu, Ph.D. - Senior Fellow and Lab Head, Howard Hughes Medical Institute, Janelia Research Campus, Ashburn, VA
Apr 13, 2016 - 1:00 p.m.
Medical Center G-9425 (Class of '62 Auditorium)
Host: Dr. Jeffrey Hayes

Regulation and Function of Cyclic Nucleotide Phosphodiesterase 7 (PDE7) in Pathological Vascular Remodeling

Lingfeng Luo - PhD Candidates
Apr 19, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Understanding the Effect of Direct Protein-Lipid Interactions on Rhodopsin Structure and Retinal Behavior

Letty (Leslie) Salas Estrada - PhD Candidate
Apr 19, 2016 - 1:00 p.m.
Medical Center 3-7619 (Upper S-Wing Auditorium)

Order from Disorder: Defining Functions of Dysfunctional Proteins

Elizabeth Rhoades, Ph.D. - Associate Professor, Department of Chemistry, University of Pennsylvania, Philadelphia, PA
Apr 20, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: Dr. Alan Grossfield

Structural Dissection of the Ribosome as a Cellular Stress Sensor

Andrei Korostelev, Ph.D. - Associate Professor, RNA Therapeutics Institute & Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA
Apr 27, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: Dr. Dmitri Ermolenko

Connecting Sequence-Encoded Information to Form and Functions of Intrinsically Disordered Proteins

Rohit Pappu, Ph.D. - Edwin H. Murty Professor of Engineering; Professor of Biomedical Engineering; Director of the Center for Biological Systems Engineering, Washington University School of Medicine in St. Louis, MO
May 04, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)
Host: Dr. Alan Grossfield

Integrative Biophysical Approaches to Reveal Mechanisms of Viral Gene Expression

Blanton Tolbert, Ph.D. - Assistant Professor, Department of Chemistry, Case Western Reserve University, Cleveland, OH
Sep 14, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

tRNA Splicing and Repair: Many Ways to Make Ends Meet

Stewart Shuman, M.D., Ph.D. - Molecular Biologist, Molecular Biology Program, Memorial Sloan-Kettering Cancer Center, NY, NY
Sep 21, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

Identifying the Structural and Energetic Factors that Govern Ribosome Function

Paul Whitford, Ph.D. - Assistant Professor, Department of Physics, Northeastern University, Boston, MA
Sep 28, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

Biological Action in Read-Write Genome Evolution

James Shapiro, Ph.D. - Professor of Microbiology, Department of Biochemistry and Molecular Biology, University of Chicago, Chicago, IL
Oct 05, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

Imaging the Functions of Multi-Component Molecular Assemblies at the Single-Molecule Scale

Scott C. Blanchard, Ph.D. - Associate Professor, Department of Physiology and Biophysics, Weill Cornell Medical College of Cornell University, NY, NY
Oct 12, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

Student Seminar: Detection of a Bithional Sensitive Potassium Channel in Cardiac Mitochondria Absent in Slo2.1 Knockouts

Owen Smith - PhD Candidate
Oct 18, 2016 - 1:00 p.m.
Medical Center Upper S-Wing (3-7619)

From the Top Down: Building and Specializing Epithelial Organs

Deborah Andrew, Ph.D. - Professor, Department of Cell Biology, Johns Hopkins School of Medicine, Baltimore, MD
Oct 19, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

Translational Control in Stress Response: from Ribosome to mRNA

Shu-Bing Qian, Ph.D. - Associate Professor, Division of Nutritional Sciences, Cornell University, Ithaca, NY
Oct 26, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

Codon Usage - A Guide for Protein Folding in the Cell

Anton A. Komar, Ph.D. - Professor, Director, Center for Gene Regulation in Health and Disease, Cleveland State University, Cleveland, OH
Nov 02, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

S. cerevisiae Trm140 has two recognition modes for 3-methylcytidine modification of tRNA substrates

Lu Han - PhD Candidate
Nov 08, 2016 - 1:00 p.m.
Medical Center Upper S-Wing (3-7619

Investigating the Dynamic Structure of the Human Spliceosome

Melissa Jurica, Ph.D. - Professor, Department of Molecular, Cell and Developmental Biology, University of California, Santa Cruz, CA
Nov 09, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

Molecular characterization of nucleosome recognition by linker histone H1

Amber Cutter - PhD Candidate
Nov 15, 2016 - 1:00 p.m.
Medical Center Upper S-Wing (3-7619

Initiation of Paramyxovirus Transcription and Genome Replication

Rachel Fearns, Ph.D. - Associate Professor, Department of Microbiology, Boston University School of Medicine, Boston, MA
Nov 16, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

Deciphering the Intimate Connections Between Translation and mRNA Decay

Rachel Green, Ph.D. - Professor, Department of Molecular Biology and Genetics, Johns Hopkins School of Medicine, Baltimore, MD
Nov 30, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

Translational Control Mechanisms of VEGFA

Peng Yao, Ph.D. - Assistant Professor, Aab Cardiovascular Research Institute, Department of Medicine, University of Rochester School of Medicine and Dentistry, Rochester, NY
Dec 14, 2016 - 2:00 p.m.
Medical Center 3-6408 (K-307)

Event Photos