Download PDF | Last updated: March 1, 2022

Education


New York University
Ph.D. Biology - August 2015-May 2021
Advisor: Rahul Satija

University of Texas at Austin
B.S. Biology Honors - August 2011-May 2015

Research Experience


Single-cell virology - September 2021 - Current
Advisor: Jesse Bloom

Single-cell genomics - May 2016 - August 2021
Advisor: Rahul Satija

Computational Biology - Summer 2013 - Spring 2015
Advisor: Claus Wilke

Virtual Drug Screening - Freshman Research Initiative - Summer 2012 - Spring 2013
Advisor: Josh Beckham

Publications


geneBasis: an iterative approach for unsupervised selection of targeted gene panels from scRNA-seq.”
Alsu Missarova, Jaison Jain, Andrew Butler, Shila Ghazanfar, Tim Stuart, Maigan Brusko, Clive Wasserfall, Harry Nick, Todd Brusko, Mark Atkinson, Rahul Satija, John Marioni. Genome Biology . December 2021.

Characterizing the molecular regulation of inhibitory immune checkpoints with multi-modal single-cell screens.”
Efthymia Papalexi, Eleni Mimitou, Andrew Butler, Samantha Foster, Bernadette Bracken, William Mauck, Hans-Hermann Wessels, Yuhan Hao, Bertrand Yeung, Peter Smibert, Rahul Satija. Nature Genetics . March 2021.

Integrated analysis of multimodal single-cell data.”
Yuhan Hao*, Stephanie Hao*, Erica Andersen-Nissen, William M. Mauck, Shiwei Zheng, Andrew Butler, Maddie Jane Lee, Aaron J. Wilk, Charlotte Darby, Michael Zagar, Paul Hoffman, Marlon Stoeckius, Efthymia Papalexi, Eleni P. Mimitou, Jaison Jain, Avi Srivastava, Tim Stuart, Lamar B. Fleming, Bertrand Yeung, Angela J. Rogers, Juliana M. McElrath, Catherine A. Blish, Raphael Gottardo, Peter Smibert, Rahul Satija. Cell . October 2021.

Toward a Common Coordinate Framework for the Human Body.”
Jennifer E. Rood, Tim Stuart*, Shila Ghazanfar*, Tommaso Biancalani*, Eyal Fisher, Andrew Butler, Anna Hupalowska, Leslie Gaffney, William Mauck, Gokcen Eraslan, John C.Marioni, Aviv Regev, Rahul Satija. Cell . December 2019.

Comprehensive Integration of Single-Cell Data.”
Tim Stuart*, Andrew Butler*, Paul Hoffman, Christoph Hafemeister, Efthymia Papalexi, William M Mauck III, Yuhan Hao, Marlon Stoeckius, Peter Smibert, Rahul Satija. Cell . June 2019.

Integrated analysis of single cell transcriptomic data across conditions, technologies, and species.”
Andrew Butler, Paul Hoffman, Peter Smibert, Efthymia Papalexi, Rahul Satija. Nature Biotechnology . April 2018.

Molecular transitions in early progenitors during human cord blood hematopoiesis.”
Shiwei Zheng, Efthymia Papalexi, Andrew Butler, William Stephenson, Rahul Satija. Molecular Systems Biology . March 2018.

Developmental diversification of cortical inhibitory interneurons.”
Christian Mayer*, Christoph Hafemeister*, Rachel C. Bandler*, Robert Machold, Renata Batista Brito, Xavier Jaglin, Kathryn Allaway, Andrew Butler, Gord Fishell, Rahul Satija. Nature . March 2018.

Single-Cell RNA-Seq Of Rheumatoid Arthritis Synovial Tissue Using Low Cost Microfluidic Instrumentation.”
William Stephenson*, Laura T Donlin*, Andrew Butler*, Cristina Rozo, Ali Rashidfarrokhi, Susan M Goodman, Lionel B Ivashkiv, Vivian P Bykerk, Dana E Orange, Robert B Darnell, Harold P Swerdlow, Rahul Satija. Nature Comunications . February 2018.

Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors.”
Alexandra-Chloe Villani*, Rahul Satija*, Gary Reynolds, Siranush Sarkizova, Karthik Shekhar, James Fletcher, Morgane Griesbeck, Andrew Butler, Shiwei Zheng, Suzan Lazo, Laura Jardine, David Dixon, Emily Stephenson, Emil Nilsson, Ida Grundberg, David McDonald, Andrew Filby, Weibo Li, Philip L De Jager, Orit Rozenblatt-Rosen, Andrew A Lane, Muzlifah Haniffa, Aviv Regev, Nir Hacohen. Science . April 2017.

Seq-Well: portable, low-cost RNA sequencing of single cells at high throughput.”
Todd M Gierahn, Marc H Wadsworth II, Travis K Hughes, Bryan D Bryson, Andrew Butler, Rahul Satija, Sarah Fortune, J Christopher Love, Alex K Shalek. Nature Methods . February 2017.

Teaching Experience


New York University - Recitation Leader - Statistical learning from large- scale biological data - Fall 2017, Fall 2019

New York University - Recitation Leader - Biostatistics - Fall 2016, Spring 2017, Fall 2018

University of Texas at Austin - Peer Mentor - Freshman Research Initiative

University of Texas at Austin - Undergraduate Teaching Assistant - Biostatistics - Fall 2012

Selected Presentations


Stockholm, Sweden - Single Cell Genomics - September 2019

Keystone Symposium - Single Cell Biology - January 2019

New York University - NYU Biology Department Annual Retreat - September 2017

University of Texas at Austin - Undergraduate Research Forum - April 2015

Michigan State University - BEACON Congress - August 2013

University of Wisconsin - La Crosse - National Conference on Undergraduate Research - April 2013

Selected Honors


Awards

Graduate Fellowships

Undergraduate Awards and Scholarships