2021 Summer REU Program

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Group photo of REU students exploring Columbus
June 7 - August 6, 2021
8:00AM - 5:00PM
Location
Virtual Event for MBI Summer REU Students

Date Range
Add to Calendar 2021-06-07 08:00:00 2021-08-06 17:00:00 2021 Summer REU Program MBI administers a multi-institution summer REU (Research Experiences for Undergraduates) program in the mathematical biosciences each year. The objectives of the program are: (1) to introduce a diverse cohort of undergraduate students to the mathematical biosciences, broadly interpreted to include areas such as biostatistics, bioinformatics, and computational biology, in addition to biologically-inspired mathematical modeling; (2) to encourage students to pursue graduate study in the mathematical biosciences; and (3) to increase the number of students who enter the workforce with training in this field. REU participants work on projects in areas such as molecular evolution, neuronal oscillatory patterning, cancer genetics, epidemics and vaccination strategies, and animal movement.  Participants work individually or in pairs under the guidance of expert mentors to make specific research contributions in these areas, often leading to a peer-reviewed publication and conference presentations. The REU program incorporates various professional and research-skills development activities throughout the summer to help ensure the participants’ success in completing their summer project and to prepare them for graduate study or entering the workforce. Virtual Event for MBI Summer REU Students Mathematical Biosciences Institute mbi-webmaster@osu.edu America/New_York public
Description

MBI administers a multi-institution summer REU (Research Experiences for Undergraduates) program in the mathematical biosciences each year. The objectives of the program are: (1) to introduce a diverse cohort of undergraduate students to the mathematical biosciences, broadly interpreted to include areas such as biostatistics, bioinformatics, and computational biology, in addition to biologically-inspired mathematical modeling; (2) to encourage students to pursue graduate study in the mathematical biosciences; and (3) to increase the number of students who enter the workforce with training in this field.

REU participants work on projects in areas such as molecular evolution, neuronal oscillatory patterning, cancer genetics, epidemics and vaccination strategies, and animal movement.  Participants work individually or in pairs under the guidance of expert mentors to make specific research contributions in these areas, often leading to a peer-reviewed publication and conference presentations. The REU program incorporates various professional and research-skills development activities throughout the summer to help ensure the participants’ success in completing their summer project and to prepare them for graduate study or entering the workforce.

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Due to the ongoing COVID-19 Pandemic, the 2021 Summer REU Program is being administered in a virtual environment.

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This year's virtual program consists of three parts:

  • Mathematical Biosciences Bootcamp (June 7th - 11th, 2021) 

Participants are introduced to their projects and various areas of the mathematical biosciences via virtual talks. Participants familiarize themselves with their projects and present on their topics and the approaches they expect to take.

  • Mentored Research Experience (June 14th - July 30th, 2021)           

Participants complete a mentored research project individually or in pairs working virtually with their project mentors. Participants also attend a weekly online seminar series and virtual all-program meeting.                                      

  • Capstone Week (August 3rd - 4th, 2021)                                                               

A virtual wrap-up week featuring student talks, keynote talks by prominent mathematical and biological scientists, and Q&A panels.

 

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The MBI Summer REU Program uses the REU Common Application system. MBI is participating in the REU Common Reply Date, meaning that we will not require applicants to accept or decline an offer to participate until March 8 or later.

Applications for the 2021 Summer REU Program will open soon. Please visit https://www.nsfetap.org/programs/reu to apply

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Project Descriptions

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Title: Long-term consequences of repeated collective decision-making cycles on population stability

Mentors:  Dr. Jason Graham, Scranton University, and Dr. Simon Garnier, NJIT

Recent events have highlighted the destructive role of unmoderated social interactions and false information on the stability of human groups. Indeed, while social influences can improve the outcome of a collective decision-making process, they also have a non-zero chance to trigger cascades of wrong decisions through, for instance, groupthink. Even in stable social groups, the likelihood of such catastrophic cascades can be increased when the population goes through repeated cycles of collective decision-making. Through computer and mathematical modeling, this project will investigate how social interactions and individual decision accuracy affect the long-term fate of populations during repeated episodes of collective decision-making. We will explore how populations grow or shrink after multiple episodes of collective decision-making when the individual decision-making accuracy of its members and their reliance on social information changes. Finally, we will attempt to determine whether there exists an optimal balance between personal and social information that minimizes the risk of catastrophic cascades while maximizing the long-term collective output of the population.


Title: Modeling and simulation of the motion of zebra larval fish

Mentors: Enkeleida Lushi, NJIT and Kristen Severi, NJIT

These millimeter-long swimmers display complex behavior as they move in water. It is influenced by the mechanical and social interactions with other larval fish, the presence of interfaces, and any introduction of light or food. These various mechanisms can result in intricate collective motion, especially in the presence of walls. Inspired by the experimental observations in the laboratory, the students will devise a mathematical model consisting of coupled ordinary differential equations describing the swimmer motion and orientation and any interactions. They will implement the equations into a computer simulation and compare the results to the experimental observations. The students will learn mathematical modeling as well as numerical methods for simulations using softwares like Matlab or Python.

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Title: Modeling the effects of behavior in epidemics

Mentor: Dr. Matthew Wascher, OSU and Olivia Cleymaet, OSU

The COVID-19 epidemic in the US has gone through multiple waves, with multiple peaks of high infection as well as periods of lower infection. However, traditional mathematical models of epidemics are often designed to model an epidemic curve that increases to a single peak before decreasing and dying out or reaching a low endemic state. Why is the COVID-19 curve so different? One possible explanation is that it has been affected by behavior, both of individuals and groups, such as self-isolation, government shutdowns, and travel. This project aims to explore how mathematical models that attempt to model these behaviors might be able to model epidemics with features like multiple peaks, oscillations, and plateaus that we have observed with COVID-19. You will work with agent-based models (models that model each individual) and explore how different behaviors by individuals can affect the course of an epidemic. A basic understanding of probability and basic computing skills will be helpful in working on this project.


Title: Analyzing COVID-19 transmission in Ohio

Mentors: Dr. Greg Rempala, OSU and Dr. Eben Kenah, OSU

In their most recent work, Drs. Rempala and Kenah are developing new ways to analyze and predict disease transmission. The summer research project will involve analyzing data from the current Covid 19 outbreak in Ohio using concepts from survival analysis and epidemic modeling. Basic knowledge of statistical concepts and the programming language R are a plus but not strictly necessary as appropriate training will be provided.


Title: Untangling the web of life: phylogenetic networks and their normalization

Mentors: Dr. Kristina Wicke, OSU and Dr. Laura Kubatko, OSU

Traditionally, the evolutionary relationships among species were represented by phylogenetic trees. However, it is now commonly accepted that evolution is not always tree-like, and phylogenetic networks have been introduced as a generalization of phylogenetic trees. They allow for the representation of reticulate evolutionary events such as hybridization and horizontal gene transfer. Reconstructing phylogenetic networks from biological data (e.g., DNA sequences) is one of the most active areas of research in mathematical biology, but the reconstructed networks are often very complex and tangled, making them hard to interpret biologically. It was thus recently suggested to transform a phylogenetic network into a simpler graphical structure that summarizes the network’s most important features and evolutionary information. This is called the “normalization” of a network. In this project, we will explore mathematical and biological properties of the normalization of phylogenetic networks. Specifically, we will consider the following problem: given a normalization , can we characterize the networks that normalize to  (currently an open question in the literature)? We will also study the normalization of phylogenetic networks reconstructed from empirical data and analyze their characteristics.

Reference:

A. Francis, D. H. Huson, and Mike Steel. Normalising phylogenetic networks. arXiv e-prints, art 2008.07797, Aug 2020.

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Bootcamp Schedule and Weekly Meetings

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Time Session
11:00 AM
11:30 AM
Participant Introductions
11:30 AM
12:00 PM
Introduction to the REU program
12:00 PM
12:30 PM
Mentor talk group 1: Dr. Jason Graham, Scranton University, and Dr. Simon Garnier, NJIT
12:30 PM
1:00 PM
Mentor talk group 3: Dr. Greg Rempala, OSU and Dr. Eben Kenah, OSU
1:00 PM Questions and Discussion
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Time Session
11:00 AM
11:30 AM
Mentor talk group 2: Dr. Matthew Wascher, OSU and Olivia Cleymaet, OSU
11:30 AM
12:00 PM
Mentor talk group 4: Dr. Kristina Wicke, OSU and Dr. Laura Kubatko, OSU
12:00 PM
12:30 PM
Mentor talk group 5: Dr. Enkeleida Lushi, NJIT and Dr. Kristen Severi, NJIT
12:30 PM Questions, Discussion, and Charge for the Week
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Time Session
11:00 AM
11:15 AM
Group 1 Presentation
11:15 AM
11:30 AM
Group 2 Presentation

11:30 AM
11:45 AM

Group 3 Presentation
11:45 AM
12:00 PM
Group 4 Presentation
12:00 PM
12:15 PM
Group 5 Presentation
12:15 PM Questions, Discussion, and Schedule for the next week
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Time

Session
12:00 PM
01:00 PM
Group Reports (~10 Minutes Each)
01:00 PM
2:00 PM
Guest Speaker (~30 Minute Talk + 30 Minutes for Q&A)

 

 

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Schedule of presentations for the MBI REU weekly seminar:

June 17 - Dr. Rebecca Garabed, Dept. of Veterinary Preventive Medicine, Ohio State University

June 24 - Dr. Alexandria Volkening, NSF-Simons Center for Quantitative Biology, Northwestern University

​​​​​​​July 1 - Dr. Oksana Chkrebtii, Dept. of Statistics, Ohio State University

​​​​​​​July 8 - Dr. Punit Gandhi, Dept. of Mathematics and Applied Mathematics, VCU

July 15 - Dr. Julia Aciero, Dept. of Mathematical Sciences, IUPUI

July 22 - Dr. Scott McKinley, Dept. of Mathematics, Tulane University

July 29 - Dr. Ian Hamilton, Evolution, Ecology and Organismal Biology/Mathematics, Ohio State University

 

 

 

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Capstone Schedule (Aug. 3-4)

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Time Session
11:00 AM
11:45 AM

Keynote Talk: Dr. Bittany Stephenson, Lewis University

"Comparing the impact of control strategies on mathematical models of Clostridioides difficile transmission"

12:00 PM
12:45 PM
Grad Program Panel - Featuring: Sebastian Kurtek (Department of Statistics, The Ohio State University), Fabio Milner (Mathematics and Statistical Sciences, Arizona State Univ.), and Maria Emelianenko (Dept. of Mathematical Sciences, George Mason University)
01:00 PM
01:40 PM
Student Talk Group 5 (Jacob Stump and Jane Siwek): Modeling and simulation of the motion of zebra larval fish
01:40 PM
2:20 PM
Student Talk Group 2 (Jackson Chapin and Benjamin Klahr): Modeling the effects of behavior in epidemics
02:20 PM
3:00 PM
Student Talk Group 3 (Tyler Cook and Emily Kinney): Analyzing COVID-19 transmission in Ohio
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Time Session
11:00 AM
11:45 AM
Career Panel - Featuring:  Dan Dougherty (Amyris, Inc.), Farrah Sadre-Marandi (qPharmetra), and Karly Jacobsen (NLP Logix)
12:00 PM
01:25 PM
Panel: What is Grad School Like? - Featuring:  Nikki Schnitzler (OSU, Statistics), Charles Ingulli (American University, Mathematics), Greg Hawk (University of Kentucky, Statistics), Nik Henderson (OSU, Mathematics) 
01:30 PM
02:10 PM
Student Talk Group 4 (Selin Kubali and Purva Shenoy): Untangling the web of life: phylogenetic networks and their normalization
02:10 PM
02:50 PM
Student Talk Group 1 (James Wolfe and Madisson Russell): Long-term consequences of repeated collective decision-making cycles on population stability
02:50 PM Wrap Up, Group Photo
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Participants

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Name Affiliation
Jackson Chapin Catawba College
Tyler Cook Colorado School of Mines
Emily Kinney Marrieta College
Benjamin Klahr Haverford University
Selin Kubali Smith College
Madisson Ann Russell Austin Peay
Purva Shenoy  Stony Brook University
Jane Siwek William and Mary
Jacob Stump University of Cincinnati
James Wolf Harvard University
Media
National Science Foundation Logo
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This program is supported by the National Science Foundation Division of Mathematical Sciences (DMS) award number DMS-1757423.

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