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Last updated on 2023-10-06.

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Erik Amézquita

I have interdisciplinary experience working in coding and data analysis reseach projects with plant biologists, archaeologists, and astronomers.

Career and Education

PFFIE Postdoctoral Future Faculty Fellow

University of Missouri

Columbia, MO

present - 2023

  • Joint appointment between the Division of Plant Sciences & Technology (80%) and the Department of Mathematics (20%)

PhD, Computational Mathematics, Science & Engineering

Michigan State University

East Lansing, MI

2023 - 2018

B.S., Mathematics

Universidad de Guanajuato

Guanajuato, Gto.

2018 - 2013

Peer-reviewed work

Genomics data analysis via spectral shape and topology

E.J. Amézquita, F. Nasrin, K.M. Storey, M. Yoshizawa

N/A

2023

A critical analysis of plant science literature reveals ongoing inequities

R.A. Marks, E.J. Amézquita, S. Percival, A. Rougon-Cardoso, C. Chibici-Revneanu, S.M. Tebele, J.M. Farrant, R. VanBuren, D.H. Chitwood

N/A

2023

The shape of aroma: measuring and modeling citrus oil gland distribution

E.J. Amézquita, M.Y. Quigley, T. Ophelders, D. Seymour, E. Munch, D. H. Chitwood

N/A

2023

Teaching Tools in Plant Biology. Plants and Python, Coding from Scratch in the Plant Sciences

R. VanBuren, A. Rougon-Cardoso, E.J. Amézquita, E. Coss-Navarrete, A. Espinosa-Jaime, O. Gonzalez-Iturbe, A. Luckie-Duque, E. Mendoza-Galindo, J. Pardo, G. Rodríguez-Guerrero, P. Rosiles-Loeza, M. Vásquez-Cruz, S. Fernandez-Valverde, T. Hernandez-Hernandez, S. Palande, and D.H. Chitwood

N/A

2022

Measuring hidden phenotype: Quantifying the shape of barley seeds using the Euler Characteristic Transform

E.J. Amézquita, M.Y. Quigley, T. Ophelders, J.B. Landis, D. Koenig, E. Munch, D. H. Chitwood

N/A

2021

The shape of things to come: Topological data analysis and biology, from molecules to organisms

E.J. Amézquita, M.Y. Quigley, T. Ophelders, E. Munch, D.H. Chitwood

N/A

2020

Non peer-reviewed work

The shape and volume of air, kernels, and cracks, in a nutshell

E.J. Amézquita, M.Y. Quigley, P.J. Brown, E. Munch, D.H. Chitwood

N/A

2023

Describing Demeter

E.J. Amézquita

N/A

2022

  • Athens Science Observer. February 2022. Zine #3: Plant Phenotyping Edition. Link.

Midiendo el fenotipo oculto con técnicas matemáticas novedosas

E.J. Amézquita. Edited by R. Shekar

N/A

2021

  • Botany One. Blog entry. Link

Teaching and Mentoring Experience

Experience at Michigan State University

  • Mentor for the ACRES REU. Conducted weekly professional development workshops and weekly social events for an undergraduate audience. Summer 2022.
  • TA for CMSE 201: Intro to Computational Modelling and Data Analysis. Fall 2019

N/A

Audience was mainly undergraduate students with no prior coding experience

2022 - 2019

Teaching Assistant at other institutions in the US

  • SGI 2022. Summer Geometry Initiative REU. Massachusetts Institute of Technology.
  • SGI 2021. Summer Geometry Institute REU. Massachusetts Institute of Technology.
  • Code In Place. Stanford University.

N/A

Conducted virtually

2022 - 2021

Teaching Assistant at CIMAT/Universidad de Guanajuato

  • Precalculus and analytic geometry. Spring 2018
  • Topology I (Intro to point-set topology). Fall 2017
  • 14th Calculus Problem-solving Workshop. Summer 2017
  • Introduction to C++ and data structures (Online). Summer 2017
  • Introduction to probability. Fall 2016

N/A

Some courses involved leading tutorials on C++ or R

2018 - 2016

Invited talks

Mapper and the topological shape of genomic analysis

MU-GNU International Symposium in Plant Biotechnology. Bond LSC. Columbia, MO.

N/A

2023

A primer on Topological Data Analysis

Geometry and Topology Seminar. Department of Mathematics. University of Missouri. Columbia, MO

N/A

2023

Exploring the mathematical shape of plants

CS Colloquium. Department of Computer Science. Saint Louis University. St. Louis, MO

N/A

2023

When topology meets plant morphology

USTARS 2023. Underrepresented Students in Topology and Algebra Research Symposium, Seattle

N/A

2023

The mathematical shape of plants

Plant Sciences Seminar. Department of Botany and Plant Sciences. University of California, Riverside

N/A

2023

Measuring the shape of plants and nuts using topological data analysis

JMM 2023. Joint Mathematics Meeting. American Mathematical Society. Boston, MA.

N/A

2023

Using the Euler characteristic to quantify the shape of barley seeds

OU Topology and Data Science Seminar. Department of Math. University of Oklahoma. Virtual

N/A

2022

Bridging applied topology and plant biology

JMM 2022. Joint Mathematics Meeting. American Mathematical Society

N/A

2022

Measuring the shape of plants with the Euler Characteristic Transform

UFTDA 2022. University of Florida Topological Data Analysis Conference. Gainesville, FL

N/A

2022

Analyzing maize leaf angles and modeling leaf curvature

2021 NAPPN. North American Plant Phenotyping Network. Virtual

N/A

2021

Efficient object classification using the Euler characteristic

II Coloquio de Desarrollo Tecnológico al Servicio del Patrimonio Cultural. Guanajuato. Gto.

N/A

2018

Selected workshops lead

The shape of things: Measuring the shape of plants with Topological Data Analysis

2022 NAPPN. North American Plant Phenotyping Network. Athens, GA. Check material.

N/A

2022

Using the Euler characteristic to quantify the shape in biology

2021 AATRN Tutorial-a-thon. Applied Algebraic Topology Research Network. Watch video.

N/A

2021

Measuring the shape of plants with Topological Data Analysis

2021 NAPPN. North American Plant Phenotyping Network. Check material.

N/A

2021

Selected posters presented

The shape and size of shells, kernels, and cracks, in a nutshell

CAFNR Research Symposium. University of Missouri. Columbia, MO

N/A

2023

Using topology to analyze the shape of plants

IPPS2022. International Plant Phenotyping Symposium. Wageningen, The Netherlands

N/A

2022

Modeling the shape of citrus and their oil gland distribution

OSU PSS. The Ohio State University Plant Sciences Symposium. Virtual

N/A

2022

Object classification using the Euler characteristic

Barrett Memorial Lectures. Math Department. University of Tennessee. Knoxville, TN

N/A

2017

Bridging mathematics and archaeology

3a Escuela de Análisis Topológico de Datos y Topología Estocástica. ABACUS. CINVESTAV. Edo Mex

N/A

2017

Selected workshops and hackathons attended

Beyond Abstract Measures: geometry and computation

Organized by the Lorentz Center, Leiden, The Netherlands

N/A

2022

Datathon4Justice

D4J. Organized by QSIDE. Institute for Quantitative Study of Inclusion, Diversity, and Equity. Virtual

N/A

2021

Immersive Visualization Institute

IVI2021. Abrams Planetarium, MSU Libraries, and MSU Museum. East Lansing. MI

N/A

2021

Outreach

If life gives you lemons, analyze the shape of their aroma

Science on Tap. International Tap House. Columbia, MO

N/A

2023

Mental Health in Mathematics and Computer Science

Panel organizer and moderator. SGI23. Massachussets Institute of Technology. Virtual

N/A

2023

Webinar de Solicitudes al Doctorado en Estados Unidos

Panelist. Organized by the Coloquio de Exestudiantes CIMAT/DEMAT. Virtual

N/A

2022

Mental Health in Mathematics and Computer Science

Panel organizer and moderator. SGI22. Massachussets Institute of Technology. Virtual

N/A

2022

A topologist and a plant biologist go for a newly shaped beer

Hispanics in STEM celebration. WaMPS. Michigan State University. East Lansing, MI

N/A

2021

Using topology to quantify the shape of barley

Summer Math Academy. Math Department. University of Toronto. Virtual

N/A

2020

Wrangling and Presenting Data with Pandas and Seaborn in Python

Social Science Data Analytics Initiative. Michigan State University. Virtual

N/A

2020

Narrating our data with RMarkdown

Social Science Data Analytics Initiative. Michigan State University. Virtual

N/A

2020

La maldición de la dimensión y aprendizaje de máquina

Ciencia es Cultura. Dirección de Extensión Cultural. UGto. San Luis, Gto.

N/A

2018

Un matemático y un psicólogo se hallan en Hanoi

Ciencia es Cultura. Dirección de Extensión Cultural. UGto. Guanajuato, Gto.

N/A

2017

Infinitos grandes e infinitos pequeños

Ciencia es Cultura. Dirección de Extensión Cultural. UGto. San Miguel Allende, Gto.

N/A

2016

Select Service

President of the CMSE Graduate Student Organization

CMSE and the Council of Graduate Students

N/A

2022 - 2021

  • Lead department-wide events, committees, and inquiries to attend graduate students’ needs

Student Representative

College of Natural and Exact Sciences Council. Universidad de Guanajuato.

N/A

2017 - 2016

  • Logged each session minutes, such as budget or policy, and shared them with the math students.

High School Mathematics Seminar Co-Organizer

Escuela de Nivel Medio Superior, Guanajuato. Guanajuato.

N/A

2016 - 2015

  • Delivered lectures on math topics usually not covered at high school levels, such as combinatorics or group theory.

Tutor of the Guatemalan Math Olympiad Team

Math Olympiad National Team. Guatemala.

N/A

2013 - 2012

  • Successfully lobbied the Guatemalan Department of Education to obtain funding for 3 students to participate in the 15th Central American and Caribbean Math Olympiad.

Awards

Distinguished Graduate Student. Travel Grant (US$700)

USTARS 2023. Underrepresented Students in Topology and Algebra Research Symposium.

N/A

2023

Best Poster Award. 3rd Place out of 173 posters.

IPPS2022. International Plant Phenotyping Symposium. Wageningen, The Netherlands

N/A

2022

Travel Grant (EUR 2000)

IPPS2022. International Plant Phenotyping Symposium. Wageningen, The Netherlands

N/A

2022

Fitch H. Beach Award

College of Engineering. Michigan State University

N/A

2022

  • 2nd place. Most outstanding graduate research within the College of Engineering.

Travel Grant (US$800)

2022 NAPPN. North American Plant Phenotyping Network. Athens, GA

N/A

2022

Travel Grant (US$800)

Applied Mathematical Modeling with Topological Techniques. ICERM. Providence, RI

N/A

2019

IMPACTS Fellowship

Awarded jointly by Michigan State University and the NRT-NSF program (NSF DGE-1828149).

N/A

2019

Sotero Prieto Medal

Sociedad Mexicana de Matemáticas

N/A

2018

  • Best undergrad math thesis produced in Mexico during the 2017-18 academic year.

Francisco Aranda Ordaz Award

Asociación Mexicana de Estadística

N/A

2018

  • 3rd place. Best undergrad statistics theses produced in Mexico during the 2016-18 academic years.

Raymond P. and Marie M. Ginther Graduate Fellowship

Awarded by CMSE to outstanding incoming graduate students.

N/A

2018

CIMAT Academic Excellence Scholarship

Merit-based scholarship for math undergraduates.

N/A

2018 - 2013

Best Undergraduate Mathematics, Physics and Earth Sciences Innovation Research Project.

4to Congreso Interinstitucional de Jóvenes Investigadores. 3rd Place. Nationwide event.

N/A

2017

Best Undergraduate Engineering Research Project

5to Encuentro de Jóvenes Investigadores. 1st Place. Statewide event

N/A

2017