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Noah A Rosenberg
+1 650 721 2599 (office phone)
+1 650 724 5122 (lab phone)
+1 650 724 5114 (fax)
Mailing address
Department of Biology
Stanford University
371 Jane Stanford Way
Stanford, CA 94305-5020 USA
Last modified 6-5-2023 |
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| Postdocs | |
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Nicolas Alcala (Oct 2014 - Mar 2017). Nicolas completed his
M.Sc. in bioinformatics and modeling at the National Institute of Applied
Sciences in Lyon (2010), and his Ph.D. in ecology and evolution at the University
of Lausanne (2014). His work in the lab focused on properties of
FST and related statistics of population genetics, network
approaches in population genetics, conservation genetics, and Bayesian
modeling of population dynamics in a conservation setting. Nicolas's work
in the lab was supported by a fellowship from the Stanford Center for
Computational, Evolutionary, and Human Genomics and by an Early
Postdoc.Mobility Fellowship from the Swiss National Science
Foundation. After leaving the lab, Nicolas continued as a postdoc at the
International Agency for Research on Cancer, Lyon. |
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Bridget Algee-Hewitt (Sep 2013 - Jun 2018). Bridget completed her Ph.D. in
biological anthropology at the University of Tennessee (2011). She also
holds an M.A. in near eastern and classical archaeology from Bryn Mawr
College (2002). In the lab, Bridget's work focused on the intersection of
forensic genetics and population genetics. Bridget's work in the lab was
supported by a fellowship from the Stanford Center for Computational,
Evolutionary, and Human Genomics. After leaving the lab, Bridget joined
the Stanford Center for Comparative Studies in Race and Ethnicity as a
Senior Research Scientist.
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Lars Andersen (Sep 2012 - Aug 2013). Lars completed his B.S. in
statistics and mathematics (2004), M.Sc. in statistics (2007), and Ph.D. in
probability theory (2009), all at the University of Aarhus, where he
worked with Søren Asmussen, Asger Hobolth, and Thomas Mailund. In the lab,
Lars's research focused on stochastic processes for population genetics,
particularly on models of gene trees and species trees and on the
coalescent isolation-with-migration model and its applications. Lars's
work in the lab was supported by a fellowship from the Villum
Foundation. After leaving the lab, Lars joined the Department of
Mathematics at the University of Aarhus as Associate Professor.
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| | Airam Blancas (Jan 2019 - Jul 2020).
Airam completed her bachelor's degree in mathematics at the Universidad
Autónoma de Sinaloa and her M.S. and Ph.D. in probability and
statistics at CIMAT, Centro de Investigación de Matemáticas in
Guanajuato. She completed an initial postdoctoral experience at
Goethe-Universität Frankfurt. Her work in the lab considered problems
of coalescent processes, particularly in relation to gene trees and
species trees. After leaving the lab, Airam joined the faculty of the
Department of Statistics of the Instituto Technológico Autónomo de
México.
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Michael
Blum (Nov 2005 - Sep 2006). Michael received an M.Sc. in applied
mathematics from the University of Grenoble (2002) and a Ph.D. in applied
statistics from the Institut National Polytechnique de Grenoble (2005),
where he worked with Prof. Olivier Francois. In the lab, his research
interests focused on coalescent properties of ancestral lineages,
theoretical population genetics, and mathematical models for phylogenetic
tree balance. After leaving the lab, Michael began work as a CNRS
Associate Scientist in the TIMC-IMAG Laboratory, University of Grenoble.
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Erkan Buzbas (Jul 2009 - Aug
2012). Erkan received a B.S. in chemistry (2000) and M.S. in
Environmental Sciences (2003) from Bosphorus University, and an M.S. in
statistics (2007) and Ph.D. in bioinformatics and computational biology
(2009) from the University of Idaho, where he was a student with
Prof. Paul Joyce. His research interests in the lab focused on balancing
selection models, approximate Bayesian computation, and inference problems
in theoretical population genetics. After leaving the lab, Erkan joined
the Department of Statistical Science at the University of Idaho as
Assistant Professor.
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James Degnan (Jul 2007 - Sep 2008). James joined the lab after
receiving his B.A. in mathematics and philosophy and Ph.D. in mathematics
and statistics (2005) from the University of New Mexico, under the
supervision of Prof. Laura Salter Kubatko. In the lab, James's research
focused on the mathematics of discordance between gene trees and species
trees, species tree inference methods, and statistical methods in human
population genetics. After leaving the lab, James started a position as a
Lecturer in the Department of Mathematics and Statistics at the University
of Canterbury. He is now Associate Professor of Mathematics and Statistics
at the University of New Mexico (2019).
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Filippo Disanto (Nov 2013 - Feb 2017). Filippo completed his
M.Sc. degree in mathematics at the University of Siena and his Ph.D. in
theoretical computer science jointly between the University of Paris 7 and
the University of Siena. Filippo's research interests during his time in
the lab focused on combinatorial structures arising from consideration of
evolutionary trees. After leaving the lab, Filippo joined the Department
of Mathematics at the University of Pisa as a junior faculty member
and Rita Levi Montalcini Researcher.
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Gili Greenbaum
(Sep 2017 - Aug 2020). Gili completed his B.S. in mathematics
and philosophy at the Hebrew University of Jerusalem and his
M.S. and Ph.D. in population genetics at Ben Gurion
University. While in the lab, Gili focused on problems in
coalescent theory, conservation genetics, the intersection of
population genetics and network theory, and mathematical
models in population biology. Upon leaving the lab, he began
an assistant professorship in the Department of Ecology,
Evolution & Behavior of the Hebrew University of Jerusalem.
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Mattias
Jakobsson (Sep 2005 - Mar 2008). Mattias received his B.S. in
mathematics and biology and his Ph.D. in biology (2005) from Lund
University, under the supervision of Prof. Torbjorn Sall. In the lab,
Mattias's interests focused on human population genetics, methods for the
analysis of population structure, and theoretical properties of founder
events and bottlenecks. From 2007-2008, his work was supported by a
University of Michigan Center for Genetics in Health and Medicine
Postdoctoral Fellowship. After leaving the lab, Mattias joined the
Department of Evolutionary Biology at Uppsala University as Assistant
Professor. He is now Professor of Genetics at Uppsala (2016).
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Olga Kamneva (Jul 2013 - Jul 2016). Olga completed her Ph.D. in
molecular biology at the University of Wyoming (2013), where she also
received a minor in statistics. She had previously completed a diploma
degree in bioinformatics from Novosibirsk State University
(M.S. equivalent, 2007). Her Ph.D. work examined the origin of genes and
biological functions distinctive to a bacterial superphylum, and explored
the history of natural selection on these genes. In the lab, Olga's
interests focused on phylogenetics in settings with hybridization and on
prokaryote bioinformatics, particularly in relation to gene
interactions. During 2013-2014, her work was supported by a Stanford
Center for Computational, Evolutionary, and Human Genomics Postdoctoral
Fellowship. After leaving the lab, she joined Affymetrix, Inc. as a
Bioinformatics Scientist. |
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Jaehee Kim (Oct 2015 - Dec 2021). Jaehee completed her B.A. in
Physics and Mathematics at Columbia University, and her Ph.D. in Physics
at Stanford University. For her Ph.D. work, involving both experiment
and theory, she examined the dynamics of a light-induced isomerization
of an organic molecule. Jaehee's research interests in the lab spanned
many areas, including admixture, assortative mating, dynamical systems
in population genetics, forensic genetics, gene drives, statistical
methods for relatedness, and mathematical
phylogenetics. Upon leaving the lab, she joined the Department of
Computational Biology at Cornell University as an Assistant Professor.
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Jazlyn Mooney (Sep 2020 - Dec 2021). Jazlyn completed her B.S. in
Anthropology in Biology at the University of New Mexico. She completed
her Ph.D. in Genetics and Genomics at the University of California, Los
Angeles. Her Ph.D. examined runs of homozygosity, identity by descent,
demographic history and selection, and population genetics of
disease. Jazlyn's research interests in the lab included a variety of
topics in population genomics, including the study of deleterious
variation, genomic sharing, and admixture. Her time in the lab was
supported by a Stanford CEHG fellowship and by a National Science
Foundation Postdoctoral Research Fellowship in Biology. After leaving
the lab, she joined the Department of Quantitative and Computational
Biology at the University of Southern California as Assistant Professor.
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Trevor Pemberton (Mar 2008 - Dec 2012). Trevor earned his B.Sc. in
molecular genetics (2000) and D.Phil. in biochemistry (2004) from the
University of Sussex. He joined the lab after a postdoctoral fellowship
with Prof. Pragna Patel at the University of Southern California. In the
lab, Trevor focused on problems connecting patterns of genetic variation
to the search for disease genes, on human microsatellite variation, and on
the structure and application of genetic variation in the population of
India. From 2010-2011, his work was supported by a University of Michigan
Center for Genetics in Health and Medicine Postdoctoral Fellowship. After
leaving the lab, Trevor accepted a position as Assistant Professor of
Biochemistry and Medical Genetics at the University of Manitoba.
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Paul Scheet (Sep
2006 - Jul 2008). Paul received his B.S. in biology from Washington
University (1995), his M.S. in statistics from the University of Iowa
(2000), and his Ph.D. in statistics from the University of Washington
(2006) under the direction of Prof. Matthew Stephens. His research
interests in the lab focused on haplotype variation, human population
genetics, and genotype imputation methods in diverse human populations.
After leaving the lab, Paul began a faculty position as Assistant
Professor in the Department of Epidemiology at the University of Texas MD
Anderson Cancer Center, where he is now Professor and Chair (2019).
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Cuong Than
(Nov 2009 - Sep 2012). Cuong earned his B.S. in computer science from
Hanoi University of Technology (2003) and his M.S. (2008) and Ph.D. (2009)
in computer science from Rice University, where he worked with Prof. Luay
Nakhleh. His research in the lab focused on algorithms in bioinformatics
and phylogenetics, with a particular emphasis on the
minimize-deep-coalescences algorithm for species tree inference. After
leaving the lab, Cuong continued in his postdoctoral studies at the
Faculty of Computer Science, University of Tuebingen, under the
supervision of Prof. Daniel Huson. He now works in the software industry (2015).
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Lawrence Uricchio, postdoc (May 2015 - Dec 2018). Lawrence
received a B.A. in physics from Carleton College, and M.S. degrees in
biophysical sciences and computer science from the University of
Chicago. He completed his Ph.D. in bioinformatics at the University of
California, San Francisco. Lawrence's research in the lab focused on
population-genetic models of natural selection, polygenic adaptation,
tests for natural selection, and mathematical properties of species tree
inference. After his time in the lab, Lawrence joined the labs of Mike
Boots and Rebecca Tarvin at the University of California, Berkeley.
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Paul
Verdu (Sep 2009 - Sep 2012). Paul received his M.S. in genetics
from the University of Paris 7 (2005) and his Ph.D. in anthropological
genetics at the University of Paris 6 (2009) under the direction of
Prof. Evelyne Heyer. Paul's work in the lab examined genetic admixture and
demography in a variety of groups, including the population of Cape Verde,
Native Americans, and the Pygmy populations of central Africa. He also
focused on admixture modeling, human spatial variation, sociogenetics, and
the relationship between genetic and linguistic variation. After leaving
the lab, Paul began a faculty position as CNRS Associate Scientist at the
Museum national d'histoire naturelle in Paris.
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PhD students | |
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Ilana Arbisser (Aug 2014 - Dec 2018). Ilana completed her B.A. in
biology with a concentration in biological mathematics at the University
of Pennsylvania. Her research interests in the lab centered on
mathematical problems in coalescent theory and population-genetic
statistics. Ilana examined the correlation between the height and length
of coalescent trees, evaluating the effect of demographic phenomena on
this correlation. She also studied the failure of the population-genetic
statistic FST to satisfy the triangle inequality, and
properties of a coalescent model with recombination and migration. The
title of Ilana's Ph.D. thesis in Ecology and Evolution
was "Mathematical investigations into fundamental population genetics
statistics and models". After leaving the lab, Ilana began work as a
data scientist at Cruise Automation.
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Daniel Cotter (Jan 2019 - Sep 2023). Danny received a B.S. in
2018 from Arizona State University, majoring in Biological Sciences
(Genetics, Cell and Developmental Biology) and minoring in Mathematics.
In the lab, Danny's work is focused on theoretical and human population
genetics, particularly in relation to identity by descent, runs of
homozygosity, the X chromosome, and the properties of rare and common
alleles in samples from multiple populations. Danny's Ph.D. in Genetics,
entitled "The effects of relatedness and sex-biased demographic
processes on human genetic variation," was supported by a National
Science Foundation Graduate Research Fellowship and a Stanford CEHG
fellowship. (Jan 2019 - present)
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Mike DeGiorgio
(Apr 2007 - Aug 2011). Mike received his B.S. in mathematics and
computer Science from the University of Central Florida (2006) and his
M.S. in bioinformatics (2008) and Ph.D. in bioinformatics from the
University of Michigan (2011). His research interests in the lab
focused on statistical methods for the analysis of human genetic
variation, serial founder models for human migrations, and methods for
species tree inference in the presence of gene tree discordance. Mike
was supported in the lab by a Rackham Graduate School Merit Fellowship
and a Genome Science Training Program graduate fellowship. His
Ph.D. thesis in Bioinformatics, entitled " Genetic variation and
modern human origins," was recognized by the Program in
Biomedical Sciences Graduate Student Award for Excellence in Research,
and was named honorable mention for the ProQuest Distinguished
Dissertation Award. After leaving the lab, Mike joined the lab of
Rasmus Nielsen in the Department of Integrative Biology, University of
California, Berkeley, supported by a National Science Foundation
Postdoctoral Fellowship in Biology. He is now Associate Professor of
Computer and Electrical Engineering and Computer Science at Florida
Atlantic University (2020). |
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Doc Edge (Jul 2012 - Feb
2017). Doc completed his B.A. in human biology at Stanford University and
his M.A. in statistics at the University of California, Berkeley. His
research in the lab examined the relationship between human population
structure, ancestry inference, and the divergence of quantitative traits
across human populations. He also studied the consequences of population
genetics in genetic association studies, identifying connections to
problems in educational statistics. Doc performed analyses of the
mathematical properties of the Fst measure of genetic
differentiation and their application in forensic genetics. His
Ph.D. thesis in Ecology and Evolution (2016) was titled " Pick up the
pieces: combining information from multiple genetic loci." Doc's work
was supported by a Stanford Graduate Fellowship, and his Ph.D. was
recognized with the Samuel Karlin Prize in Mathematical Biology from the
Stanford Department of Biology. After leaving the lab, Doc began a
postdoctoral fellowship with Graham Coop in the Department of Evolution
and Ecology at the University of California, Davis. He is now Assistant
Professor of Quantitative and Computational Biology at the University of
Southern California (2020).
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Amy Goldberg (Sep
2012 - Jun 2017). Amy completed her B.S. in biological anthropology and
mathematics at the University of Michigan, where she was an undergraduate
researcher in the lab. Her research during her Ph.D. examined a variety of
topics in human evolutionary genetics, mathematical genetics, and
anthropology. She studied mechanistic models of admixture, considering
two-sex models of the transmission of autosomal and X-chromosomal loci in
an admixed population. She used these models together with genotypes on
ancient DNA samples to examine prehistoric admixture processes during
migrations into Europe. Amy also studied the population size history of
human populations in South America on the basis of the timing and
locations of archaeological sites. Her Ph.D. thesis in Ecology and
Evolution (2017) was titled " Mathematical and statistical approaches
to elucidate recent human evolutionary history." Amy's Ph.D. was
supported by a National Science Foundation Graduate Research Fellowship
and by a fellowship from the Stanford Center for Computational,
Evolutionary, and Human Genomics. After leaving the lab, Amy joined the
lab of Rasmus Nielsen in the Department of Integrative Biology, University
of California, Berkeley, supported by a Miller Research Fellowship. She is
now Assistant Professor of Evolutionary Anthropology at Duke University
(2020).
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Lucy Huang (Nov
2006 - Dec 2011). Lucy received her B.S. in mathematics from the
University of Chicago (2005) and her M.S. in biostatistics (2007) and
Ph.D. in bioinformatics (2011) from the University of Michigan. Her
research interests in the lab focused on a variety of aspects of genotype
imputation, and on the relationship of population genetics to disease-gene
mapping. Her Ph.D. thesis in Bioinformatics (2011) was entitled " Genotype
imputation in worldwide human populations: empirical and theoretical
approaches." Lucy was supported during her Ph.D. by a Rackham Graduate
School Predoctoral Fellowship. After leaving the lab, Lucy began work as
an Associate at McKinsey and Company in Chicago. She now works at Google
Inc. (2019).
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Ethan Jewett (Jan 2010 - Sep 2014). Ethan completed his B.A. in
physics at Reed College (2004) and an M.A. in education (2007), M.S. in
applied and interdisciplinary mathematics, and M.S. in Bioinformatics
(2011), all at the University of Michigan. His Ph.D. (Stanford University,
2014) was entitled "Models and tools for studying genetic and cultural
variation." In his research in the lab, Ethan focused on coalescent
theory, especially approximations and applications in the study of lineage
distributions, and analyses of language data for studies of cultural
evolution. Ethan's Ph.D. was supported by a Genome Science Training
Program fellowship at the University of Michigan and a Center for
Computational, Evolutionary, and Human Genomics fellowship at
Stanford. His thesis in Ecology and Evolution was recognized with the
Samuel Karlin Prize in Mathematical Biology from the Stanford Department
of Biology. After leaving the lab, Ethan began a postdoctoral fellowship
with Yun Song in the Departments of Statistics and Electrical Engineering
& Computer Science, University of California, Berkeley. He now works at
23andMe, inc. (2019).
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Jonathan Kang (Sep 2013 - Aug 2018). Jonathan completed his
B.S. in applied mathematics and biology at Brown University, where he
wrote an undergraduate thesis on bacterial evolution. He had also
worked in computational biology and genomics at the Bioinformatics
Institute of Singapore. Jonathan's research interests in the lab
covered a variety of topics at the intersection of bioinformatics and
population genetics, including algorithms for prioritizing individuals
for DNA sequencing, consanguinity and runs of homozygosity in genomic
data, and statistics for measuring linkage disequilibrium. His
Ph.D. thesis in Ecology and Evolution was titled "Analysis and
application of linkage disequilibrium in population and statistical
genetics." Jonathan's Ph.D was supported by a National Science
Scholarship from the Agency for Science, Technology, and Research,
Singapore (A*STAR). After leaving the lab, Jonathan joined the Genome
Institute of Singapore as a postdoctoral fellow.
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Naama Kopelman (Jul 2007 - Feb 2014). Naama completed her B.Sc. in
biology and computer science at Tel Aviv University and her M.S. in
bioinformatics at the Weizmann Institute of Science, on the relationship
between gene duplication and alternative splicing. She conducted her
Ph.D. in environmental studies at Tel Aviv University, with co-supervision
by Prof. Lewi Stone. Her research interests in the lab focused on genetic
relationships among Jewish populations, population structure, identity by
descent, and admixture. Her Ph.D. thesis in Environmental Studies (2014)
was entitled "The complex genealogy of Jewish populations." After
leaving the lab, Naama joined the lab of Itay Mayrose in the Department of
Molecular Biology and Ecology of Plants at Tel Aviv University, supported
by a fellowship from the Tel Aviv University Edmond J. Safra Center for
Bioinformatics. She is now Senior Lecturer in the Faculty of Sciences at
the Holon Institute of Technology (2018). |
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Xiran Liu (Jun 2019 - Sep 2023). Xiran completed her B.S. in
Systems Science and Engineering and in Computer Science at Washington
University in St. Louis. Her undergraduate research focused on machine
learning applications, including in biological topics such as tumor
classification. In the lab, Xiran conducted research on coalescent theory,
mathematical properties of population-genetic statistics, network-based
statistical analysis, and computational methods for analysis of replicate
unsupervised clustering analyses. Her Ph.D. work was supported by a
Stanford CEHG Fellowship. Xiran's Ph.D. thesis in Computational
and Mathematical Engineering was titled "Computational methods and
mathematical measures for population relationships." After completing
her Ph.D., Xiran continued her studies in the lab of Sohini Ramachandran,
Department of Ecology and Evolutionary Biology, Brown University.
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Rohan Mehta (Sep 2013 - Dec 2018). Rohan completed his B.S. in
biology and mathematics at the University of California, San Diego. He
performed undergraduate research in ecology, evolution, and theoretical
biology, using mathematical modeling approaches. Rohan's research
interests in the lab focused on cultural evolution, genealogical models,
and population-genetic statistics. His Ph.D. thesis in Ecology and
Evolution was titled "Mathematical modeling of genetic and cultural
traits." Rohan's work in the lab was supported by a Stanford Graduate
Fellowship and by a fellowship from the Stanford Center for Computational,
Evolutionary, and Human Genomics. After graduating from Stanford, Rohan
continued his studies in the lab of Daniel Weissman at the Department of
Physics, Emory University.
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Alissa Severson (Jan 2017 - Sep 2021). Alissa completed her B.A. in
Mathematics and Chemistry at Carleton College, where she participated in
the Budapest Semesters in Mathematics program. After college, she worked
for two years in clinical genomics and bioinformatics at the Univesity of
Washington and the Institute for Systems Biology, Seattle. Alissa's
interests in the lab focused on human population genetics and genomics,
with an emphasis on identity by descent, runs of homozygosity, coalescent
theory, and ancient and modern genomics of Indigenous populations. The
title of her Ph.D. in Genetics was "The effect of relatedness and
population structure on patterns of genomic sharing." Her work in
the lab was supported by a National Science Foundation Graduate Research
Fellowship and by a Stanford CEHG fellowship. After leaving the lab,
Alissa began work as a computational biologist at D2G Oncology.
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Zachary Szpiech (Dec 2007 - Sep
2012). Zach completed his B.S. in mathematics at the University of
Michigan (2007), working during his senior year in the Rosenberg lab. He
completed his M.S. in bioinformatics (2009) and Ph.D. in bioinformatics
(2012) at the University of Michigan. Zach's research interests in the lab
focused on theoretical, empirical, and statistical aspects of private
alleles. His Ph.D. thesis in Bioinformatics, entitled " Human
migration, population divergence, and the accumulation of deleterious
alleles: insights from private genetic variation and whole-exome
sequencing," was supported by graduate fellowships from the
University of Michigan Bioinformatics and Genome Science Training
Programs. After leaving the lab, Zach joined the lab of Ryan Hernandez in
the Department of Bioengineering and Therapeutic Sciences at the
University of California, San Francisco. He is now Assistant Professor of
Biology at Pennsylvania State University (2021).
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Chaolong Wang, (Jan
2009 - Sep 2012). Chaolong earned his B.S. in Physics from Peking
University (2008), and his M.A. in statistics (2011), M.S. in
bioinformatics (2011), and Ph.D. in bioinformatics (2012) from the
University of Michigan. In the lab, Chaolong's research interests focused
on statistical analysis of the relationship between genes and geography in
human populations, and on a maximum-likelihood method for the analysis of
allelic dropout. His Ph.D. thesis in Bioinformatics, " Statistical methods
for analyzing human genetic variation in diverse populations," was
supported by a Rackham Graduate School Predoctoral Fellowship and a Howard
Hughes Medical Institute International Student Research Fellowship. After
leaving the lab, Chaolong began work as a postdoctoral fellowship in the
labs of Liming Liang and Xihong Lin in the Department of Biostatistics,
Harvard School of Public Health. He is now a Professor at Huazhong
University of Science and Technology (2021).
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| Master's
students | |
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Brian Donovan (Mar 2014 - June 2016). Brian completed his B.A. in
biology at Colorado College (2001) and his M.A. in teaching (2009) at the
University of San Francisco. In the lab, Brian focused on understanding
the population-genetic characterization of human genetic variation. He
completed his biology M.S. alongside his Ph.D. in science education at the
Stanford Graduate School of Education. His research investigated such
topics as ecology education in relation to global environmental problems,
and curricula for the study of human genetic variation. The title of his
thesis in Science Education (2016) was "An experimental exploration of
how text-based instruction in school biology affects belief in genetic
essentialism of race in adolescent populations." His training was
supported by a Stanford Interdisciplinary Graduate Fellowship. Brian
continued his training as a postdoctoral fellow at the Biological Sciences
Curriculum Study, Colorado Springs.
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Laura Helmkamp (Aug 2010 - Aug 2011). Laura completed her
B.S. in mathematics and chemistry at the University of Florida (2010) and
her M.S. in biostatistics at the University of Michigan (2012). Her work
as a research assistant in the lab focused on evaluating the statistical
properties of algorithms that use gene trees to estimate species trees,
with an emphasis on consensus methods. After leaving the lab, she
continued in her M.S. studies and began work as a data analyst in the
Division of Population Health Sciences at Wayne State University.
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Jenna VanLiere (Sep 2006 - Apr 2008). Jenna completed her B.S. in
mathematics at Duke University (2004), and her M.S. in bioinformatics (2008)
and M.D. (2010) at the University of Michigan. In the lab, her research
focused on population genetics in relation to the identification of
disease genes, with an emphasis on linkage disequilibrium and replication
of genetic association studies. Her work was supported by a fellowship
from the Genome Science Training Program. After leaving the lab, Jenna
completed her medical training at the University of Michigan Medical
School and continued in an internal medicine residency at the University
of Maryland School of Medicine. She is now Assistant Professor of Medicine
at Johns Hopkins University (2016).
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Undergraduates | |
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| Alan
Aw (Aug 2015 - Aug 2018). Alan studied in the lab throughout his
time as an undergraduate majoring in mathematical and computational
science. His work in the lab spanned a number of areas, including
mathematical properties of genetic diversity statistics, coalescent
histories and partial orders, bounds on gene tree probabilities, and
mathematical properties of the site-frequency spectrum. Alan's research
was recognized by the Dean's Award for Academic Achievement. After
graduating from Stanford in 2018, Alan continued his studies as a
Ph.D. student in Statistics at the University of California, Berkeley.
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| | Uma Dayal (Jan 2024 - Aug 2024).
Uma was in the undergraduate class of 2023, majoring in Mathematics with
co-terminal master's in Computer Science in 2024. Prior to arriving in
the lab, Uma conducted research on probabilistic graphical models,
convex optimization, and applied cryptography. In the lab, her research
focused on cultural evolution models and data analysis.
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Hormazd Godrej (Sep 2016 - Dec 2018). Hormazd performed research in
the lab while majoring in biology, with a computational biology
concentration. Hormazd's research in the lab was centered on runs of
homozygosity and Jewish genetics. He completed an undergraduate thesis
entitlted "Detecting categories of consanguinity through X chromosomal
runs of homozygosity."
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Amy Goldberg (Apr 2011 - Aug 2011). Amy performed research in the
lab as a senior majoring in biological anthropology and mathematics at the
University of Michigan. Her work in the lab focused on admixture in human
populations. After graduating from Michigan in 2012, Amy rejoined the lab
as a Ph.D. student in the ecology and evolution program at Stanford
University.
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Lucas Hansen (Jan 2014 - Jun 2014). Lucas studied in the lab
during his junior year as a student in mathematics and computational
science (MCS). His work in the lab examined the population genetics of
ascertainment bias in genomic studies. After completing his work in the
lab, Lucas continued in his computational studies at Stanford, graduating
in 2015.
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Zoe Himwich (Apr 2017 - Jun 2019). Zoe worked in the lab beginning
in her sophomore year, continuing into her senior year. She majored in
mathematics and English, graduating in 2019. Within the lab, Zoe studied
the combinatorics of evolutionary trees, focusing in particular on
coalescent histories for non-matching caterpillar gene trees and species
trees. Zoe is continuing in her studies as a PhD student in mathematics
at Columbia University (2020).
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Elyssa Hofgard (Mar 2021 - Sep 2021). Elyssa worked in the lab in
her senior year. She majored in physics with minors in mathematics and
history. Elyssa's studies in the lab focused on population-genetic data
analysis and human genetic variation, with an emphasis on sample-size
correction in measurement of genetic variation. After working in the lab,
Elyssa continued at Stanford in the MS program in computational and
mathematical engineering.
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Ivana Jankovic (Apr 2008 - May 2010). Ivana performed research in
the lab as a junior and senior majoring in molecular and cellular biology
at the University of Michigan. Her work in the lab focused on statistics
for analyzing genetic variation in related individuals. After graduating
from Michigan in 2010, Ivana enrolled as a medical student at the
University of California, Los Angeles. She is now a fellow in
endocrinology at Stanford University Medical Center (2020).
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Matt King (Mar 2021 - Jun 2022). Matt worked in the lab as a math
major and computer science co-term. His work in the lab examined
combinatorial problems concerning evolutionary trees, with an emphasis on
tree balance statistics and labeled histories. Matt graduated from
Stanfrod in 2022 with a B.S. in mathematics and M.S. in compouter science,
and is continuing his studies in the mathematics Ph.D. program at Harvard
University (2022).
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Egor Lappo (Oct 2018 - Jun 2022). Egor worked in the lab during
his career as a mathematics undergraduate. His studies in the lab
focused on combinatorics of evolutionary trees, coalescent theory, and
mathematical population genetics. After graduating from Stanford in 2022
with a B.S. in mathematics, Egor continued in the lab as a Ph.D. student
in ecology and evolutionary biology.
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Alessandra Maranca (Feb 2021 - Aug 2021). Alessandra
performed research in the lab as an undergraduate studying mathematics
and sociology. Alessandra's work in the lab investigated the
combinatorics of evolutionary trees, with a focus on a scheme for
bijectively associating unlabeled binary rooted trees with positive
integers. Alessandra graduated with a B.S. in mathematics and M.S. in
sociology in December 2023, and continued in a post-baccalaureate
program at MIT.
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Ananya Rastogi (May 2014 - July 2014). Ananya was a visiting
student researcher in the lab while studying for her M.S. degree,
integrated with her undergraduate training, at the Indian Institute of
Science Education and Research (IISER) in Mohali, India. Her reseach in
the lab focused on dynamical models of admixture. After completion of her
summer research, Ananya returned to IISER to finish her undergraduate
training. in bioinformatics. She is now an Associate Editor at Nature
Computational Science (2021).
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Shashir Reddy (Sep 2008 - Jan 2010). Shashir performed research in
the lab as a junior and senior majoring in mathematics. His work in the
lab focused on mathematical properties of homozygosity and heterozygosity.
After graduating from Michigan in 2010, Shashir enrolled in a
post-baccalaureate program in computer science at Ohio State University.
He now works in the field of data science (2020).
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Zachary Szpiech (Sep 2006 - Aug 2007). Zach performed research in
the lab as a senior majoring in mathematics. His work in the lab
focused on software for analyzing private allelic variation. After
graduating from Michigan in 2007, Zach rejoined the lab as a Ph.D. student
in bioinformatics.
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Randa Tao (Feb 2006 - Jun 2006). Randa performed research in the
lab as an undergraduate majoring in ecology and evolutionary biology. Her
work in the lab focused on mathematical models of the discordance of gene
trees and species trees. After graduating from Michigan in 2006, Randa
enrolled as a medical student at the Mount Sinai School of Medicine.
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Eric Kalosa-Kenyon (Jun 2010 - Aug 2010). Eric performed research
in the lab after his junior year at Pioneer High School in Ann Arbor. His
work in the lab focused on properties of the minimize-deep-coalescence
algortithm for species tree inference. After graduating from Pioneer in
2011, Eric enrolled as an undergraduate at Brown University.
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Past rotation students and extended visitors
Tami Gjorgjieva, Stanford Genetics (Apr 2023 - Jun 2023)
Juan Esteban Rodriguez Rodriguez, Stanford Ecology/Evolution (Jan 2023 - Mar 2023)
Huisheng Julie Zhu, Stanford Ecology/Evolution (Sep 2022 - Dec 2022)
Shaili Mathur, Stanford Ecology/Evolution (Sep 2021 - Dec 2021)
Xiran Liu, Stanford Computational and Mathematical Engineering (Jun 2019 - Aug 2019)
Alyssa Fortier, Stanford Ecology/Evolution (Apr 2019 - Jun 2019)
Daniel Cotter, Stanford Genetics (Jan 2019 - Mar 2019)
Kaleda Denton, Stanford Ecology/Evolution (Sep 2018 - Mar 2019)
Maurice Goodman, Stanford Marine Biology first-year PhD student
(Sep 2018 - Jun 2019)
Alissa Severson, Stanford Genetics (Jan 2017 - Mar 2017)
Ilana Arbisser, Stanford Ecology/Evolution (Apr 2014 - Jun 2014)
Arbel Harpak, Stanford Ecology/Evolution (Sep 2013 - Mar 2014)
Lucie Gattepaille, Visiting evolutionary biology PhD student,
Uppsala University (May 2013 - Aug 2013)
Anastasia Wolff, Visiting biology master's student, Ecole Normale
Superieure (Feb 2010 - Jun 2010)
Brian Metzger, UMich Ecology & Evolutionary Biology (Sep 2009 - Oct 2009)
Ethan Jewett, UMich Bioinformatics (May 2009 - Aug 2009)
Chaolong Wang, UMich Bioinformatics (Jan 2009 - Apr 2009)
Simina Boca, Visiting Johns Hopkins biostatistics PhD student (Jun 2008 - Aug 2008; Jun
2007 - Aug 2007)
Zach Szpiech, UMich Bioinformatics (Jan 2008 - Apr 2008)
Mike DeGiorgio, UMich Bioinformatics (Apr 2007 - Aug 2007)
Conner Sandefur, UMich Bioinformatics (Jan 2007 - Apr 2007)
Jenna VanLiere, UMich Bioinformatics (Apr 2006 - Jun 2006)
Justin Van Klein, UMich Bioinformatics (Sep 2005 - Dec 2005)
"Lab friends": trainees participating in
significant projects with the lab during the time of their
training
Postdocs
Nicole Creanza (Feldman lab, 2013-2018)
Cecil Lewis (Long lab, 2005-2007)
PhD students
Ellie Armstrong (Hadly/Petrov labs, 2016-2021)
Kaleda Denton (Feldman lab, 2018-2023)
Alison Feder (Petrov lab, 2013-2018)
Alyssa Fortier (Pritchard lab, 2018-2023)
Nandita Garud (Petrov lab, 2011-2015)
Arbel Harpak (Pritchard lab, 2013-2018)
Shaili Mathur (Cremer/Petrov labs, 2021-)
Matt Zawistoski (Zöllner lab, 2005-2011)
Peng Zhang (Zöllner lab, 2007-2013)
Undergraduates
Theo Gress (Biology undergraduate, 2022-2023)
Rishabh Kapoor (Biology undergraduate, 2020-2021)
Yash Pershad (Bioengineering undergraduate, 2020-2021)
Graduate/postdoc alumni in faculty/faculty-equivalent
positions
Nicolas Alcala Computational Biology, International Agency for Research on Cancer
(France)
Lars Andersen Mathematics, University of Aarhus (Denmark)
Airam Blancas Statistics, Instituto Technológico
Autónomo de México (Mexico)
Erkan Buzbas Statistical Science, University of Idaho
Jenna (VanLiere) Canzoniero Medicine/General Internal
Medicine, Johns Hopkins University
Michael DeGiorgio Computer & Electrical Engeering and
Computer Science, Florida Atlantic University; previously Biology, Pennsylvania State University
James Degnan Mathematics and Statistics, University of
New Mexico; previously Mathematics and Statistics, University of
Canterbury (New Zealand)
Filippo Disanto Mathematics, University of Pisa (Italy)
Doc Edge Quantitative and Computational Biology,
University of Southern California
Amy Goldberg Evolutionary Anthropology, Duke University
Gili Greenbaum Ecology, Evolution & Behavior, Hebrew
University of Jerusalem (Israel)
Mattias Jakobsson Evolutionary Biology, Uppsala University (Sweden)
Jonathan Kang Computational Problem Solving, NUS College (Singapore)
Jaehee Kim Computational Biology, Cornell University
Naama Kopelman Computer Science, Holon Institute of Technology (Israel)
Rohan Mehta Biology, Elmhurst University
Jazlyn Mooney Quantitative and Computational Biology,
University of Southern California
Paul Scheet Epidemiology, University of Texas M.D. Anderson Cancer Center
Zachary Szpiech Biology, Pennsylvania State University
Lawrence Uricchio Biology, Tufts University
Paul Verdu Ecoanthropology and Ethnobiology, Museum
national d'histoire naturelle (France)
Chaolong Wang Epidemiology and Biostatistics, Huazhong
University of Science and Technology (China); previously Genome Institute of Singapore (Singapore)
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