Announcements

Where you see "[Link]" be sure to click on the announcement title to access any links provided within the post.

Will Raymond and Jaron Thompson begin Masters degree studies in the group.

The Lab is very excited to welcome Jaron Thompson and William Raymond to the group. Jaron is pursuing a M.S. Degree in Chemical and Biological Engineering, and he will be studying machine learning approaches to understand microbiom data. Will is pursuing a M.S. Degree in the School of Biomedical Engineering, and he will be creating new tools to analyze discrete stochastic models to understand, predict, and redesign single-cell experiments.

q-bio Textbook published by MIT Press.

The community-written q-bio Textbook has just been released by MIT Press. Quantitative Biology: Theory, Computational Methods, and Models, Edited by Brian Munsky, William S. Hlavacek and Lev S. Tsimring, MIT Press (2018). The textbook provides an introduction to the quantitative modeling of biological processes, presenting modeling approaches, methodology, practical algorithms, software tools, and examples of current research. Most chapters offer problems, progressing from simple to complex, that test the reader's mastery of such key techniques as deterministic and stochastic simulations and data analysis. Many chapters include snippets of code that can be used to recreate analyses and generate figures related to the text. Examples are presented in Matlab, R, and Python, and a variety of online resources supplement the the text. Congratulations to Zach, Fox, Lisa Weber, William Raymond and all the contributors for putting together this one-of-a-kind community resource! To learn more or to request an examination copy, please visit the book website on MIT Press at: https://mitpress.mit.edu/books/quantitative-biology

Zach and Huy are giving talks at the Annual SIAM meeting in Portland

Zach and Huy will have talks on their work for stochastic model inference and experiment design at the Annual Meeting for SIAM next week.  Congratulations to both for being selected for talks.

Model inference paper published at PNAS

The group just published our newest work on the identification of single-cell gene regulation models.  Please check it out at: B. Munsky, G. Li, Z. Fox, D. P Shepherd, G. Neuert, Distribution shapes govern the discovery of predictive models for gene regulation, Proceedings of the National Academy of Sciences USA, 201804060 (2018), online here

Lisa and Will’s paper published at Physical Biology

Congratulations to Lisa Weber and William Raymond for their article published int he q-bio Special Issue at Physical Biology.  Please read the article here: L Weber, W Raymond, B Munsky, Identification of Gene Regulation Models from Single-Cell Data, Physical Biology, 15:5 (2018). online here

Hossein Jashnsaz is visiting the group.

Hossein Jashnsaz (a postdoc in the Neuert lab at Vanderbilt) is visiting the Munsky group from September 24 through October 5.  Hossein is working with us on learning models to capture and predict MAPK signaling dynamics in yeast cells.

MIRA Grant.

The Munsky group has just been awarded a Maximizing Investigator Research Award (MIRA) grant by the NIGMS!

October 23-26, 2017

Brian will be visiting ETH in Basel Switzerland to give a research seminar.

July 3, 2017

Welcome to Huy Vo, the newest postdoc in the group!  Huy finished his Ph.D. in Mathematics at the University of Alabama.

April 21, 2017 [Link]

Our paper on the population-FSP has just been published online at Physical Biology. Please see the link here: R. Johnson and B. Munsky, The finite state projection approach to analyze dynamics of heterogeneous populations, Physical Biology

March 2, 2017

Zach Fox was selected as a CSU Vice President for Research Fellow for the 2017-2018 academic year. Congratulations Zach!

August 30, 2016 [Link]

Just announced. The Stasevich and Munsky labs have recently been awarded a W M Keck Foundation Medical Research Grant. Read more here!

August 19, 2016 [Link]

Congratulations to the students, lecturers and organizers of the 10th annual q-bio Summer School in Fort Collins Colorado. Read more about the program here

August 15, 2016 [Link]

Congratulations to Zach for his publication in J. Chemical Physics: Z. Fox, G. Neuert and B. Munsky, Finite state projection based bounds to compare chemical master equation models using single-cell data, Journal of Chemical Physics, 145:7, 074101 (2016), online here

November 15-20, 2015

Brian will present at the Institute for Mathematics and its Applications Workshop in Biological Systems and Networks at the University of Minnesota.

August 11, 2015

Welcome to Lisa Weber, who just joined the group as a PhD student in Chemical Engineering.

June 18, 2015 [Link]

Our paper From analog to digital models of gene regulation was published online in Physical Biology. Link to article

June 18, 2015 [Link]

Our paper Using noise to control heterogeneity of isogenic populations in homogenous environments was published online in Physical Biology. Congratulations to Paulina, Nicola, Johannes, and Mohammad for turning this qbSS project into a beautiful paper. Link to article

June 12, 2015 [Link]

Our paper Integrating single-molecule experiments and discrete stochastic models to understand heterogeneous gene transcription dynamics was published online in Elsevier Methods. Link to article

July 06-22, 2015 [Link]

The 9th Annual q-bio Summer School took place at CSU, Fort Collins, Colorado.