Publications by authors named "Andrew C Adey"

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The Prolyl Isomerase PIN1 Affects Fibroblast Differentiation States and Cross-talk in Pancreatic Cancer.
Chloe L Bowman, Colin J Daniel, Eric J Carlson, Vidhi M Shah, Amy S Farrell, Andrew C Adey

Cancer Res· December 2025

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Single-cell DNA methylation analysis tool Amethyst resolves distinct non-CG methylation patterns in human astrocytes and oligodendrocytes.
Lauren E Rylaarsdam, Benjamin W Skubi, Ruth V Nichols, Brendan L O'Connell, Jack Henry Kotnik, Andrew C Adey

Commun Biol· October 2025

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Dual states of murine Bmi1-expressing intestinal stem cells drive epithelial development utilizing non-canonical Wnt signaling.
Nicholas R Smith, Nicole R Giske, Sidharth K Sengupta, Patrick Conley, John R Swain, Andrew C Adey

Dev Cell· August 2025

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Atlas-scale single-cell DNA methylation profiling with sciMETv3.
Ruth V Nichols, Lauren E Rylaarsdam, Brendan L O'Connell, Zohar Shipony, Nika Iremadze, Andrew C Adey

Cell Genom· January 2025

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Ongoing replication stress tolerance and clonal T cell responses distinguish liver and lung recurrence and outcomes in pancreatic cancer.
Jason M Link, Jennifer R Eng, Carl Pelz, Kevin MacPherson-Hawthorne, Patrick J Worth, Andrew C Adey

Nat Cancer· January 2025

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Single-cell DNA methylation analysis tool Amethyst reveals distinct noncanonical methylation patterns in human glial cells.
Lauren E Rylaarsdam, Ruth V Nichols, Brendan L O'Connell, Stephen Coleman, Galip Gürkan Yardımcı, Andrew C Adey

bioRxiv· September 2024

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Multiplex imaging of localized prostate tumors reveals altered spatial organization of AR-positive cells in the microenvironment.
Çiğdem Ak, Zeynep Sayar, Guillaume Thibault, Erik A Burlingame, M J Kuykendall, Andrew C Adey

iScience· September 2024

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sciMET-cap: high-throughput single-cell methylation analysis with a reduced sequencing burden.
Sonia N Acharya, Ruth V Nichols, Lauren E Rylaarsdam, Brendan L O'Connell, Theodore P Braun, Andrew C Adey

Genome Biol· July 2024

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Systematic benchmarking of single-cell ATAC-sequencing protocols.
Florian V De Rop, Gert Hulselmans, Chris Flerin, Paula Soler-Vila, Albert Rafels, Andrew C Adey

Nat Biotechnol· June 2024

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txci-ATAC-seq: a massive-scale single-cell technique to profile chromatin accessibility.
Hao Zhang, Ryan M Mulqueen, Natalie Iannuzo, Dominique O Farrera, Francesca Polverino, Andrew C Adey

Genome Biol· March 2024

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Accessible high-throughput single-cell whole-genome sequencing with paired chromatin accessibility.
Konstantin Queitsch, Travis W Moore, Brendan L O'Connell, Ruth V Nichols, John L Muschler, Andrew C Adey

Cell Rep Methods· November 2023

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Meet the author: Andrew Adey.
Andrew C Adey

Cell Rep Methods· November 2023

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sciMET-cap: High-throughput single-cell methylation analysis with a reduced sequencing burden.
Sonia N Acharya, Ruth V Nichols, Lauren E Rylaarsdam, Brendan L O'Connell, Theodore P Braun, Andrew C Adey

bioRxiv· July 2023

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BET inhibitors rescue anti-PD1 resistance by enhancing TCF7 accessibility in leukemia-derived terminally exhausted CD8 T cells.
Kyle A Romine, Kevin MacPherson, Hyun-Jun Cho, Yoko Kosaka, Patrick A Flynn, Andrew C Adey

Leukemia· March 2023

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Supervised learning of high-confidence phenotypic subpopulations from single-cell data.
Tao Ren, Canping Chen, Alexey V Danilov, Susan Liu, Xiangnan Guan, Andrew C Adey

bioRxiv· March 2023

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Atlas-scale single-cell chromatin accessibility using nanowell-based combinatorial indexing.
Brendan L O'Connell, Ruth V Nichols, Dmitry Pokholok, Jerushah Thomas, Sonia N Acharya, Andrew C Adey

Genome Res· February 2023

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High-throughput robust single-cell DNA methylation profiling with sciMETv2.
Ruth V Nichols, Brendan L O'Connell, Ryan M Mulqueen, Jerushah Thomas, Ashley R Woodfin, Andrew C Adey

Nat Commun· December 2022

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Shared and Distinct Functional Effects of Patient-Specific Mutations on Cortical Development.
Marissa Co, Rebecca A Barnard, Jennifer N Jahncke, Sally Grindstaff, Lev M Fedorov, Andrew C Adey

J Neurosci· September 2022

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Cas12a-Capture: A Novel, Low-Cost, and Scalable Method for Targeted Sequencing.
Taylor L Mighell, Andrew Nishida, Brendan L O'Connell, Caitlin V Miller, Sally Grindstaff, Andrew C Adey

CRISPR J· August 2022

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Identifying phenotype-associated subpopulations by integrating bulk and single-cell sequencing data.
Duanchen Sun, Xiangnan Guan, Amy E Moran, Ling-Yun Wu, David Z Qian, Andrew C Adey

Nat Biotechnol· April 2022

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High-content single-cell combinatorial indexing.
Ryan M Mulqueen, Dmitry Pokholok, Brendan L O'Connell, Casey A Thornton, Fan Zhang, Andrew C Adey

Nat Biotechnol· December 2021

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Epigenetic loss of heterogeneity from low to high grade localized prostate tumours.
Sebnem Ece Eksi, Alex Chitsazan, Zeynep Sayar, George V Thomas, Andrew J Fields, Andrew C Adey

Nat Commun· December 2021

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Tagmentation-based single-cell genomics.
Andrew C Adey

Genome Res· October 2021

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Neutralization of SARS-CoV-2 variants by convalescent and BNT162b2 vaccinated serum.
Timothy A Bates, Hans C Leier, Zoe L Lyski, Savannah K McBride, Felicity J Coulter, Andrew C Adey

Nat Commun· August 2021

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Age-dependent transcriptional alterations in cardiac endothelial cells.
Uchenna Emechebe, Jonathan W Nelson, Nabil J Alkayed, Sanjiv Kaul, Andrew C Adey

Physiol Genomics· July 2021

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