Pritchard Lab: People

Historical lab photos:
Lunch at Clark, and at ASHG, 2022
Zoom during the pandemic 2020
At ASHG 2018
At ASHG 2016
At U Chicago 2009
At U Chicago 2005

• Jonathan Pritchard

• Jeff Spence [December 2023-- ]: statistics, complex traits, pop gen

• Sahin Naqvi [May 2019-- ; joint with Joanna Wysocka]: complex traits, facial dev.
• Daphna Rothschild [January 2020-- ; joint with Maria Barna]: rDNA genomics
• Romain Lopez [October 2021-- ; joint with Aviv Regev]: stat, ML, single cell
• Mineto Ota [August 2022-- ; joint with Alex Marson]: architecture of immune traits
• Ronghui (Ron) Zhu [September 2022-- ; joint with Alex Marson]: GRNs, T cell differentiation
• Alyssa Lyn Fortier [September 2023-- ; Biology]: popgen, MHC

• Roshni Patel [June 2019-- ; Genetics]: stat gen, complex traits
• Matt Aguirre [2020-- ; BMI]: GRN theory and pop gen
• Alvina Adimoelja [June 2022-- ; Genetics, joint with Christina Curtis]: popgen in cancer
• Jon Judd [June 2022-- ; Genetics, joint with John Witte/Linda Kachuri]: PRS portability
• Tony Zeng [June 2022-- ; Genetics, joint with Jesse Engreitz]: Stats/ML, perturb-seq
• Tami Gjorgjieva [June 2023-- ; Genetics] popgen, molecular and complex traits
• Nikhil Milind [June 2023-- ; Genetics] gene dosage effects on trait variation
• Julie (Huisheng) Zhu [June 2023-- ; Biology] popgen modeling of complex traits

• Courtney Smith [2020-- ; PhD Genetics + MD]: complex trait architecture of metabolites, MHC
• Wilder Wohns [September 2022-- ]: (DPhil Oxford) Popgen, ARGs, selection on regulation variation

• Lily Leung [October 2017-- ]

Lab Alumni who are now PIs at academic institutions.

Alexis Battle (Johns Hopkins), Jordana Bell (Kings College London), Don Conrad (Oregon Health Sciences University), Graham Coop (UC Davis), Andy Dahl (U Chicago), Audrey Fu (Univ Idaho), Ziyue Gao (U Penn), Kyle Gaulton (UCSD), Kelley Harris (University of Washington), David Knowles (NY Genome Center/Columbia), Yang Li (Univ Chicago), Xun Lan (Tsinghua U, China), Pall Melsted (University of Iceland), Giovanni Montana (University of Warwick), Hakhamanesh Mostafavi (NYU Langone), Harold Pimentel (UCLA), Roger Pique-Regi (Wayne State), Graham McVicker (Salk Institute), Hanna Ollila (U Helsinki), Towfique Raj (Mt. Sinai), Shaila Musharoff (Cornell), Yuval Simons (U Chicago), Nasa Sinnott-Armstrong (Fred Hutch), Ben Voight (U Penn), Jeff Wall (UCSF), William Wen (U Michigan), Sebastian Zollner (U Michigan).

Lab Alumni in Industry.

Margaret Antonio (Grail), Anand Bhaskar (Facebook), Dan Davison (Counsyl), Jack Degner (Abbvie), Yair Field (Illumina Research), Jake Freimer (Genentech), Daniel Gaffney (Genomics PLC), Emily Glassberg (Boston Consulting Group), David Golan (cofounder of Viz.ai), Zia Khan (Genentech), Su Yeon Kim (Veracyte), Joe Pickrell (founder of GenCove), Christina Pop (Google), Anil Raj (Calico), Eilon Sharon (Insitro), Natalie Telis (Calico)

Lab Alumni in Academic Research Positions.

Jeff Spence (Stanford), Josh Weinstock (JHU), Clemens Weiss (Stanford)

Approximately complete list of lab alumni

Postdocs:

• Jeff Wall [July 2002 - June 2003] Now Professor, University of California, San Francisco
• Giovanni Montana [April 2002 -- March 2004] Previously Professor of Biostatistics and Bioinformatics, Kings College London; now Professor of Data Science at U of Warwick.
• Sebastian Zollner [December 2001--July 2005] Now Associate Professor, University of Michigan
• Graham Coop [November 2004--August 2008] Now Professor, University of California, Davis
• Jean-Baptiste Veyrieras [November 2006--October 2007/Consultant until 2011] Now Group Leader at bioMerieux.
• Jordana Bell [February 2008--November 2009] Now Senior Lecturer [UK equiv. of asst. or assoc. Prof], Kings College London.
• Ying Wang [March 2009--May 2011] Now scientist at Beijing Institute of Genomics.
• Páll Melsted [October 2009--July 2011] Now associate professor University of Iceland.
• Daniel Gaffney [September 2008--July 2011] Group Leader at the Wellcome Trust Sanger Institute; Now Head of Cellular Genetics at Genomics PLC
• Roger Pique-Regi [March 2009--August 2012] Now associate professor at Wayne State University.
• Allegra Petti [February 2012--June 2013; (res. asst. prof.), joint with Y Gilad] Now Staff Scientist at Washington University
• Shyam Gopalakrishnan [September 2011--July 2013; joint with Abe Palmer] Now staff scientist, University of Copenhagen.
• Zia Khan [September 2011--December 2013; joint with Y Gilad] Formerly assistant professor in CS at University of Maryland. Now Staff Scientist at Genentech.
• Stoyan Georgiev [September 2011--April 2014]. Now data scientist at Google.
• Alexis Battle [August 2013--June 2014] Now associate professor at Johns Hopkins (CS, Biostats)
• Audrey Fu [September 2014--August 2015; visiting scholar from U Chicago (Stephens lab)]. Now assistant professor of Statistics at University of Idaho.
• Towfique Raj [September 2014--August 2015; visiting scholar from Broad/HMS]. Now assistant professor at Mt Sinai
• Graham McVicker [May 2010--Dec 2015]. Now assistant professor at Salk Institute.
• Kyle Gaulton [Oct 2014--Dec 2015; visiting scholar from McCarthy lab, Oxford]. Now Asst. Prof. at UCSD.
• David Golan [August 2014--September 2016]. Co-founder of Viz.ai.
• Anil Raj [September 2011--October 2016]. Now bioinformatician at Calico.
• Anand Bhaskar [September 2014--March 2017]. Now data scientist at Facebook.
• Xun Lan [September 2012--September 2017]. Now Asst. Prof. Tsinghua U, China.
• Yang Li [September 2014--October 2017]. Now Asst. Prof. Univ. Chicago.
• Kelley Harris [July 2015--December 2017]. Now Asst. Prof. Univ. Washington
• Eilon Sharon [February 2014--September 2018; joint with Hunter Fraser]. Now a staff scientist at Insitro.
• Yair Field [September 2012--December 2018]. Now a staff scientist in the Machine Learning division at Illumina.
• David Knowles [August 2014--December 2018; joint with Sylvia Plevritis]. Now assistant professor at NY Genome Center and Columbia University.
• Ziyue Gao [September 2015-April 2019]. Now Asst. Prof. U Pennsylvania.
• Harold Pimentel [Aug 2016--June 2021]. Now Asst. Prof. at UCLA.
• Hanna Ollila [PD 2017--2019; Visiting Scientist 2019-2022]: complex traits, sleep. Now Group Leader, U Helsinki
• Jake Freimer [August 2018--May 2022; joint with Alex Marson]: GRNs in T cells. Now staff scientist at Genentech.
• Shaila Musharoff [January 2019--August 2022]: stat gen, GWAS portability. now Asst. Prof. at Cornell
• Satu Strausz [January 2021--January 2022]: Trait associations in HLA. Now at FIMM, Helsinki.
• Jeff Spence [August 2019--Dec 2023]: statistics, complex traits, pop gen. Now senior research scientist Pritchard lab
• Yuval Simons [August 2018--August 2023]: pop gen of complex traits. Now Asst Prof, U Chicago
• Clemens Weiss [August 2019--August 2023]: aDNA, spatial pop gen. Now Research Scientist, Curtis Lab Stanford
• Hakhamanesh Mostafavi [September 2019--November 2023]: funct. genomics of complex traits. Now Asst Prof, NYU
• Josh Weinstock [July 2021--August 2023; joint with Alexis Battle]: GRN inference. Now Research Scientist Battle Lab JHU

• Xiaoquan William Wen [November 2001 -- September 2007]. William played a key role in many of the lab's projects over a 6-year span. He developed the popular user interface for the structure software package. Went on to a Ph.D Statistics with Matthew Stephens; now assistant professor at the University of Michigan.
• Mike Trienis [September 2008--September 2009].
• Yonggan Wu [November 2013--April 2015]
• Priya Desai [November 2013--December 2015]
• Ben Lehmann [June 2015--September 2016]. Now Postdoc in Physics at MIT

• Ben Voight [Autumn 2002 -- Spring 2006; joint with N. Cox, PhD in Human Genetics]. Went on to a postdoc with David Altshuler/Mark Daly, Broad Institute. Thesis: Approaching human genetics from a population based paradigm. Awarded "best thesis in Biological Sciences Division" (2006). Now associate professor at the University of Pennsylvania
• Dan Davison [January 2005 -- August 2006; joint with S. Hackett; PhD from Committee on Evolutionary Biology]. Went on to a postdoc with Peter Donnelly, University of Oxford. Thesis on statistical inference of population structure and history based on genetic data. Now at Counsyl.
• Don Conrad [Spring 2003 -- Summer 2007; PhD in Human Genetics] Went on to a postdoc with Matthew Hurles, Wellcome Trust Sanger Institute; moving to faculty position at Wash. U. Thesis: Measurement and analysis of copy number variation in the human genome. Faculty at Washington University of St. Louis; now Assoc Prof Oregon Health Sciences University.
• Su Yeon Kim [September 2004 -- March 2008; joint with P. McCullagh, PhD in Statistics] Thesis: Evolution of conserved noncoding elements in mammals. Postdoc with Terry Speed, Berkeley. Now bioinformatician at Veracyte.
• Sridhar Kudaravalli [September 2004 -- August 2008] Thesis: Recent positive selection in the human genome. Returned to India to work in family business.
• Joe Pickrell [September 2007-- September 2011]. Thesis on population genetics and human expression. Previously: postdoc in David Reich's lab, Harvard Med School; Assistant professor at NY Genome Center/Columbia. Now Founder of GenCove.
• Jack Degner [September 2008-- August 2012]. Thesis on genetic variation and gene regulation. Postdoc with Eileen Furlong, EMBL. Now Sr. Scientist at AbbVie.
• Paul Grabowski [November 2011--December 2014; joint with J Borevitz] Thesis on population genetics of switchgrasses and general statistical methods for demographic inference. Now a postdoc with Mike Caswell, USDA.
• Cristina Pop [June 2014--January 2015; CS, with Daphne Koller prior to her move to Coursera]. Thesis on ribosome profiling. Now a data scientist at Google.
• Bryce van de Geijn [September 2011--December 2015] Thesis on QTL mapping with allele-specific expression. Now a postdoc with Alkes Price, Harvard.
• Natalie Telis [March 2014--March 2018; BMI] Thesis on selection in humans, and other topics. Now staff scientist at Ancestry.com.
• Arbel Harpak [March 2014--April 2018; Biology] Thesis on gene conversion, mutational processes etc. Now a postdoc with Molly Przeworski, Columbia.
• Emily Glassberg [March 2014--December 2018; Biology, joint with Marc Feldman] Thesis on selective constraint in gene expression. Now at Boston Consulting Group.
• Diego Calderon [March 2014--June 2019; BMI]. Now a postdoc at U Washington with Cole Trapnell and Jay Shendure.
• Evan Boyle [June 2015--July 2019; Genetics, joint with Will Greenleaf]. Now a postdoc at UCSD with Gene Yeo.
• Jessica Ribado [June 2015--May 2019; Genetics, joint with Ami Bhatt]. Now a postdoc at the Institute for Disease Modeling in Seattle.
• Hannah Moots [June 2017--Aug 2021; Archaeology] Now a postdoc in Human Genetics and Archaelogy at the University of Chicago
• Adele Xu [2019--June 2022; MSTP, Genetics; primary lab Maria Barna]: ribosome evolution. Now in the MD program
• Nasa Sinnott-Armstrong [June 2017--August 2022; Genetics]: funct. genomics, complex traits. Now Asst Prof at Fred Hutch.
• Margaret Antonio [June 2017-- August 2022; BMI]: aDNA, popgen. Now scientist at Grail.
• Alyssa Lyn Fortier [June 2019--August 2023; Biology]: popgen, MHC. Now postdoc Pritchard lab

Masters' Students:

• Melissa Hubisz [September 2006--2008; Master's degree in human genetics]. PhD at Cornell. Now computational staff at Cornell.
• Andy Dahl [May 2011-- June 2012; BS and MS in Statistics] DPhil (=PhD) at Oxford with Jonathan Marchini. Postdoc at UCSF. Now Asst Prof U Chicago.

Lab Technicians (working in Yoav's lab):

• Everlyne Nkadori [September 2008--June 2010; now in Medical school, U Wisconsin]
• Sherryl De Leon [January 2010--August 2010; now in Master's Program, Boston University]
• Bryan Pavlovic [July 2010--August 2012; now in PhD program, UChicago]
• Noah Lewellen [August 2010--August 2012; law school?]
• Katelyn Michelini [May 2009--May 2013; to Illumina]
• Marsha Myrthil [August 2010--October 2013; to Yoav's lab]

Past short-term visitors:

• Sarah Hansoul [visiting postdoc from University of Liège, Belgium, spring 2006]
• Laura Scott [Visiting faculty from U. Michigan, January -- June 2010]
• Heejung Shim [Visiting postdoc from Stephens lab in Chicago, Winter 2014]
• Dan Lawson [August-October 2015, Visiting Wellcome Trust Research Fellow from Bristol]

PhD students who switched to UC labs during Stanford move

• Carolyn Jumper [September 2012--May 2013; to Cox lab]
• Michael Turchin [September 2012--May 2013; joint with M Stephens; to 100% Stephens lab]

Student rotations: Chicago

• Ben Voight [grad student rotation, summer 2002]
• Don Conrad [grad student rotation, winter 2003]
• Sridhar Kudaravalli [grad student rotation, summer 2004]
• Melissa Hubisz [grad student rotation, summer 2006]
• Joe Pickrell [grad student rotation, summer 2007]
• Jack Degner [grad student rotation, summer 2008]
• Wynn Meyer [grad student rotation, summer 2008]
• Imge Hulur [grad student rotation, winter 2010]
• Bryce van der Geijn [grad student rotation, summer 2010]
• John Blischak [grad student rotation, summer 2011]
• Ziyue Gao [grad student rotation, summer 2011]
• David Pritchard [visiting Statistics student, summer 2011]
• Nick Banovich [grad student rotation, summer 2012]
• Carolyn Jumper [grad student rotation, summer 2012]
• Michael Turchin [grad student rotation, summer 2012]
• Sarah Urbut [med student project, summer 2012]
• Bryan Pavlovic (grad student rotation; winter 2013)

• Ilana Arbisser (Bio grad student rotation; fall 2013)
• Michael Sikora (Genetics grad student rotation; fall 2013)
• Diego Calderon (BMI grad student rotation; winter 2014)
• Emily Glassberg (Bio grad student rotation; winter 2014)
• Peyton Greenside (BMI grad student rotation; winter 2014)
• Arbel Harpak (Bio grad student rotation; winter 2014)
• Natalie Telis (BMI grad student rotation; winter 2014)
• Jialu Zhu (Comp Eng RA; spring 2014)
• Jessica Ribado (Genetics grad student rotation; spring 2015)
• Evan Boyle (Genetics grad student rotation; spring 2015)