Publications by authors named "Elizabeth Purdom"

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Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics.
Kelly Street, Davide Risso, Russell B Fletcher, Diya Das, John Ngai, Nir Yosef, Elizabeth Purdom, Sandrine Dudoit

BMC Genomics· June 2018

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Holo-omics disentangle drought response and biotic interactions among plant, endophyte and pathogen.
Peilin Chen, Qingyi Yu, Cong Wang, Liliam Montoya, Patrick T West, Elizabeth Purdom

New Phytol· June 2025

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A Latent Activated Olfactory Stem Cell State Revealed by Single-Cell Transcriptomic and Epigenomic Profiling.
Koen Van den Berge, Dana Bakalar, Hsin-Jung Chou, Divya Kunda, Davide Risso, Elizabeth Purdom

bioRxiv· March 2025

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Visualizing scRNA-Seq data at population scale with GloScope.
Hao Wang, William Torous, Boying Gong, Elizabeth Purdom

Genome Biol· October 2024

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Visualizing scRNA-Seq Data at Population Scale with GloScope.
Hao Wang, William Torous, Boying Gong, Elizabeth Purdom

bioRxiv· August 2024

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Improving replicability in single-cell RNA-Seq cell type discovery with Dune.
Hector Roux de Bézieux, Kelly Street, Stephan Fischer, Koen Van den Berge, Rebecca Chance, Elizabeth Purdom

BMC Bioinformatics· May 2024

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A single-cell atlas of IL-23 inhibition in cutaneous psoriasis distinguishes clinical response.
David Wu, Ashley A Hailer, Sijia Wang, Michelle Yuan, Jamie Chan, Elizabeth Purdom

Sci Immunol· January 2024

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Successional adaptive strategies revealed by correlating arbuscular mycorrhizal fungal abundance with host plant gene expression.
Cheng Gao, Pierre-Emmanuel Courty, Nelle Varoquaux, Benjamin Cole, Liliam Montoya, Elizabeth Purdom

Mol Ecol· May 2023

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Defining Patient-Level Molecular Heterogeneity in Psoriasis Vulgaris Based on Single-Cell Transcriptomics.
Yale Liu, Hao Wang, Christopher Cook, Mark A Taylor, Jeffrey P North, Elizabeth Purdom

Front Immunol· August 2022

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A single-cell transcriptional gradient in human cutaneous memory T cells restricts Th17/Tc17 identity.
Christopher P Cook, Mark Taylor, Yale Liu, Ralf Schmidt, Andrew Sedgewick, Elizabeth Purdom

Cell Rep Med· August 2022

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Co-occurrence networks reveal more complexity than community composition in resistance and resilience of microbial communities.
Cheng Gao, Ling Xu, Liliam Montoya, Mary Madera, Joy Hollingsworth, Elizabeth Purdom

Nat Commun· July 2022

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Classification of human chronic inflammatory skin disease based on single-cell immune profiling.
Yale Liu, Hao Wang, Mark Taylor, Christopher Cook, Alejandra Martínez-Berdeja, Elizabeth Purdom

Sci Immunol· April 2022

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Cobolt: integrative analysis of multimodal single-cell sequencing data.
Boying Gong, Yun Zhou, Elizabeth Purdom

Genome Biol· December 2021

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Cell Wall Compositions of Leaves and Roots Remain Relatively Constant Under Drought Conditions.
Tess Scavuzzo-Duggan, Nelle Varoquaux, Mary Madera, John P Vogel, Jeffery Dahlberg, Elizabeth Purdom

Front Plant Sci· November 2021

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A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex.
Zizhen Yao, Hanqing Liu, Fangming Xie, Stephan Fischer, Ricky S Adkins, Elizabeth Purdom

Nature· October 2021

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Genome-resolved metagenomics reveals role of iron metabolism in drought-induced rhizosphere microbiome dynamics.
Ling Xu, Zhaobin Dong, Dawn Chiniquy, Grady Pierroz, Siwen Deng, Elizabeth Purdom

Nat Commun· May 2021

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mbkmeans: Fast clustering for single cell data using mini-batch k-means.
Stephanie C Hicks, Ruoxi Liu, Yuwei Ni, Elizabeth Purdom, Davide Risso

PLoS Comput Biol· January 2021

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Non-neuronal expression of SARS-CoV-2 entry genes in the olfactory system suggests mechanisms underlying COVID-19-associated anosmia.
David H Brann, Tatsuya Tsukahara, Caleb Weinreb, Marcela Lipovsek, Koen Van den Berge, Elizabeth Purdom

Sci Adv· July 2020

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MethCP: Differentially Methylated Region Detection with Change Point Models.
Boying Gong, Elizabeth Purdom

J Comput Biol· April 2020

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Fungal community assembly in drought-stressed sorghum shows stochasticity, selection, and universal ecological dynamics.
Cheng Gao, Liliam Montoya, Ling Xu, Mary Madera, Joy Hollingsworth, Elizabeth Purdom

Nat Commun· January 2020

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Transcriptomic analysis of field-droughted sorghum from seedling to maturity reveals biotic and metabolic responses.
Nelle Varoquaux, Benjamin Cole, Cheng Gao, Grady Pierroz, Christopher R Baker, Elizabeth Purdom

Proc Natl Acad Sci U S A· December 2019

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A20 and ABIN1 Suppression of a Keratinocyte Inflammatory Program with a Shared Single-Cell Expression Signature in Diverse Human Rashes.
Paymann Harirchian, Jerry Lee, Stephanie Hilz, Andrew J Sedgewick, Bethany E Perez White, Elizabeth Purdom

J Invest Dermatol· June 2019

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Performance Assessment and Selection of Normalization Procedures for Single-Cell RNA-Seq.
Michael B Cole, Davide Risso, Allon Wagner, David DeTomaso, John Ngai, Elizabeth Purdom

Cell Syst· April 2019

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Strong succession in arbuscular mycorrhizal fungal communities.
Cheng Gao, Liliam Montoya, Ling Xu, Mary Madera, Joy Hollingsworth, Elizabeth Purdom

ISME J· January 2019

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Transcriptional Programming of Normal and Inflamed Human Epidermis at Single-Cell Resolution.
Jeffrey B Cheng, Andrew J Sedgewick, Alex I Finnegan, Paymann Harirchian, Jerry Lee, Elizabeth Purdom

Cell Rep· October 2018

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clusterExperiment and RSEC: A Bioconductor package and framework for clustering of single-cell and other large gene expression datasets.
Davide Risso, Liam Purvis, Russell B Fletcher, Diya Das, John Ngai, Elizabeth Purdom

PLoS Comput Biol· September 2018

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