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Eric Alm
Professor of Biological Engineering
Alm Lab
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- Bioinformatics and Computational Microbiology
- Metabolic Engineering and Biotechnology
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ejalm@mit.edu
617-253-2726
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Short Bio
The human microbiome plays a key role in human health and disease. Research in my group includes both computational/theoretical and experimental approaches to understanding and engineering the human microbiome. Our research is focused on translating basic science discoveries rapidly into the clinic, where they can contribute to better outcomes for patients. Some areas of special interest include:
- Developing therapeutics based on synthetic microbial communities
- Personalized medicine
- Monitoring human activities through Smart Sewers
- Smart Toilets that track human health
- Discovering low-cost non-invasive biomarkers
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Andrew Babbin
Cecil & Ida Green Career Development Associate Professor Associate Professor of Chemical Oceanography and Marine Microbiology
MIT EAPS
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- Ecology and Environmental/Geo Microbiology
- Microbial Oceanography
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babbin@mit.edu
617 253 2181
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Short Bio
Andrew Babbin and his bablab are oceanographers, biogeochemists, engineers, and microbial ecologists studying the interplay of chemistry and biology across spatial scales. They focus on the interactions of microorganisms with their chemical environment to understand climate and the impacts microbial communities have for marine biogeochemistry. They particularly investigate the cycling of marine nitrogen under reduced oxygen concentrations, and its relationship to carbon. Their approach is three-fold: (i) investigating biogeochemistry in situ through shipboard and land-based field work and analyses, (ii) designing and executing novel laboratory-based systems to probe the underlying fundamentals for microbial community growth and function, and (iii) using large datasets to investigate marine biogeochemistry through numerical simulation and modeling. They routinely consider how microscale processes occurring around individual bacteria and marine snow particles impact whole-ocean biogeochemistry, bridging microscopic life to global climate.
Babbin earned his BS degree (2008) from Columbia University and doctoral degree (2014) from Princeton University. He came to MIT in November 2014 as an NSF Postdoctoral Research Fellow in Civil and Environmental Engineering before joining the EAPS faculty as of January 2017. His lab group conducts research across a variety of avenues, coupling observational oceanography with laboratory experiments to understand the chemical underpinnings that control microbes in the environment and how these microbes in turn reshape Earth’s climate.
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Tania Baker
E. C. Whitehead Professor of Biology; MacVicar Faculty Fellow; Investigator, Howard Hughes Medical Institute
Baker Lab
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- Biochemical, Chemical, and Structural Microbiology
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tabaker@mit.edu
617-253-3594
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Short Bio
Tania Baker’s current research explores mechanisms and regulation of enzyme-catalyzed protein unfolding, ATP-dependent protein degradation, and remodeling of the proteome during cellular stress responses.
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David Bartel
Professor of Biology; Member, Whitehead Institute; Investigator, Howard Hughes Medical Institute
Bartel Lab
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- Biochemical, Chemical, and Structural Microbiology
- Ecology and Environmental/Geo Microbiology
- Genetics and Physiology
- Genomics and Systems Microbiology
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dbartel@wi.mit.edu
617-258-5287
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Short Bio
We study post-transcriptional gene regulation—why some cellular mRNAs are a thousand times more stable than others, and why some are translated better than others. These differences dramatically influence the amount of protein produced from each gene, which is critical for proper cellular function, as well as organismal development and survival. A major focus of our research is microRNAs, which are ~22-nt RNAs that pair to mRNAs to specify their repression. Another focus is mRNAs, with particular interest in their untranslated regions and tails, and how these regions recruit and mediate regulatory phenomena. In the course of our work, we develop new tools for high-throughput molecular measurements, which help to inform our computational analyses and in-depth mechanistic studies.
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Angela Belcher
W.M. Keck Professor of Energy; James Mason Crafts Professor of Biological Engineering and Materials Science
Belcher Lab
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- Bioinformatics and Computational Microbiology
- Metabolic Engineering and Biotechnology
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belcher@mit.edu
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Short Bio
In the Biomolecular Materials Group, we evolve simple organisms using directed evolution to work with the elements in the rest of the periodic table. We encourage these organisms to grow and assemble technologically important materials and devices for energy, the environment, and medicine. These hybrid organic-inorganic electronic and magnetic materials have been used in applications as varied as solar cells, batteries, medical diagnostics and basic single molecule interactions related to disease. In doing so, we have capitalized on many of the wonderful properties of biology–using only non-toxic materials, employing self-repair mechanisms, self-assembling precisely and over longer ranges, and adapting and evolving to become better over time.
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Paul Blainey
Associate Professor of Biological Engineering
Broad Institute
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- Genetics and Physiology
- Immunology and Host-Microbe Interactions
- Virology and Phage Biology
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pblainey@mit.edu
617-714-7320
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Short Bio
Paul Blainey is a core member of the Broad Institute of MIT and Harvard and a tenured associate professor in the Department of Biological Engineering at MIT. He is an expert in microanalysis systems for studies of individual molecules and cells. Blainey is applying this technology to advance the understanding of DNA-protein interactions, evolutionary processes, functional differences between cells, disease processes, and drug target discovery.
The Blainey group develops and translates microfluidic, chemical, imaging, and genomics approaches to make high-throughput quantitative biology routine. Such capabilities will allow scientists to gain fundamental insights into many aspects of mammalian cell biology, microbial community function, and disease biology. Blainey seeks to empower researchers to obtain new types of information about biological specimens and integrate different types of information, such as imaging and genomic data.
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Tanja Bosak
Professor
Bosak Lab
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- Ecology and Environmental/Geo Microbiology
- Evolution
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tbosak@mit.edu
617-324-3959
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Short Bio
The Bosak laboratory uses experimental geobiology to explore modern biogeochemical and sedimentological processes in microbial systems and interpret the record of life on the Early Earth.
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Lydia Bourouiba
Associate Professor
Bourouiba Lab
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- Immunology and Host-Microbe Interactions
- Virology and Phage Biology
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lbouro@mit.edu
617-324-7745
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Short Bio
Focusing on the interface of fluid dynamics and epidemiology, The Fluid Dynamics of Disease Transmission Laboratory, within the Fluids and Health Network, aims to elucidate the fundamental physical mechanisms shaping the transmission dynamics of pathogens in human, animal, and plant populations where drops, bubbles, multiphase and complex flows are at the core, in addition to broader questions at the intersection of health, broadly defined, and fluid physics.
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Bryan Bryson
Phillip and Susan Ragon Career Development Professor
Bryson Lab
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- Genomics and Systems Microbiology
- Immunology and Host-Microbe Interactions
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bryand@mit.edu
617-258-7641
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Short Bio
- Understanding and predicting the host and bacterial determinants of bacterial fate
- Developing novel tools to interrogate bacterium:host interactions with single cell resolution
- Reprogramming the innate immune system to improve bacterial control through systematic dissection of innate response pathways
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Cullen Buie
Associate Professor of Mechanical Engineering
MIT LEMI
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- Bioenergy and Metabolic Diversity
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crb@mit.edu
617.324.4029
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Short Bio
Cullen is currently an Associate Professor of Mechanical Engineering (with tenure) at MIT. His laboratory explores flow physics at the microscale for applications in materials science and microbiology. His research is applicable to a diverse array of problems, from anti-biofouling surfaces and biofuels to energy storage and bacterial infections. Cullen is the recipient of numerous awards for his research and service including the National Science Foundation CAREER Award (2012), the DuPont Young Professor Award (2013), the DARPA Young Faculty Award (2013), and the Presidential Early Career Award for Scientists and Engineers (2016). Cullen’s C.V. can be found here.
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Jianzhu Chen
Ivan R. Cottrell Professor of Immunology, Singapore Research Professor
Chen Lab
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- Immunology and Host-Microbe Interactions
- Molecular and Cellular Microbiology
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jchen@mit.edu
617-258-6173
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Short Bio
Our research seeks to fundamentally understand how immune cells respond to pathogens and cancer, and how their dysfunction contributes to diseases. Our long-term goal is to elucidate the underlying molecular mechanisms and use this understanding to develop better treatments for cancer and metabolic diseases and better vaccines for infection.
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Yiyin Erin Chen
Assistant Professor of Biology; Core Member, Broad Institute
Chen Lab
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- Immunology and Host-Microbe Interactions
- Molecular and Cellular Microbiology
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erinchen@yeclab.org
(617) 714-7072
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Short Bio
Diverse commensal microbes colonize every surface of our bodies. We study the constant communication between these microbes and our immune system. We focus on our largest organ: the skin. By employing microbial genetics, immunologic approaches, and mouse models, we can dissect (1) the molecular signals used by microbes to educate our immune system and (2) how different microbial communities alter immune responses. Ultimately, we aim to harness these microbe-host interactions to engineer novel vaccines and therapeutics for human disease.
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James Collins
Termeer Professor of Bioengineering
Collins Lab
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- Bioinformatics and Computational Microbiology
- Genomics and Systems Microbiology
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jimjc@mit.edu
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Short Bio
We are employing engineering principles to model, design and build synthetic gene circuits and programmable cells, in order to create novel classes of diagnostics & therapeutics. We are also using deep learning approaches to discover new genetic parts and enhance the synthetic biology design process.
As part of the Antibiotics-AI Project, we are harnessing the power of artificial intelligence (AI) to discover novel classes of antibiotics and rapidly understand how they work. We are also using deep learning approaches for the de novo design of new antibiotics and the development of combination treatments.
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Otto Cordero
Associate Professor CEE; Co-Director MIT Microbiology PhD Program
Cordero Lab
MIT CEE
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- Bioinformatics and Computational Microbiology
- Ecology and Environmental/Geo Microbiology
- Evolution
- Genomics and Systems Microbiology
- Microbial Oceanography
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ottox@mit.edu
617.230.4153
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Short Bio
Professor Cordero studies the ecology and evolution of natural microbial collectives. His lab is interested in understanding how social and ecological interactions at micro-scales impact the global productivity, stability and evolutionary dynamics of microbial ecosystems.
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Joey Davis
Associate Professor of Biology
Davis Lab
MIT Biology
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- Biochemical, Chemical, and Structural Microbiology
- Molecular and Cellular Microbiology
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jhdavis@mit.edu
617-258-6154
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Short Bio
Having worked in Bob Sauer’s group as a Ph.D. student, I was thrilled to have the opportunity to return to MIT to start my lab. After graduating, I was the first employee at Ginkgo BioWorks, a local synthetic biology startup company and later was a post-doc in San Diego where I was jointly advised by Jamie Williamson and Malene Hansen. I’m excited to be back in Boston and working on key problems at the intersection of biochemistry, structural biology, and macromolecular complex assembly!
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Peter Dedon
Underwood-Prescott Professor of Biological Engineering
Dedon Lab
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- Immunology and Host-Microbe Interactions
- Virology and Phage Biology
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pcdedon@mit.edu
617-253-8017
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Short Bio
Research in the Dedon Lab focuses on the chemical biology of nucleic acids in three broad areas: epigenetics, epitranscriptomics, and genetic toxicology.
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Cathy Drennan
Professor of Chemistry and Biology; Investigator and Professor, Howard Hughes Medical Institute; MacVicar Faculty Fellow
Drennan Lab
MIT Biology
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- Biochemical, Chemical, and Structural Microbiology
- Bioinformatics and Computational Microbiology
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cdrennan@mit.edu
617-253-5622
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Short Bio
The Drennan Research Laboratory seeks to understand how Nature harnesses and re-directs the reactivity of enzyme metallocenters in order to perform challenging reactions. The Drennan Lab Educational Initiatives focus on the development of resources for undergraduate science teaching and for the training of science educators.
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Bevin Engelward
Professor of Biological Engineering; Director of the MIT Superfund Research Center
Engelward Lab
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- Genetics and Physiology
- Immunology and Host-Microbe Interactions
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bevin@mit.edu
617-258-0260
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Short Bio
Major goals of the Engelward laboratory are to contribute to our understanding of factors that impact genomic stability through basic research, and through the development and application of novel technologies.
- Develop mouse models for fluorescent detection of rare genetic changes
- Reveal the impact of genes, environment, and physiological conditions on genomic stability
- Create a high-throughput platform for measuring DNA damage in human cells
- Apply high throughput technology for epidemiology and drug development
- Explore the interfaces among DNA damage, repair, and infection
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John Essigmann
William R. (1956) & Betsy P. Leitch Professor in Residence Professor of Chemistry, Toxicology, and Biological Engineering
Essigmann Lab
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Kevin Esvelt
Leader, Sculpting Evolution Group; Assistant Professor, Media Lab
Sculpting Evolution
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- Evolution
- Genetics and Physiology
- Virology and Phage Biology
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esvelt@media.mit.edu
617-715-2615
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Short Bio
Kevin M. Esvelt is an associate professor at the MIT Media Lab, where he leads the Sculpting Evolution Group in advancing biotechnology safely.
He received his Ph.D. from Harvard University for inventing a synthetic microbial ecosystem to rapidly evolve useful biomolecules, and subsequently helped pioneer the development of CRISPR, a powerful new method of genome engineering.
In 2013, Esvelt was the first to identify the potential for CRISPR “gene drive” systems to alter wild populations of organisms. Recognizing the implications of an advance that could enable individual scientists to alter the shared environment, he and his colleagues chose to break with scientific tradition by revealing their findings and calling for open discussion and safeguards before building the first CRISPR-based gene drive system and demonstrating reversibility in the laboratory.
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Nikta Fakhri
Thomas D. & Virginia W. Cabot Career Development Associate Professor of Physics
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fakhri@mit.edu
617-324-6727
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Short Bio
Nikta is the Thomas D. and Virginia W. Cabot Career Development Associate Professor in the Department of Physics at MIT and Physics of Living Systems Group. She completed her undergraduate degree at Sharif University of Technology and her PhD at Rice University. She was a Human Frontier Science Program postdoctoral fellow at Georg-August-Universität in Göttingen, Germany before joining MIT. Nikta is an Alfred P. Sloan Research Fellow in Physics. She is the recipient of the 2018 IUPAP Young Scientist Prize in Biological Physics and the 2019 NSF CAREER Award.
Photo credit by Steph Stevens
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Gregory Fournier
Associate Professor of Earth, Atmospheric & Planetary Science
MIT EAPS
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- Bioinformatics and Computational Microbiology
- Ecology and Environmental/Geo Microbiology
- Evolution
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g4nier@mit.edu
617-324-6164
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Short Bio
Greg Fournier is an expert in molecular phylogenetics and microbial evolution. His research investigates the geobiological context for the complex evolutionary histories of genes involved in “horizontal gene transfer” or HGT, the early evolution of microbial systems and metabolisms, and how these processes have shaped the biogeochemistry and habitability of the planet.
His research accomplishments span many eras of Earth’s history, including the identification of the HGT origin of new methane-producing metabolisms at a time closely linked with the Permian-Triassic mass extinction, discovering gene histories showing oxygen-dependent sterol biosynthesis evolved in the ancestors of eukaryotes over 2 billion years ago, and developing new HGT-based approaches for dating the origin of microbial groups and metabolisms, including methanogenesis and oxygenic photosynthesis. His current work focuses on expanding HGT-based molecular clocks to obtain a comprehensive, precise dating of the microbial Tree of Life, as well as focused studies on the evolution of major groups of cyanobacteria, green sulfur bacteria, and microbes involved in the nitrogen cycle and the consumption of animal-derived organic materials.
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Ariel Furst
Raymond (1921) & Helen St. Laurent Career Development Professor of Chemical Engineering
Furst Lab
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- Bioenergy and Metabolic Diversity
- Ecology and Environmental/Geo Microbiology
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afurst@mit.edu
617-253-4677
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Short Bio
Ariel L. Furst received a B.S. degree in Chemistry from the University of Chicago working with Prof. Stephen B. H. Kent on the chemical synthesis of proteins. She then completed her Ph.D. in the lab of Prof. Jacqueline K. Barton at the California Institute of Technology developing new cancer diagnostic strategies based on DNA charge transport. She was then an A. O. Beckman Postdoctoral Fellow in the lab of Prof. Matthew Francis at the University of California, Berkeley. She is now an assistant professor in the Chemical Engineering Department at MIT. She is passionate about STEM outreach and increasing participation of underrepresented groups in engineering.
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Jeff Gore
Latham Family Career Development Associate Professor of Physics
Gore Lab
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- Ecology and Environmental/Geo Microbiology
- Evolution
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gore@mit.edu
617-715-4251
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Short Bio
Jeff’s research interests have ranged widely, from the current focus on ecological dynamics to his single-molecule research in graduate school with the Bustamante laboratory. Before starting his own lab, Jeff was a Pappalardo Fellow in the Physics Department at MIT working with the van Oudenaarden laboratory studying cooperation and cheating in yeast.
Jeff’s honors include a Schmidt Science Polymath Award, NIH New Innovator Award, NIH K99/R00 Pathways to Independence Award, and an NSF CAREER Award. In addition, Jeff is a Pew Scholar in the Biomedical Sciences, Sloan Research Fellow, and an Allen Distinguished Investigator. He has also been recognized at MIT for his efforts in teaching and mentoring; in 2011 he was chosen as the MIT-wide undergraduate research (UROP) mentor of the year and in 2013 he received the Buechner Teaching Award from the Physics Department.
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Alan D. Grossman
Praecis Professor of Biology
MIT Biology
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- Genetics and Physiology
- Molecular and Cellular Microbiology
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adg@mit.edu
617-253-1515
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Short Bio
We use a variety of approaches to investigate several of the fundamental and conserved processes used by bacteria for propagation and growth, adaptation to stresses, and acquisition of new genes and traits via horizontal gene transfer. Our long term goals are to understand many of the molecular mechanisms and regulation underlying basic cellular processes in bacteria. Our organism of choice for these studies is usually the Gram positive bacterium Bacillus subtilis. Our current efforts are focused in two important areas of biology: 1) The control of horizontal gene transfer, specifically the lifecycle, function, and control of integrative and conjugative elements (ICEs). These elements are widespread in bacteria and contribute greatly to the spread of antibiotic resistances between organisms. 2) Regulation of the initiation of DNA replication and the connections between replication and gene expression, with particular focus on the conserved replication initiator and transcription factor DnaA. This work is directly related to mechanisms controlling bacterial growth, survival, and stress responses.
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Kristala L. Jones Prather
Associate Professor of Chemical Engineering; Arthur Dehon Little Professor, Department Executive Officer
Prather Research Group
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- Biochemical, Chemical, and Structural Microbiology
- Metabolic Engineering and Biotechnology
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kljp@mit.edu
617-253-1950
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Short Bio
Chemical engineering is the perfect backdrop for our research. We engineer microbes to produce chemical compounds. Some may look at this and think biology, but if you were able to peer inside a cell, you’d witness thousands of chemical reactions inside a microbial chemical factory.
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Laura L. Kiessling
Novartis Professor of Chemistry
Kiessling Lab
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- Biochemical, Chemical, and Structural Microbiology
- Immunology and Host-Microbe Interactions
- Molecular and Cellular Microbiology
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kiesslin@mit.edu
617-258-8567
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Short Bio
Professor Kiessling received an Sc.B. degree in chemistry at MIT, where she performed undergraduate research in organic synthesis with Professor Bill Roush. She received a Ph.D. degree in chemistry at Yale University for her research with Stuart L. Schreiber. She was an American Cancer Society postdoctoral fellow with Peter B. Dervan at California Institute of Technology. She then joined the faculty at the University of Wisconsin–Madison, where she became the Steenbock Professor of Chemistry, the Laurens Anderson Professor of Biochemistry, and the Director of the Keck Center for Chemical Genomics. In 2017, she returned to MIT as the Novartis Professor of Chemistry.
Professor Kiessling is a member of the American Academy of Arts & Sciences, the American Academy of Microbiology, the American Philosophical Society, and National Academy of Sciences. She is the founding Editor-In-Chief of the journal ACS Chemical Biology . She is an author of over 140 peer-reviewed journal articles, and an inventor on more than 28 US patents. She has advised approximately 100 graduate students and postdoctorates. Alumni from her research group are contributing through their positions as faculty members of distinguished research universities, medical schools, and colleges and as research scientists at innovative start-up companies, leading corporations, and government laboratories.
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Becky Lamason
Associate Professor of Biology
Lamason Lab
MIT Biology
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- Molecular and Cellular Microbiology
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rlamason@mit.edu
617-258-6155
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Short Bio
In the Lamason lab, we investigate how intracellular bacterial pathogens such as Rickettsia parkeri and Listeria monocytogenes hijack host cell processes to promote infection. We use cellular, molecular, genetic, biochemical, and biophysical approaches to elucidate the mechanisms of host-pathogen interactions in order to reveal key insights into pathogenesis and host cell biology.
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Michael Laub
Associate Professor of Biology; Investigator, Howard Hughes Medical Institute
Laub Lab
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- Biochemical, Chemical, and Structural Microbiology
- Genetics and Physiology
- Genomics and Systems Microbiology
- Molecular and Cellular Microbiology
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laub@mit.edu
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Short Bio
Our lab is currently interested in: (1) understanding how toxin-antitoxin systems and other immunity mechanisms help bacteria defend themselves against phage predation and (2) elucidating the molecular basis of protein evolution and the coevolution of interacting proteins. We use a combination of genetics, biochemistry, microscopy, computational analyses, and genome-scale approaches like RNA-seq. Our work is rooted in a desire to develop a deep, fundamental understanding of how bacteria function and evolve, but it also has implications for and applications in areas such as protein engineering and phage therapy.
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Daniel Lew
Professor of Biology
Lew Lab
Biology Dept.
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- Genetics and Physiology
- Molecular and Cellular Microbiology
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djlew@mit.edu
617-258-7360
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Short Bio
Faculty Bio: Daniel Lew joined the Department of Biology at MIT as a Professor in the Spring of 2023. Professor Lew completed a PhD in Molecular Biology from the Rockefeller University in 1990, and then did postdoctoral work at the Scripps Research Institute where he investigated the cell cycle control in the model yeast Saccharomyces cerevisiae. His research focuses on the study of cell polarity and the spatial decoding of chemical signals by cells, which are critical for many biological phenomena.
Research Summary: We study questions in fundamental cell biology, using fungal models and a mix of experimental and computational approaches. Fungi and animals share conserved molecular strategies to perform many core cell functions, so the tractable yeast Saccharomyces cerevisiae provides a superb model system to gain in-depth understanding that can be translated into computational models. We also study an emerging non-model fungus, Aureobasidium pullulans, that is an ubiquitous poly-extremophile with unconventional growth modes that raise novel questions in cell biology.
Some questions of interest:
- How do cells regulate cell polarity to achieve different morphologies?
- How do cells orient cell polarity in response to extracellular signals?
- How do cells distribute their contents, particularly in complex geometries?
- How do fungi growing under stringent turgor pressure expand their cell walls without lysing?
- How do cell-cell contacts between cell walls communicate mechanical information to the cell?
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Gene-Wei Li
Associate Professor of Biology
Gene-Wei Li Lab
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- Biochemical, Chemical, and Structural Microbiology
- Genetics and Physiology
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gwli@mit.edu
617-324-6703
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Short Bio
Gene-Wei Li investigates how quantitative information regarding precise proteome composition is encoded in and extracted from bacterial genomes. We seek to understand the optimization of bacterial proteomes at both mechanistic and systems levels. Our work combines high-precision assays, genome-wide measurements, and quantitative/biophysical modeling. Ongoing projects focus on the design principles of transcription, translation, and RNA maturation machineries in the face of competing cellular processes.
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Tami Lieberman
Associate Professor, Civil and Environmental Engineering
MIT IMES
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- Bioinformatics and Computational Microbiology
- Ecology and Environmental/Geo Microbiology
- Genetics and Physiology
- Genomics and Systems Microbiology
- Immunology and Host-Microbe Interactions
- Virology and Phage Biology
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tami@mit.edu
617-258-6670
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Short Bio
Tami Lieberman joined the MIT faculty in January 2018. She leads a computational and experimental research group focused on uncovering the principles governing colonization, niche range, and personalization in the human microbiome.
Tami trained in molecular biology and mathematics at Northwestern University, where she conducted research in the laboratory of Jon Widom and was funded by a Barry M. Goldwater Scholarship. She then earned a PhD in Systems Biology from Harvard University, where she conducted research in Roy Kishony’s laboratory. During her graduate research, Tami developed new genomic approaches for understanding how bacteria evolve during infections of individual people. As a postdoc in Eric Alm’s lab at MIT, she further developed and applied these genomic approaches to understand the microbes that colonize us during health. Tami has also made contributions to our understanding of antibiotic resistance, including the co-invention of a new platform for visualizing evolution in real time. Her work has been covered in the popular press, including online coverage from The Atlantic, The Wall Street Journal, National Geographic, The Boston Globe, and ArsTechnia.
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Sebastian Lourido
Associate Professor of Biology; Core Member, Whitehead Institute
MIT Biology
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- Biochemical, Chemical, and Structural Microbiology
- Genomics and Systems Microbiology
- Immunology and Host-Microbe Interactions
- Molecular and Cellular Microbiology
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lourido@wi.mit.edu
617-324-4920
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Short Bio
Our lab is interested in the molecular events that enable apicomplexan parasites to remain widespread and deadly infectious agents. We study many important human pathogens, including Toxoplasma gondii, to model features conserved throughout the phylum. We seek to expand our understanding of eukaryotic diversity and identify specific features that can be targeted to treat parasite infections.
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J. Christopher Love
Associate Professor of Chemical Engineering
Koch Institute
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- Genetics and Physiology
- Immunology and Host-Microbe Interactions
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clove@mit.edu
617-324-2300
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Short Bio
The Love Laboratory seeks to advance the discovery and development of new therapeutics using patient-centric, data-driven approaches. Using a suite of technologies for single-cell analysis pioneered by the lab over the last decade, we aim to resolve essential cells involved in the evolution of diseases like cancer and food allergy, as well as those that may offer beneficial protection through interventions like therapies or vaccines. We also aim to accelerate the development and accessibility of biopharmaceuticals and vaccines for patients globally. Our lab is creating integrated holistic approaches to the development and manufacturing of these biologics with the aim of testing new medicines rapidly and ensuring accessibility to new and existing medicines through innovations in manufacturing. Using a combination of principles from chemical engineering and biological engineering including state-of-the-art tools for genome editing and RNA sequencing, we are advancing the breadth of products through molecular and host engineering as well as concepts in integrated process design.
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Scott Manalis
Professor of Biological and Mechanical Engineering
Manalis Lab
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- Bioinformatics and Computational Microbiology
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srm@mit.edu
617-253-5039
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Short Bio
Scott Manalis is the David H. Koch Professor in Engineering and member of the Koch Institute for Integrative Cancer Research at MIT. He received a B.S. in physics from the University of California, Santa Barbara and a Ph.D. in applied physics from Stanford University. His lab develops and applies high precision approaches for measuring biophysical properties of single cells.
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Darcy McRose
Assistant Professor
McRose Lab
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- Biochemical, Chemical, and Structural Microbiology
- Bioenergy and Metabolic Diversity
- Ecology and Environmental/Geo Microbiology
- Genetics and Physiology
- Microbial Oceanography
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dmcrose@mit.edu
617-715-4244
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Short Bio
Our research group is interested in understanding how small scale microbially-mediated chemical transformations in soils and sediments affect biogeochemistry and plant growth. We focus specifically on the chemical tools or “secondary metabolites” that microbes (and plants) use to navigate and alter their environment. While we have learned a great deal about the antibiotic properties of secondary metabolites and their utility in human health, we know significantly less about secondary metabolite function in natural contexts. This knowledge gap creates a unique opportunity: secondary metabolites are highly tractable study targets and while they do not encompass the whole of soil complexity, they epitomize many crucial aspects.
We are particularly interested in secondary metabolites that are redox active and/or bind metals as these chemical properties can contribute to weathering and nutrient turnover in natural contexts. Our work incorporates bacterial genetics, genomics, and physiology as well as mass spectrometry and other geochemical measurements. Carbon storage and agricultural sustainability are two of the ultimate motivations for our work. Specific projects investigating macronutrient cycling via secondary metabolites are described below.
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Leonid Mirny
Associate Professor of Health Sciences and Technology and Physics
Mirny Lab
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- Bioinformatics and Computational Microbiology
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leonid@mit.edu
617-452-4862
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Short Bio
The challenge of understanding biological systems from first physical principles is what motivates our research. Biological systems are characterized by remarkable structural complexity at all levels of organization. However, we believe that simple physical models are valuable for describing these systems.
Our laboratory develops multidisciplinary approaches involving:
- Polymer physics theory and simulation
- Statistical interpretation of genome-wide data
- Population genetics and evolutionary theory
A key feature of our approach are the direct collaborations we have with other scientists in the area.
A number of graduate students in the lab are co-advised by an experimentalist.
Nearly every student in the lab works directly with our experimental collaborators, contributing both to experimental design, data analysis, and modeling.
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Jacquin Niles
Professor of Biological Engineering; Co-Director MIT Microbiology PhD Program
Niles Lab
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- Biochemical, Chemical, and Structural Microbiology
- Immunology and Host-Microbe Interactions
- Molecular and Cellular Microbiology
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jcniles@mit.edu
617-324-3701
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Short Bio
Our research emphasizes developing and using novel molecular tools to address outstanding questions in infectious diseases. Our specific focus is on malaria and the causative pathogen, Plasmodium falciparum. We take advantage of model systems to efficiently validate and optimize the design of new tools intended to address unmet needs in our target pathogen. In this process, we simultaneously produce solutions that are applicable across a range of model and pathogenic organisms, and broadly useful in both basic and applied biology efforts.
We are highly multi-disciplinary in our approach, and integrate expertise in diverse areas including: biomolecular engineering; chemical biology; synthetic biology; analytical chemistry; biochemistry; and molecular and cell biology.
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Elizabeth Nolan
Associate Professor of Chemistry
Nolan Lab
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- Biochemical, Chemical, and Structural Microbiology
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lnolan@mit.edu
617-452-2495
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Short Bio
Liz Nolan was raised in Niskayuna, New York and graduated magna cum laude from Smith College with highest honors in chemistry and a minor in music. Liz conducted her graduate studies in inorganic chemistry at MIT where she joined the laboratory of Professor Stephen J. Lippard and she pursued post-doctoral research in the laboratory of Christopher T. Walsh at Harvard Medical School. Liz joined the Department of Chemistry at MIT as an Assistant Professor in 2009 and was promoted to Associate Professor Without Tenure in 2014, Associate Professor with Tenure in 2016, and Professor with Tenure in 2019. She was selected as the Ivan R. Cottrell Professor of Immunology in 2020. Liz received a 2010 NIH New Innovator Award, a 2014 NSF CAREER Award, and was named a Searle Scholar in 2011, an Alfred P. Sloan Foundation Fellow in 2013, and a Camille Dreyfus Teacher-Scholar in 2014. She is the recipient of the 2016 Eli Lilly Award in Biological Chemistry and a 2017 Presidential Early Career Award for Scientists and Engineers (PECASE). For her contributions as an educator, Liz was awarded the 2016 MIT School of Science Teaching Prize for Graduate Education. In 2020, Liz began serving as the Associate Department Head overseeing the Department of Chemistry’s educational mission.
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Sergey Ovchinnikov
Assistant Professor of Biology
Ovchinnikov Lab
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so3@mit.edu
617-258-7851
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Short Bio
Sergey Ovchinnikov uses phylogenetic inference, protein structure prediction/determination, protein design, deep learning, energy-based models, and differentiable programming to tackle evolutionary questions at environmental, organismal, genomic, structural, and molecular scales, with the aim of developing a unified model of protein evolution.
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Katharina Ribbeck
Eugene Bell Career Development Professor of Tissue Engineering
Ribbeck Lab
MIT Biological Engineering
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- Immunology and Host-Microbe Interactions
- Virology and Phage Biology
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ribbeck@mit.edu
617-715-4575
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Short Bio
The Laboratory for Biological Hydrogels’ focus is on basic mechanisms by which mucus barriers exclude, or allow passage of different molecules and pathogens, and the mechanisms pathogens have evolved to penetrate mucus barriers. It hopes to provide the foundation for a theoretical framework that captures general principles governing selectivity in mucus, and likely other biological hydrogels such as the extracellular matrix, and bacterial biofilms. The Lab’s work may also be the basis for the reconstitution of synthetic gels that mimic the basic selective properties of biological gels.
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Hadley Sikes
Assistant Professor of Chemical Engineering
Sikes Lab
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- Metabolic Engineering and Biotechnology
- Molecular and Cellular Microbiology
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sikes@mit.edu
617.253.5224
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Short Bio
Our efforts focus on engineering biomolecular systems to detect and treat disease in new ways. We use the principles of engineering design to support and extend the practice of evidence-based diagnosis and selection of therapy.
Engineering design starts with interviewing intended users to formulate a quantitative problem statement and to understand the context and constraints for a new medical test. In the area of infectious disease, proteins in bodily fluids can indicate malaria or tuberculosis. The protein identity, quantity, and bodily fluid varies with the disease. In cancer, particular epigenetic and post-translational protein modifications can predict which therapies are likely to be effective against an individual tumor. We use an understanding of thermodynamics, kinetics, and transport phenomena to design medical tests that simultaneously meet design criteria for analytical performance, assay time, cost, robustness, and infrastructural requirements. We iteratively test prototypes with clinical collaborators to assess and improve real-world utility.
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Anthony Sinskey
Professor of Microbiology and Health Sciences & Technology
Sinskey Lab
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- Biochemical, Chemical, and Structural Microbiology
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asinskey@mit.edu
617-253-6721
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Short Bio
Anthony J. Sinskey, Sc.D., is a Professor of Microbiology at the Massachusetts Institute of Technology and holds positions as Co-Director of the Malaysia-MIT Biotechnology Partnership Program and as Faculty Director of the MIT Center for Biomedical Innovation (CBI). He conducts interdisciplinary research in metabolic engineering focusing on the fundamental physiology, biochemistry and molecular genetics of important organisms. Dr. Sinskey is well known in the biopharmaceutical industry and has been a Scientific Co-founder of several biotechnology companies, including Genzyme Corporation, Natural Pharmaceuticals, Metabolix, Merrimack Pharmaceuticals, and Tepha. Dr. Sinskey has given more than 300 presentations at U.S. and International scientific meetings and congresses. He has received 31 issued patents, has made more than 30 invention disclosures and has published more than 300 scientific papers in leading peer-reviewed journals for biology, metabolic engineering, and biopolymer engineering.
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Gregory Stephanopolous
Willard Henry Dow Professor in Chemical Engineering
Metabolic Engineering Lab
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- Bioinformatics and Computational Microbiology
- Metabolic Engineering and Biotechnology
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gregstep@mit.edu
617-253-4583
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Short Bio
Professor Stephanopoulos currently works in Cambridge, at the Department of Chemical Engineering of MIT, focusing on biotechnology, specifically metabolic and biochemical engineering. He is the Director of the Metabolic Engineering Laboratory. His group of approximately 20 graduate students and post-docs conducts research on various projects aiming at the development of biological production routes to chemical products and biofuels. Another program is investigating cancer as metabolic disease. More information about on-going research can be found in the research page of this site.
Gregory Stephanopoulos C.V.
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Bruce Tidor
Professor of Biological Engineering and Computer Science
Tidor Lab
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- Bioinformatics and Computational Microbiology
- Genomics and Systems Microbiology
- Immunology and Host-Microbe Interactions
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tidor@mit.edu
617-253-7258
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Short Bio
Our research is focused on the analysis of complex biological systems at both the molecular level and the systems level. Our molecular work concentrates on the structure and properties of proteins, nucleic acids, and their complexes. Investigations probe the sources of stability and specificity that drive folding and binding events of macromolecules. Studies are aimed at dissecting the interactions responsible for the specific structure of folded proteins and the binding geometry of molecular complexes. The roles played by salt bridges, hydrogen bonds, side-chain packing, rotameric states, solvation, and the hydrophobic effect in native biomolecules are being explored, and strategies for re-casting these roles through structure-based molecular design are being developed.
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Christopher Voigt
Professor of Biological Engineering
Voigt Lab
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- Bioenergy and Metabolic Diversity
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cavoigt@gmail.com
617-324-4851
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Short Bio
Genetic engineering is undergoing a revolution, where next-generation technologies for DNA and host manipulation are enabling larger and more ambitious projects in biotechnology. Automated DNA synthesis has advanced to where it is routine to order sequences >100,000bp where every base is user-specified, the turnaround time is several weeks, and the cost is rapidly declining. Recently, this facilitated the synthesis of a complete 1 Mbp genome of a bacterium and its transfer into a new host, resulting in a living cell. However, while whole genomes can be constructed, the ability to design such systems is lagging. The focus of my lab is to develop new experimental and theoretical methods to push the scale of genetic engineering, with the ultimate objective of genome design. This will impact the engineering of biology for a broad range of applications, including agriculture, materials, chemicals, and medicine.
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Bruce Walker
Professor of the Practice, MIT IMES; Director, Ragon Institute of MGH, MIT, and Harvard; Investigator, Howard Hughes Medical Institute
MIT Biology
Ragon Institute
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- Genomics and Systems Microbiology
- Immunology and Host-Microbe Interactions
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walkerb@mit.edu
857-268-7073
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Short Bio
Bruce Walker investigates cellular immune responses in chronic human viral infections, with a particular focus on HIV immunology and vaccine development. The overarching goal of my laboratory is to define the interplay of immunologic, virologic and host genetic factors that determine control of human viral infections, to guide vaccine development and immunotherapeutic interventions. To address this goal, we focus on HIV infection.
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Ron Weiss
Professor of Biological Engineering
Weiss Lab
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- Bioinformatics and Computational Microbiology
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rweiss@mit.edu
617-715-4150
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Short Bio
The Weiss Laboratory seeks to create integrated biological systems capable of autonomously performing useful tasks, and to elucidate the design principles underlying complex phenotypes. Cells sense their environment, process information, and continuously react to both internal and external stimuli. The construction of synthetic gene networks can help improve our understanding of such naturally existing regulatory functions within cells. Synthetic gene networks will also enable a wide range of new programmed cells applications. We use computer engineering principles of abstraction, composition, and interface specifications to program cells with sensors and actuators precisely controlled by analog and digital logic circuitry.
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