Bonnie Berger Home Page (original) (raw)
Background and Research Interests
Bonnie Berger is the Simons Professor of Mathematics at MIT and serves as head of Computation and Biology group at MIT's Computer Science and AI Lab. Her recent work focuses on designing algorithms to gain biological insights from advances in automated data collection and the subsequent large data sets drawn from them. She works on a diverse set of problems, including Compressive Genomics, Network Inference, Structural Bioinformatics, Genomic Privacy, and Medical Genomics. Additionally, she collaborates closely with biologists in order to design experiments to maximally leverage the power of computation for biological explorations.
After beginning her career working in algorithms at MIT, she was one of the pioneer researchers in the area of computational molecular biology and, together with the many students she has mentored, has been instrumental in defining the field. Professor Berger is an elected fellow of the American Academy of Arts and Sciences, Association for Computing Machinery, International Society for Computational Biology (ISCB), American Institute of Medical and Biological Engineering, American Mathematical Society, the Society of Industrial and Applied Mathematics. Recently she was recognized by ISCB with their Accomplishments by a Senior Scientist Award. She received the NIH Margaret Pittman Director's Award, the SIAM Sonya Kovalevsky Lecture Prize and an Honorary Doctorate from EPFL. Earlier in her career, she received an NSF Career Award, the Biophysical Society's Dayhoff Award, and recognition as Technology Review Magazine's inaugural TR100 top young innovators. She won the RECOMB Test of Time Award both in 2010 and 2019. She also serves on the Executive Editorial Board of Journal of Computational Biology and as member of the editorial boards of Annual Review for Biomedical Data Science, Genome Biology, Bioinformatics, IEEE/ACM TCBB, and Cell Systems. In addition, Professor Berger is an Associate Member of the Broad Institute, Faculty member of Harvard/MIT Health Science & Technology, and Affiliated Faculty of Harvard Medical School. Recently she was elected to the National Academy of Sciences Class of 2021.
Recent Highlights
Professor Bonnie Berger has been elected to the National Academy of Sciences
Ellen Zhong and Bonnie Berger are co-organizing a workshop on Machine Learning for Structural Biology at NeurIPS 2020
For more info see our website.
Maxwell Sherman
Adam Uri Yaari
ASHG 2020: Reviewers’ Choice Recipients
Seq — a language for bioinformatics
Seq is a programming language for computational genomics and bioinformatics.
For more info see our website.
Sonia Kovalevsky Lecture Prize
AWM SIAM - Annual Meeting, 2020
Professor Bonnie Berger has been selected to give the 2020 AWM SIAM Sonia Kovalevsky Lecture
ISCB 2019 Senior Scientist Award
Professor Bonnie Berger has been honored with ISCB Senior Scientist Award
Lillian wins MIT UROP Award - May 2019
Lillian Zhang was selected as a co-recipient of the 2019 Randolph G. Wei UROP Award for her outstanding work “at the interface of the life sciences and engineering.”
ISMB Best Oral Presentation Award
Hyunghoon Cho receives "Best Oral Presentation Award" at ISMB 2018 TransMed Track
Ariya receives Best Student Paper Award at RECOMB 2018
Ariya Shajii's paper received Best Student Paper Award at RECOMB 2018. This paper has been accepted to Cell Systems.
iFold_1 wins CASP 12 PCP - December 2016
The deep learning algorithm by Team iFold_1 ranked first place in protein contact prediction amongst all CASP12 participants, during a year where the CASP organizers deemed the improvement in contact prediction to be one of the four major advances in the 24 year history of CASP.
Y. Liu, P. Pameldo †, Q. Ye, B. Berger *, and J. Peng *. "Deep Learning Reveals Evolutionary Grammar of Interaction Motifs".
Nature News - August 15, 2016
Spiking genomic databases with misinformation could protect patient privacy - Paper in Cell Systems
MIT News - August 10, 2016
Protecting Privacy in Genomic Databases - Paper in Cell Systems
CACM Cover - August 2016
Computational Biology in the 21st Century: Scaling with Compressive Algorithms
ISMB Best Student Paper Award - July 2016
Yaron Orenstein's Paper Received Ian Lawson Van Toch Memorial Award for Outstanding Student Paper
William wins MIT Johnson Prize - May 2016
Yun William Yu awarded "MIT Charles W. and Jennifer C. Johnson Prize" for Cell Systems Paper
Yun William Yu, Noah M. Daniels, David C. Danko, & Bonnie Berger. "Entropy-scaling search of massive biological data." Cell systems (2015) 1(2): 130-140.
Nature Biotechnology Paper - April 2016
Compressive Mapping for Next-Generation Sequencing:
accurate multi-read mapping at orders of magnitude speedup
Data Science @ Stanford - March 2016
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