Publications

Informative community structure revealed using Arabidopsis time series transcriptome data via partitioned local depth

Khoury, MG, , Berenhaut, KS, Moore, KE, Allen, EE, Harkey, AF, Mühlemann, JK, Craven, CN, Xu, J, Jain, SS, John, DJ, Norris, JL, Muday, GK

In Silico Plants (2024)

DOI: 10.1093/insilicoplants/diad018

A new tool for discovering transcriptional regulators of co-expressed genes predicts gene regulatory networks that mediate ethylene-controlled root development

Harkey, AF, Sims, KN, Muday, GK

In Silico Plants (2020)

DOI: 10.1093/insilicoplants/diaa006

Time series adjustment enhancement of hierarchical modeling of Arabidopsis thaliana gene interactions

Allen, EE, Farrell, J, Harkey, AF, John, DJ, Muday, GK, Norris, JL, Wu, B, Martin-Vide, C, Vega-Rodriguez, M, Wheeler, T

AlCoB 2020: Algorithms for Computational Biology (2020) 143-1544

DOI: 10.1007/978-3-030-42266-0_11

Light-modulates ethylene synthesis, signaling, and downstream transcriptional networks to control plant development.

Harkey, AF, Yoon, GM, Seo, DH, DeLong, A, Muday, GK

Front. Plant Sci. (2019) 10:1094

DOI: 10.3389/fpls.2019.01094

A BCHC genetic algorithm model of cotemporal hierarchical Arabidopsis thaliana gene interactions

LaPoint BA, John DJ, Norris JL, Allen EE, Harkey AF, Muhlemann JK, Muday GK.

Proceedings of IEEE BIBM 2018 (2018) 2701-

Arabidopsis thaliana Computationally Generated Next State Gene Interaction Models

LaPoint BA, John DJ, Norris JL, Harkey AF, Muhlemann JK, Muday GK.

Proceedings of the International Conference on Systems Engineering 2018 (2018) Universidad de Lima; Lima, Peru

Identification of Transcriptional and Receptor Networks That Control Root Responses to Ethylene

Harkey AF, Watkins J, Olex AL, DiNapoli KT, Lewis D, Binder B, Fetrow JS, Muday GK.

Plant Physiol. (2018) 176(3):2095-2118

DOI: 10.1104/pp.17.00907

Defluorination of 4-fluorophenol by cytochrome P450BM3-F87G: activation by long chain fatty aldehydes.

Harkey AF, Kim H-J, Kandagatla S, Raner GM.

Biotechnol. Lett. (2012) 34(9):1725-1731.

DOI: 10.1007/s10529-012-0957-9

Presentations

Understanding gene regulatory networks using meta-analyses and modeling time course transcriptomics

Seminar, 2019, Center for Molecular Signaling Retreat

Wake Forest University

Computational and Genetic Approaches to Uncover Ethylene Transcriptional Networks that Regulate Root Development

Seminar, 2018, The XI International Symposium on the Plant Hormone Ethylene

Chania, Crete, Greece

Branching Roots, Branching Networks: Transcriptional Networks Mediating Hormone Effects on Root Development

Seminar, 2018, Research in Progress Seminar Series, Biology Department

Wake Forest University

Transcriptional Networks Mediating Hormone Effects on Root Development

Poster, 2018, Graduate Student and Post-doc Research Day

Wake Forest University

Arabidopsis Gene Regulatory Networks That Control Root Responses to Ethylene

Seminar, 2017, Molecular Genetics and Genomics Seminar Series

Wake Forest University

Time Course Transcriptomics to Identify Transcription Factor Networks That Control Development

Seminar, 2017, Center for Molecular Signaling Retreat

Wake Forest University

Using Time Course Transcriptome Data to Examine Hormone Responses

Seminar, 2016, Molecular Genetics and Genomics Seminar Series

Wake Forest University

Arabidopsis Gene Regulatory Networks That Control Root Responses to Ethylene

Seminar, 2016, Plant Molecular Biology Consortium Retreat, North Carolina Biotechnology Center

Wilmington, NC

Transcriptional Networks Modulating Root Developmental Responses to Ethylene in Arabidopsis

Poster, 2016, International Plant Growth Substances Association Meeting

Toronto, Canada

Using Time-Course Transcriptome Data to Elucidate Ethylene Receptor and Transcription Factor Networks Controlling Arabidopsis Root Development

Poster, 2015, American Society of Plant Biologists Meeting

Minneapolis, MN

Temporal Analysis of Transcription Factor Networks that Mediate Ethylene Regulation of Root Growth

Seminar, 2015, Molecular Genetics and Genomics Seminar Series

Wake Forest University

Predicting Next State Relationships in Time Course Transcriptome Data

Seminar, 2015, Center for Molecular Communication and Signaling Seminar Series

Wake Forest University

Dehalogenation of halophenols by Cytochrome P450BM3-F87G: stimulation by fatty aldehydes

Seminar, 2012, Undergraduate Research Excellence Symposium

Chemistry & Biochemistry Department, UNC-Greensboro

Dehalogenation of halophenols by Cytochrome P450BM3-F87G: stimulation by fatty aldehydes

Poster, 2011, Southeastern Regional Meeting of the American Chemical Society

Richmond, VA