Research

Chicago Fellows: Current and Past Fellows

Appointed fellows

Emily Lau (Department of Ecology &Evolution) 

Education: PhD, UC Santa Barbara

Project: Molecular mechanisms underlying the evolution of bioluminescence in octocorals and brittle stars

Mentor: Joe Thornton

Pranav Vyas (Department of Molecular Genetics & Cell Biology) 

Education: PhD, Stanford

Project: Warming-up the Heart: Dissecting How Climate-Change Challenges Canalization of Organ Morphogenesis

Mentor: Noah Mitchell

Seongsoo Kim (Department of Molecular Genetics & Cell Biology) 

Education: PhD, Harvard

Project: Dynamic regulation of cell proliferation through mechanochemical feedback in epithelial colonies

Mentor: Margaret Gardel

Mariya Savinov (Department of Organismal Biology & Anatomy) 

Education: PhD, New York University

Project: Adaptive collective dynamics in embryos and biofilms: a biophysical modeling approach

Mentor: Ed Munro and Jasmine Nirody

CHICAGO FELLOWS:

Aleksandar Radakovic (Department of Ecology &Evolution) 

Education: PhD, Harvard University

Project: Reconstructing the evolution of the genetic code with ancestral aminoacyl-tRNA synthetase/tRNA pairs

Mentor: Joe Thornton and Arvind Murugan

Ethan Wold (Department of Molecular Genetics & Cell Biology) 

Education: PhD, Georgia Institute of Technology

Project: Evolution of novel musculature and locomotor behavior in larval Diptera

Mentor: Ellie Heckscher and Urs Schmidt-Ott

Luella Allen-Waller (Department of Ecology & Evolution) 

Education: PhD, University of Pennsylvania

Project: Deciphering endo-ectosymbiotic interactions in a changing ocean

Mentor: Cathy Pfister and Dakota McCoy

Ellen Lesser (Department of Molecular Genetics & Cell Biology) 

Education: PhD, University of Washington

Project: Error correction in a developing nervous system

Mentor: Robert Carrillo and Ellie Heckscher

Carla Hoge (Department of Human Genetics) 

Education: PhD, Columbia University

Project: Genetic connectivity on the Great Barrier Reef in the coral Acropora millepora

Mentor: John Novembre

DUCHOSSOIS FAMILY INSTITUTE (DFI) FELLOWS:

Sambhawa Priya (Department of Medicine) 

Education: PhD, University of Minnesota

Project: Deep learning-based integration of electronic health records with gut microbiome data for predictive healthcare

Mentor: Ran Blekhman

CHICAGO FELLOWS: 

Ondrej Maxian (Department of Molecular Genetics & Cell Biology) 

Education: PhD, New York University  

Project: Modeling how feedback between mechanics and biochemistry yields robust cell polarization

Mentor: Ed Munro

Elyse Parker (Department of Organismal Biology & Anatomy) 

Education: PhD, Yale University

Project: The evolution of form and function in the skull of Antarctic notothenioid fishes

Mentor: Mark Westneat

Jingwen Si (Departments of Chemistry and Radiation & Cellular Oncology) 

Education: PhD, Tsinghua University  

Project: Modulating m6A regulators to improve CAR-NK-based therapies

Mentors: Chuan He, Ralph Weichselbaum

Matteo Fabbri (Department of Organismal Biology & Anatomy) 

Education: PhD, Yale University

Project: Development, Function, and Morphological Integration of the Cranium at the Origin of Tetrapods

Mentor: Neil Shubin

Yuhang Fan (Department of Chemistry) 

Education: PhD, Stanford University

Project: Spatial m6A sequencing

Mentor: Chuan He

Sarah Paramore (Departments of Molecular Genetics & Cell Biology and Organismal Biology & Anatomy)

Education: PhD, Princeton University

Project: Deciphering how directional cues are relayed into collective cell migration

Mentor: Sally Horne-Badovinac and Vicky Prince

 

DUCHOSSOIS FAMILY INSTITUTE (DFI) FELLOWS:

Bum-Joon Jung (Department of Medicine and Pritzker School of Molecular Engineering)

Education: PhD, Korea Advanced Institute of Science & Technology (KAIST)

Project: Inertial Microfluidic Cell Smasher (iMCS): Development of a high throughput on-chip cell lysis platform

Mentors: Oni Basu, Supratik Guha

Natalia Cortes-Delgado (Department of Ecology & Evolution)

Education: PhD, University of Illinois at Chicago

Project: Implications of demographic characteristics for the composition and function of bat gut microbiome following virus infection

Mentor: Cara Brook

CHICAGO FELLOWS: 

Francisco Henao Diaz (Department of Ecology & Evolution) 

Education: PhD, The University of British Columbia   

Project: The biogeography of extinction rates through time, untangling the effect of geographic range on extinction risk.

Mentor: Trevor Price

Bei Liu (Departments of Chemistry, and of Biochemistry & Molecular Biology) 

Education: PhD, Duke University   

Project: Transcriptome-wide mapping of snoRNA targets.

Mentors: Chuan He & Tao Pan

Román Ramos Báez (Departments of Ecology & Evolution, and of Human Genetics)

Education: PhD, University of Washington

Project: A response from scratch: inferring the evolutionary origins of the auxin signaling pathway.

Mentor: Joseph Thornton

Madeline Rollins (Departments of Biochemistry & Molecular Biology, and of Molecular Genetics & Cell Biology) 

Education: PhD, Northwestern University   

Project: Structure and function of the multipass translocon in native membranes by electron cryotomography.

Mentors: Robert Keenan & Jotham Austin

Giacomo Valle (Department of Organismal Biology & Anatomy)

Education: PhD, Sant’Anna School of Advanced Studies Pisa

Project: A brain-computer interface that restores naturalistic touch sensations via microstimulation of somatosensory cortex.

Mentor: Sliman Bensmaia

 

DUCHOSSOIS FAMILY INSTITUTE (DFI) FELLOW:

Deepti Sharan (Department of Microbiology)

Education: PhD, Indian Institute of Science, Bangalore, India

Project: Identifying essential colonization factors for anti-inflammatory Clostridial members of the gut microbiota.

Mentors: Samuel Light

CHICAGO FELLOWS: 

Shiri Kult (Department of Organismal Biology & Anatomy)

Education: PhD, Weizmann Institute of Science, Israel

Project: Studying Respiratory System Regeneration Using Evolutionary and Developmental Approaches.

Mentor: Neil Shubin

Rachel Moran (Department of Ecology and Evolution) 

Education: PhD, University of Illinois at Urbana-Champaign   

Project: Evolutionary Mechanisms Driving Species Discrimination.

Mentor: Marcus Kronforst

 

DUCHOSSOIS FAMILY INSTITUTE (DFI) FELLOW:

Helen A. Beilinson (Microbiology)

Education: PhD, Yale University

Project: Role of Innate and Adaptive Immune Mechanisms in Shaping Intestinal Microbiota.

Mentors: Tatyana Golovkina and Alexander Chervonsky

CHICAGO FELLOW:

Isabelle Stewart (Medicine) 

Education: PhD, University of Oxford, United Kingdom  

Project: Germinal Center Blessing, the Antidote to Original Antigenic Sin.

Mentor: Patrick Wilson

 

DUCHOSSOIS FAMILY INSTITUTE (DFI) FELLOW:

Aliia Fatkhullina (Pathology)

Education: PhD, Fox Chase Cancer Center (Philadelphia, USA) /Kazan Federal University (Kazan, Russia)

Project: The Role of Lymph Node Macrophages in Sensing the Local Gut Milieu.

Mentor: Daria Esterházy

CHICAGO FELLOWS:

Meredith Doellman (Ecology and Evolution) 

Education: PhD, University of Notre Dame 

Project: Population and functional genomics of color pattern polymorphism in swallowtail butterflies.

Mentor: Marcus Kronforst

Mashaal Sohail (Human Genetics)

Education: PhD, Harvard University 

Project: Harnessing local ancestry inference to characterize complex trait variation in admixed humans using large-scale genomic biobanks.

Mentor: John Novembre

 

DUCHOSSOIS FAMILY INSTITUTE (DFI) FELLOWS:

Raul Aguirre-Gamboa (Medicine)

Education: PhD, Harvard University 

Project: Immuno-pharmacogenomics to understand and predict response to biologics in Crohn’s disease.

Mentor: Luis Barreiro

Pingping Zhu (Chemistry)

Education: PhD, Chinese Academy of Sciences 

Project: m6A in Treg cells modulates the interaction of T-cells and microbiome to impact colitis.

Mentor: Chuan He

Tetsuto Miyashita (Organismal Biology and Anatomy)

Education: PhD, The University of Alberta, Canada

Project: Evolutionary assembly of the vertebrate body plan at the head-trunk interface

Mentor: Mike Coates

Kenneth Lattimer (Neurobiology)

Education: PhD, The University of Washington, U.S.A

Project: Neural dynamics of learning and decision making in nonhuman primates

Mentor: David Freedman

Seth Donoughe (Molecular Genetics and Cell Biology)

Education: PhD, Harvard University.

Project: How do cell movements affect the polarity of the cell

Mentor: Ed Monro and Sally Horne-Badovinac

Daniel P. Rice (Organismic and Evolutionary Biology)

Education: PhD, Harvard University, U.S.A

Project: Developing methods to distinguish among coalescent models and their application to population genomic data for a variety of species

Mentor: John Novembre

Huiqing Zhou (Structural Biology)

Education: PhD, Duke University U.S.A

Project: Occurrence and Regulation of N1 -methyladenosine in the Transcriptome

Mentor: Chuan He

Navid Bavi (Biophysics)

Education: PhD, The University of New South Wales, Australia.

Project: Molecular identification of mechanosensitive ion channels in proprioceptive neurons

Mentor: Eduardo Perozo

Simone Kristina Feurstein (Translational Stem Cell Biology)

Education: MD, PhD, University Hospital Hannover, Germany

Project: Mesenchymal stem cells with germline mutations in leukemia predisposing genes: Impact on the hematopoietic stem cell niche

Mentor: Lucy Godley

Georg Hochberg (Biophysics and Evolutionary Biology)

Education: PhD Pembroke College, Oxford University

Project:Evolution of oligomeric specificity in steroid hormone receptors

Mentor: Joe Thornton

Nitobe London (Cell Biology)

Education: PhD University of Washington

Project: Centralspindlin-mediated RhoA signaling in cytokinesis

Mentor: Michael Glotzer

Nicolaus Schmandt (Membrane Biophysics)

Education: PhD, Case Western Reserve University

Project: Discovery of the MT channel responsible for nematocytes function

Mentor: Eduardo Perozo

Lulu Hu (Structural Biology)

Education: PhD in Structural Biology from Fudan University

Project: Impact of 5hmC and potential demethylation on hematopoietic stem cell survival and proliferation in association with leukemogenesis

Mentors: Chuan He, Department of Biochemistry and Molecular Biology and Chemistry and Lucy Godley, Department of Medicine

Yuko Kimura (Genetics)

Education: PhD in Chemistry and Biotechnology from the University of Tokyo

Project: Regulation of transcription factor binding dynamics

Mentor: Alex Ruthenburg, Department of Molecular Genetics & Cell Biology

Donglei Zhang (Molecular Biology)

Education: PhD in Genetics from Rutgers University

Project: Molecular mechanism of cytokinesis

Mentor: Michael Glotzer, Department of Molecular Genetics and Cell Biology

Guillaume Lambert (Cell Biology)

Education: PhD in Physics from Princeton University

Project: Quantifying the robustness of circadian rhythms at the single-cell and single-molecule levels

Mentor: Michael Rust, Department of Molecular Genetics and Cell Biology

Daniel Little (Neurobiology)

Education: PhD in Molecular and Cell Biology from University of California Berkeley

Project: Role of the thalamus in visual cortex function and interactions between different classes of glutamatergic input

Mentor: S. Murray Sherman, Department of Neurobiology

Claire Atkinson (Cell Biology)

Education: PhD in Cellular Biophysics from Rockefeller University

Project: Global analysis of the Bag6 interactome

Mentor: Robert Keenan and Tao Pan, Department of Biochemistry and Molecular Biology

Daniel Matute (Evolutionary Genetics)

Education: PhD in Ecology and Evolution from the University of Chicago

Project: Genetics of Drosophila speciation

Mentor: Molly Przeworski, Departments of Human Genetics and Ecology and Evolution

Jackie Gavin-Smyth (Evolutionary Genetics)

Education: PhD in Molecular Genetics and Cell Biology from University of Chicago

Project: Divergence between Drosophila species in the genetic regulation and subsequent patterning of the early embryo

Mentor: Martin Kreitman and John Reinitz, Department of Ecology and Evolution

 

Dai Shizuka (Evolutionary Biology)

Education: PhD in Ecology and Evolutionary Biology from the University of CA, Santa Cruz

Project: The evolution of learning and the process of speciation

Mentor: Trevor Price, Department of Ecology and Evolution

Jenny Tung (Evolutionary and Behavioral Genetics)

Education: PhD in Biology from Duke University

Project: Mechanisms underlying the effects of early-life environments on adult phenotypes

Mentor: Yoav Gilad, Department of Human Genetics

Marc Parisien (Systems Biology)

Education: PhD in Computer Science from the University of Montreal

Project: Systematic prediction and validation of protein-RNA interactome on the genomic scale

Mentors: Tobin Sosnick and Tao Pan, Department of Biochemistry and Molecular Biology         

Roger Pique-Regi (Computational Statistics, Genetics & Genomics)

Education: PhD in Electrical Engineering from the University of Southern California

Project: Statistical methods for finding sequence features affecting gene expression

Mentor: Jonathan Pritchard, Department of Human Genetics         

Huiping Liu (Cancer Stem Cell Biology)

Education: PhD in Biomedical Sciences (Pathology) from the University of Chicago

Postdoctoral Fellow in Cancer Stem Cell Biology at Stanford University

Project: Functions of microRNAs in metastatic breast tumor initiating cells

Mentors: Geoffrey Greene and Kay Macleod, Ben May Department for Cancer Research