The Center for Microbiome Informatics and Therapeutics is designed to be a resource for all individuals interested in microbiome therapeutic research.

As an undergraduate, you can perform research in one of the affiliated labs as part of the SuperUROP program. Undergraduates, graduate students, and postdoctoral scientists are more than welcome to learn more about the importance of the microbiome through the Microbiome Club. Furthermore, everyone is encouraged to subscribe to our Newsletter, participate in our Hackathons and write about Microbiome research in the MicrobeBlog.


MIT Microbiome Club

The MIT Microbiome Club provides a space at MIT dedicated to the exploration of the vibrant field of human microbiome studies, bringing together the students, researchers, clinicians, and members of the public currently working on or interested in this field. The Microbiome Club sponsors hands-on workshops and lunch and learn discussions, dinners with faculty and industry professionals, and educational material for short courses at MIT and science outreach events in the Cambridge community. The club is also involved with hosting larger Center events such as microbiome-focused symposia and hackathons. Through these activities and more, we aim to create a space for interested students to come together and plug into the network of research and outreach opportunities in this vibrant, new field. The MIT Microbiome Club is actively looking for interested members keen on helping shape the future of this club on campus. If you are interested in getting involved, email the Club’s Board.

Microbiome Hackathon openbiome_mbit_workshop

The Center for Microbiome Informatics and Therapeutics will be organizing Hackathons in which the wider community of interested scientists, engineers and software developers will be invited to contribute to solving particularly important technical problems in the field.  Hackathon participants will form teams and will be provided with a well-defined problem, along with specific criteria by which their solutions will be evaluated.  Winners will be awarded cash prizes and the opportunity to present their solution to the Center’s more senior members.  Stay tuned for the next MBIT Hackathon event! If you are interested in getting involved, reach out to Tu Nguyen or Thomas Gurry.

SuperUROP Program

Applications to the Center’s 2017-18 SuperUROP Program are OPEN. You must be an MIT undergraduate to apply.

Deadline: 12 PM, Friday, September 1, 2017

Click for application instructions

Click for SuperUROP General Program Description

The Center’s Super Undergraduate Research Opportunity Program (SuperUROP) seeks to create a deep, sustained, and productive experience in microbiome research for undergraduates, preparing them for grad school or industry. Students pursue research in Center-affiliated labs for at least one year, receive training and experience in technical communication and other crucial research skills, and strive to produce publication-quality work. Past SuperUROP’s have begun publications and received job offers based on their research.

To find out more about the SuperUROP Program, please email

Postdoctoral Training Fellowship

Postdoctoral scientists interested in working in one of the Center-affiliated labs should directly email the principal investigator of those labs. Those interested in learning more about Microbiome research should join the Microbiome Club and attend one of our monthly meetings.


We encourage people living with microbiome-related diseases, as well as their friends and families, to engage with the Center by joining our Newsletter. Here, we will update the community on the latest Center activities including new clinical trials, and breakthroughs in understanding and manipulating the microbiome to promote human health. We are also pleased to present our blog, a forum where we will discuss groundbreaking discoveries across the broad spectrum of microbiome research, as well as regulation and policy issues related to the field. Through this, as well as our forthcoming seminar series, anyone with an interest in the microbiome can become part of the greater scientific community, and keep up to date with the latest investigations.

Below you will find a list of some doctors in the Boston-area currently treating patients with IBD:

Beth Israel Deaconess Medical Center

Adam S. Cheifetz

Kenneth R. Falchuk

Sarah N. Flier

Alan C. Moss

Mark A. Peppercorn

Jacqueline L. Wolf

Brigham and Women’s Hospital

Peter Alan Banks

Robert Burakoff

Walter Chan

Disentuwahandi Punyanganie De Silva

Sonia Friedman

Norton Greenberger

Matthew J. Hamilton

Joshua Korzenik

Frederick Lang Makrauer

Scott Snapper

Michal Tomczak

Massachusetts General Hospital

Ashwin N. Ananthakrishnan

Francis P. Colizzo

John J. Garber III

Cosmas Chris Giallourakis

Hamed Khalili

Deanna Diemanh Nguyen

James Michael Richter

Ramnik Xavier

Vijay Yajnik

Tufts Medical Center

Harmony Allison

Andrew G. Plaut

Marcella C. Radano

Jyoti Ramakrishna

Yvelisse Suarez

Joel V. Weinstock

James Yoo

Garrett Zella


COMPUTATIONAL BIOLOGIST, Institute for Medical Engineering and Science (IMES)-Microbiome Informatics and Therapeutics Center

Computational Biologist needed to join a group developing a personal analytics platform for treating diseases related to the human microbiome. The platform integrates state-of-the-art biological data from a patient’s stool, blood, and wearable device, into a single analysis pipeline in order to identify disease-related trends and perform cross-dataset meta-analyses. Will be part of a highly dynamic and multidisciplinary team of researchers applying statistical and computational tools for discovering new biomarkers from large patient datasets. Responsibilities include creating models for predicting the onset of symptoms in various medical conditions, including chronic bowel diseases, from collected patient data; applying machine learning and statistical techniques across a large number of datasets to learn new, predictive features; implementing bioinformatics and data analysis tools for use in an automated environment and in high-throughput manner; designing and implementing statistical analysis algorithms for identifying patterns of predictive value in patient data to motivate novel therapeutic or monitoring strategies in diseases related to the gut microbiome; and working closely with an interdisciplinary team of scientists, engineers, physicians, and software developers to ensure seamless integration of designed software and algorithms with the rest of the analytics platform.

Minimum requirements:

A Ph.D. in computational biology, bioinformatics, or related field; significant experience in statistics and data analysis and the motivation to develop new methods; experience in high performance computing, particularly as applied large biological data sets; fluency in the theory and application of state-of-the-art machine learning techniques; familiarity with or strong desire to learn about next-generation sequencing datasets; strong communication skills; and ability to work effectively as part of a highly dynamic interdisciplinary team.

Please apply for position 12091 through the MIT jobs portal at

 SOFTWARE DEVELOPER, Institute for Medical Engineering and Science (IMES)-Microbiome Informatics and Therapeutics Center

Software Developer needed to join a group developing a personal analytics platform for treating diseases related to the human microbiome. The platform integrates state-of-the-art biological data from patients into a single analysis pipeline in order to identify disease-related trends and perform cross-dataset meta-analyses. Will develop and maintain the platform’s back-end by working with an interdisciplinary team of scientists, engineers, and physicians to develop a lasting computational infrastructure for large-scale analysis of continuously-monitored patient data; developing, implementing, and maintaining existing cloud-computing architecture on Amazon Web Services (AWS) to handle increasingly larger fluxes of data; writing new and optimizing existing in-house software and analysis scripts to handle the extraction of machine learning features from extremely large patient datasets; managing job concurrency on AWS platform; designing and enforcing tight security measures to control access and protect patient anonymity; and maintaining security groups and appropriate accessibility to different aspects of the platform.

Minimum requirements:

A bachelor’s or master’s in computer science or related field; at least two years’ relevant professional experience; significant experience creating robust, scalable computational pipelines for analyzing large, complex datasets; interest in bioinformatics and data-driven healthcare; significant experience with MapReduce and high performance scientific computing in a cloud-based environment (e.g., AWS) and with writing highly optimized software for analysis of very large datasets; experience designing robust, secure, cloud-based solution stacks accessible from a variety of sources, including mobile applications and/or wearable devices; and familiarity with bioinformatics and sequence analysis tools (e.g., BLAST) and willingness to work closely with biological scientists to ensure that they are appropriately applied. Experience with Python and C preferred.

Please apply for position 12090 through the MIT jobs portal at