Maitreya J Dunham (Maitreya Dunham)

ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 53

Top Venues

bioRxiv : the preprint server for biology

PLoS genetics

G3 (Bethesda, Md.)

Bioinformatics (Oxford, England)

University of Washington

Stanford University (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

University of Washington Jul 01 2008

United States

Professor :: Genome Sciences

Princeton University

United States

Lewis Sigler Fellow :: Lewis Sigler Institute for Integrative Genomics

Education History

Stanford University

United States

PHD :: Genetics

Massachusetts Institute of Technology

United States

BSC :: Biology

Publications

Rebecca Martin, Claudia Y Espinoza, Christopher R L Large, Joshua Rosswork, Cole Van Bruinisse, Aaron W Miller, Joseph C Sanchez, Madison Miller, Samantha Paskvan, Gina M Alvino, Maitreya J Dunham, M K Raghuraman, Bonita J Brewer
Template switching between the leading and lagging strands at replication forks generates inverted copy number variants through hairpin-capped extrachromosomal DNA. PLoS genetics 20 (1) (2024)
Riddhiman K Garge, Renee C Geck, Joseph O Armstrong, Barbara L Dunn, Daniel R Boutz, Anna M Battenhouse, Mario Leutert, Vy Dang, Pengyao Jiang, Dusan Kwiatkowski, Thorin Peiser, Hoyt McElroy, Edward M Marcotte, Maitreya J Dunham
Systematic profiling of ale yeast protein dynamics across fermentation and repitching. G3 (Bethesda, Md.) 14 (3) (2024)
Jochen Weile, Gabrielle Ferra, Gabriel Boyle, Sriram Pendyala, Clara Amorosi, Chiann-Ling C Yeh, Atina G Cote, Nishka Kishore, Daniel Tabet, Warren van Loggerenberg, Ashyad Rayhan, Douglas M Fowler, Maitreya J Dunham, Frederick P Roth
Pacybara: accurate long-read sequencing for barcoded mutagenized allelic libraries. Bioinformatics (Oxford, England) 40 (4) (2024)
Rebecca Martin, Claudia Y Espinoza, Christopher R L Large, Joshua Rosswork, Cole Van Bruinisse, Aaron W Miller, Joseph C Sanchez, Madison Miller, Samantha Paskvan, Gina M Alvino, Maitreya J Dunham, M K Raghuraman, Bonita J Brewer
Template switching between the leading and lagging strands at replication forks generates inverted copy number variants through hairpin-capped extrachromosomal DNA. PLoS genetics 20 (1) (2024)
Matthew Bryce Taylor, Alexa R Warwick, Ryan Skophammer, Josephine M Boyer, Renee C Geck, Kristin Gunkelman, Margaux Walson, Paul Andrew Rowley, Maitreya J Dunham
yEvo: A modular eukaryotic genetics and evolution research experience for high school students. Ecology and evolution 14 (1) (2024)
Renee C Geck, Naomi G Moresi, Leah M Anderson, null null, Rebecca Brewer, Timothy R Renz, Matthew Bryce Taylor, Maitreya J Dunham
Experimental evolution of S. cerevisiae for caffeine tolerance alters multidrug resistance and TOR signaling pathways. bioRxiv : the preprint server for biology (2024)
Rebecca Martin, Claudia Y Espinoza, Christopher R L Large, Joshua Rosswork, Cole Van Bruinisse, Aaron W Miller, Joseph C Sanchez, Madison Miller, Samantha Paskvan, Gina M Alvino, Maitreya J Dunham, M K Raghuraman, Bonita J Brewer
Template switching between the leading and lagging strands at replication forks generates inverted copy number variants through hairpin-capped extrachromosomal DNA. PLoS genetics 20 (1) (2024)
Rebecca Martin, Claudia Y Espinoza, Christopher R L Large, Joshua Rosswork, Cole Van Bruinisse, Aaron W Miller, Joseph C Sanchez, Madison Miller, Samantha Paskvan, Gina M Alvino, Maitreya J Dunham, M K Raghuraman, Bonita J Brewer
Template switching between the leading and lagging strands at replication forks generates inverted copy number variants through hairpin-capped extrachromosomal DNA. PLoS genetics 20 (1) (2024)
Renee C Geck, Naomi G Moresi, Leah M Anderson, null null, Rebecca Brewer, Timothy R Renz, Matthew Bryce Taylor, Maitreya J Dunham
Experimental evolution of S. cerevisiae for caffeine tolerance alters multidrug resistance and TOR signaling pathways. bioRxiv : the preprint server for biology (2024)
Jochen Weile, Gabrielle Ferra, Gabriel Boyle, Sriram Pendyala, Clara Amorosi, Chiann-Ling C Yeh, Atina G Cote, Nishka Kishore, Daniel Tabet, Warren van Loggerenberg, Ashyad Rayhan, Douglas M Fowler, Maitreya J Dunham, Frederick P Roth
Pacybara: accurate long-read sequencing for barcoded mutagenized allelic libraries. Bioinformatics (Oxford, England) 40 (4) (2024)
Joseph O Armstrong, Pengyao Jiang, Skyler Tsai, Megan My-Ngan Phan, Kelley Harris, Maitreya J Dunham
URA6 mutations provide an alternative mechanism for 5-FOA resistance in Saccharomyces cerevisiae . bioRxiv : the preprint server for biology (2024)
Jochen Weile, Gabrielle Ferra, Gabriel Boyle, Sriram Pendyala, Clara Amorosi, Chiann-Ling C Yeh, Atina G Cote, Nishka Kishore, Daniel Tabet, Warren van Loggerenberg, Ashyad Rayhan, Douglas M Fowler, Maitreya J Dunham, Frederick P Roth
Pacybara: accurate long-read sequencing for barcoded mutagenized allelic libraries. Bioinformatics (Oxford, England) 40 (4) (2024)
Riddhiman K Garge, Renee C Geck, Joseph O Armstrong, Barbara L Dunn, Daniel R Boutz, Anna M Battenhouse, Mario Leutert, Vy Dang, Pengyao Jiang, Dusan Kwiatkowski, Thorin Peiser, Hoyt McElroy, Edward M Marcotte, Maitreya J Dunham
Systematic profiling of ale yeast protein dynamics across fermentation and repitching. G3 (Bethesda, Md.) 14 (3) (2024)
Matthew Bryce Taylor, Alexa R Warwick, Ryan Skophammer, Josephine M Boyer, Renee C Geck, Kristin Gunkelman, Margaux Walson, Paul Andrew Rowley, Maitreya J Dunham
yEvo: A modular eukaryotic genetics and evolution research experience for high school students. Ecology and evolution 14 (1) (2024)
Joseph O Armstrong, Pengyao Jiang, Skyler Tsai, Megan My-Ngan Phan, Kelley Harris, Maitreya J Dunham
URA6 mutations provide an alternative mechanism for 5-FOA resistance in Saccharomyces cerevisiae . bioRxiv : the preprint server for biology (2024)
Nicholas R Powell, Renee C Geck, Dongbing Lai, Tyler Shugg, Todd C Skaar, Maitreya J Dunham
Functional Analysis of G6PD Variants Associated With Low G6PD Activity in the All of Us Research Program. medRxiv : the preprint server for health sciences (2024)
Renee C Geck, Naomi G Moresi, Leah M Anderson, null null, Rebecca Brewer, Timothy R Renz, Matthew Bryce Taylor, Maitreya J Dunham
Experimental evolution of S. cerevisiae for caffeine tolerance alters multidrug resistance and TOR signaling pathways. bioRxiv : the preprint server for biology (2024)
Nicholas R Powell, Renee C Geck, Dongbing Lai, Tyler Shugg, Todd C Skaar, Maitreya J Dunham
Functional Analysis of G6PD Variants Associated With Low G6PD Activity in the All of Us Research Program. medRxiv : the preprint server for health sciences (2024)
Renee C Geck, Naomi G Moresi, Leah M Anderson, null null, Rebecca Brewer, Timothy R Renz, M Bryce Taylor, Maitreya J Dunham
Experimental evolution of S. cerevisiae for caffeine tolerance alters multidrug resistance and TOR signaling pathways. G3 (Bethesda, Md.) (2024)
Nicholas R Powell, Renee C Geck, Dongbing Lai, Tyler Shugg, Todd C Skaar, Maitreya J Dunham
Functional Analysis of G6PD Variants Associated With Low G6PD Activity in the All of Us Research Program. medRxiv : the preprint server for health sciences (2024)
Jochen Weile, Gabrielle Ferra, Gabriel Boyle, Sriram Pendyala, Clara Amorosi, Chiann-Ling C Yeh, Atina G Cote, Nishka Kishore, Daniel Tabet, Warren van Loggerenberg, Ashyad Rayhan, Douglas M Fowler, Maitreya J Dunham, Frederick P Roth
Pacybara: accurate long-read sequencing for barcoded mutagenized allelic libraries. Bioinformatics (Oxford, England) 40 (4) (2024)
Renee C Geck, Naomi G Moresi, Leah M Anderson, null null, Rebecca Brewer, Timothy R Renz, M Bryce Taylor, Maitreya J Dunham
Experimental evolution of S. cerevisiae for caffeine tolerance alters multidrug resistance and TOR signaling pathways. G3 (Bethesda, Md.) (2024)
Joseph O Armstrong, Pengyao Jiang, Skyler Tsai, Megan My-Ngan Phan, Kelley Harris, Maitreya J Dunham
URA6 mutations provide an alternative mechanism for 5-FOA resistance in Saccharomyces cerevisiae . bioRxiv : the preprint server for biology (2024)
Jochen Weile, Gabrielle Ferra, Gabriel Boyle, Sriram Pendyala, Clara Amorosi, Chiann-Ling C Yeh, Atina G Cote, Nishka Kishore, Daniel Tabet, Warren van Loggerenberg, Ashyad Rayhan, Douglas M Fowler, Maitreya J Dunham, Frederick P Roth
Pacybara: accurate long-read sequencing for barcoded mutagenized allelic libraries. Bioinformatics (Oxford, England) 40 (4) (2024)
Matthew Bryce Taylor, Alexa R Warwick, Ryan Skophammer, Josephine M Boyer, Renee C Geck, Kristin Gunkelman, Margaux Walson, Paul Andrew Rowley, Maitreya J Dunham
yEvo: A modular eukaryotic genetics and evolution research experience for high school students. Ecology and evolution 14 (1) (2024)
Riddhiman K Garge, Renee C Geck, Joseph O Armstrong, Barbara Dunn, Daniel R Boutz, Anna Battenhouse, Mario Leutert, Vy Dang, Pengyao Jiang, Dusan Kwiatkowski, Thorin Peiser, Hoyt McElroy, Edward M Marcotte, Maitreya J Dunham
Systematic Profiling of Ale Yeast Protein Dynamics across Fermentation and Repitching. G3 (Bethesda, Md.) (2023)
Naomi G Moresi, Renee C Geck, Ryan Skophammer, Dennis Godin, null null, Matthew Bryce Taylor, Maitreya J Dunham
Caffeine-tolerant mutations selected through an at-home yeast experimental evolution teaching lab. bioRxiv : the preprint server for biology (2023)
Naomi G Moresi, Renee C Geck, Ryan Skophammer, Dennis Godin, null null, Matthew Bryce Taylor, Maitreya J Dunham
Caffeine-tolerant mutations selected through an at-home yeast experimental evolution teaching lab. bioRxiv : the preprint server for biology (2023)
Abigail Keller, Lucy L Gao, Daniela M Witten, Maitreya J Dunham
Condition-dependent fitness effects of large synthetic chromosome amplifications. bioRxiv : the preprint server for biology (2023)
Riddhiman K Garge, Renee C Geck, Joseph O Armstrong, Barbara L Dunn, Daniel R Boutz, Anna M Battenhouse, Mario Leutert, Vy Dang, Pengyao Jiang, Dusan Kwiatkowski, Thorin Peiser, Hoyt McElroy, Edward M Marcotte, Maitreya J Dunham
Systematic Profiling of Ale Yeast Protein Dynamics across Fermentation and Repitching. bioRxiv : the preprint server for biology (2023)
Riddhiman K Garge, Renee C Geck, Joseph O Armstrong, Barbara Dunn, Daniel R Boutz, Anna Battenhouse, Mario Leutert, Vy Dang, Pengyao Jiang, Dusan Kwiatkowski, Thorin Peiser, Hoyt McElroy, Edward M Marcotte, Maitreya J Dunham
Systematic Profiling of Ale Yeast Protein Dynamics across Fermentation and Repitching. G3 (Bethesda, Md.) (2023)
Matthew Bryce Taylor, Ryan Skophammer, Alexa R Warwick, Renee C Geck, Josephine M Boyer, null null, Margaux Walson, Christopher R L Large, Angela Shang-Mei Hickey, Paul Andrew Rowley, Maitreya J Dunham
yEvo: experimental evolution in high school classrooms selects for novel mutations that impact clotrimazole resistance in Saccharomyces cerevisiae. G3 (Bethesda, Md.) 12 (11) (2022)
Anja R Ollodart, Chiann-Ling C Yeh, Aaron W Miller, Brian H Shirts, Adam S Gordon, Maitreya J Dunham
Multiplexing mutation rate assessment: determining pathogenicity of Msh2 variants in Saccharomyces cerevisiae. Genetics 218 (2) (2022)
Chiann-Ling C Yeh, Clara J Amorosi, Soyeon Showman, Maitreya J Dunham
PacRAT: a program to improve barcode-variant mapping from PacBio long reads using multiple sequence alignment. Bioinformatics (Oxford, England) 38 (10) (2022)
Matt Kaeberlein, Alessandro Bitto, Maitreya J Dunham, Warren Ladiges, Su-In Lee, Michael J MacCoss, Alexander Richard Mendenhall, Daniel E L Promislow, Peter S Rabinovitch, Judit Vill N, Lu Wang, Yuliang Wang, Jessica E Young
University of Washington Nathan Shock Center: innovation to advance aging research. GeroScience 43 (5) (2021)
Pengyao Jiang, Anja R Ollodart, Vidha Sudhesh, Alan J Herr, Maitreya J Dunham, Kelley Harris
A modified fluctuation assay reveals a natural mutator phenotype that drives mutation spectrum variation within Saccharomyces cerevisiae. eLife 10 (2021)
Allegra Terhorst, Arzu Sandikci, Abigail Keller, Charles A Whittaker, Maitreya J Dunham, Angelika Amon
The environmental stress response causes ribosome loss in aneuploid yeast cells. Proceedings of the National Academy of Sciences of the United States of America 117 (29) (2020)
Monica R Sanchez, Celia Payen, Frances Cheong, Blake T Hovde, Sarah Bissonnette, Adam P Arkin, Jeffrey M Skerker, Rachel B Brem, Amy A Caudy, Maitreya J Dunham
Transposon insertional mutagenesis in Saccharomyces uvarum reveals trans-acting effects influencing species-dependent essential genes. Genome research 29 (3) (2019)
Caiti Smukowski Heil, Christopher R L Large, Kira Patterson, Angela Shang-Mei Hickey, Chiann-Ling C Yeh, Maitreya J Dunham
Temperature preference can bias parental genome retention during hybrid evolution. PLoS genetics 15 (9) (2019)
Samuel M Lancaster, Celia Payen, Caiti Smukowski Heil, Maitreya J Dunham
Fitness benefits of loss of heterozygosity in Saccharomyces hybrids. Genome research 29 (10) (2019)
Joseph C Sanchez, Anja R Ollodart, Christopher R L Large, Courtnee A Clough, Gina M Alvino, Mitsuhiro Tsuchiya, Matthew Crane, Elizabeth X Kwan, Matt Kaeberlein, Maitreya J Dunham, M K Raghuraman, Bonita J Brewer
Phenotypic and Genotypic Consequences of CRISPR/Cas9 Editing of the Replication Origins in the rDNA of Saccharomyces cerevisiae. Genetics 213 (1) (2019)
Seungsoo Kim, Maitreya J Dunham, Jay Shendure
A combination of transcription factors mediates inducible interchromosomal contacts. eLife 8 (2019)
Justin C Fay, Ping Liu, Giang T Ong, Maitreya J Dunham, Gareth A Cromie, Eric W Jeffery, Catherine L Ludlow, Aimeé M Dudley
A polyploid admixed origin of beer yeasts derived from European and Asian wine populations. PLoS biology 17 (3) (2019)
Melissa Chiasson, Maitreya J Dunham, Allan E Rettie, Douglas M Fowler
Applying Multiplex Assays to Understand Variation in Pharmacogenes. Clinical pharmacology and therapeutics 106 (2) (2019)
Derek M Bickhart, Benjamin D Rosen, Sergey Koren, Brian L Sayre, Alex R Hastie, Saki Chan, Joyce Lee, Ernest T Lam, Ivan Liachko, Shawn T Sullivan, Joshua N Burton, Heather Jay Huson, John C Nystrom, Christy M Kelley, Jana L Hutchison, Yang Zhou, Jiajie Sun, Alessandra Crisà, Federico Abel Ponce de León, John C Schwartz, John A Hammond, Geoffrey C Waldbieser, Steven G Schroeder, George E Liu, Maitreya J Dunham, Jay Shendure, Tad S Sonstegard, Adam M Phillippy, Curtis P Van Tassell, Timothy P L Smith
Single-molecule sequencing and chromatin conformation capture enable de novo reference assembly of the domestic goat genome. Nature genetics 49 (4) (2017)
Elyse A Hope, Clara J Amorosi, Aaron W Miller, Kolena Dang, Caiti Smukowski Heil, Maitreya J Dunham
Experimental Evolution Reveals Favored Adaptive Routes to Cell Aggregation in Yeast. Genetics 206 (2) (2017)
Caiti Smukowski Heil, Joshua N Burton, Ivan Liachko, Anne Friedrich, Noah A Hanson, Cody L Morris, Joseph Schacherer, Jay Shendure, James H Thomas, Maitreya J Dunham
Identification of a novel interspecific hybrid yeast from a metagenomic spontaneously inoculated beer sample using Hi-C. Yeast (Chichester, England) 35 (1) (2017)
Monica R Sanchez, Aaron W Miller, Ivan Liachko, Anna B Sunshine, Bryony Lynch, Mei Huang, Erica Alcantara, Christopher G DeSevo, Dave A Pai, Cheryl M Tucker, Margaret L Hoang, Maitreya J Dunham
Differential paralog divergence modulates genome evolution across yeast species. PLoS genetics 13 (2) (2017)
Seungsoo Kim, Ivan Liachko, Donna G Brickner, Kate Cook, William S Noble, Jason H Brickner, Jay Shendure, Maitreya J Dunham
The dynamic three-dimensional organization of the diploid yeast genome. eLife 6 (2017)
Céline Callens, Nelson C Coelho, Aaron W Miller, Maria Rosa Domingo Sananes, Maitreya J Dunham, Matthieu Denoual, Damien Coudreuse
A multiplex culture system for the long-term growth of fission yeast cells. Yeast (Chichester, England) 34 (8) (2017)
Laura S Burrack, Hannah F Hutton, Kathleen J Matter, Shelly Applen Clancey, Ivan Liachko, Alexandra E Plemmons, Amrita Saha, Erica A Power, Breanna Turman, Mathuravani Aaditiyaa Thevandavakkam, Ferhat Ay, Maitreya J Dunham, Judith Berman
Neocentromeres Provide Chromosome Segregation Accuracy and Centromere Clustering to Multiple Loci along a Candida albicans Chromosome. PLoS genetics 12 (9) (2016)
Celia Payen, Anna B Sunshine, Giang T Ong, Jamie L Pogachar, Wei Zhao, Maitreya J Dunham
High-Throughput Identification of Adaptive Mutations in Experimentally Evolved Yeast Populations. PLoS genetics 12 (10) (2016)
Matthew S Rich, Celia Payen, Alan F Rubin, Giang T Ong, Monica R Sanchez, Nozomu Yachie, Maitreya J Dunham, Stanley Fields
Comprehensive Analysis of the SUL1 Promoter of Saccharomyces cerevisiae. Genetics 203 (1) (2016)

Maitreya J Dunham.css-eqlu8i{font-size:small;padding-left:4px;} (Maitreya Dunham)

Publication Activity (10 Years)

Top Topics

Top Venues

Maitreya J Dunham (Maitreya Dunham)