{"id":69,"date":"2018-11-15T13:39:56","date_gmt":"2018-11-15T18:39:56","guid":{"rendered":"https:\/\/scienceweb.wpengine.com\/?page_id=69"},"modified":"2026-02-06T13:41:54","modified_gmt":"2026-02-06T18:41:54","slug":"publications","status":"publish","type":"page","link":"https:\/\/scienceweb.clemson.edu\/ihg\/publications\/","title":{"rendered":"Publications"},"content":{"rendered":"

[et_pb_section fb_built=”1″ admin_label=”section” _builder_version=”4.16″ global_colors_info=”{}”][et_pb_row _builder_version=”4.27.4″ _module_preset=”default” global_colors_info=”{}”][et_pb_column type=”4_4″ _builder_version=”4.27.4″ _module_preset=”default” global_colors_info=”{}”][et_pb_heading title=”Recent Publications by IHG Affiliates” _builder_version=”4.27.5″ _module_preset=”default” title_text_align=”center” hover_enabled=”0″ global_colors_info=”{}” title_font=”Georgia||||||||” title_font_size=”53.75px” sticky_enabled=”0″][\/et_pb_heading][\/et_pb_column][\/et_pb_row][et_pb_row _builder_version=”4.27.4″ _module_preset=”default” global_colors_info=”{}”][et_pb_column type=”4_4″ _builder_version=”4.27.4″ _module_preset=”default” global_colors_info=”{}”][et_pb_accordion _builder_version=”4.27.5″ _module_preset=”default” toggle_level=”h2″ toggle_font=”Georgia|700|||||||” toggle_text_align=”center” use_background_color_gradient=”on” background_color_gradient_stops=”#f56600 0%|#522d80 100%” hover_enabled=”0″ global_colors_info=”{}” toggle_font_size=”44.79px” sticky_enabled=”0″ body_font=”Georgia||||||||” body_font_size=”20px”][et_pb_accordion_item title=”2025″ open=”on” _builder_version=”4.27.4″ _module_preset=”default” global_colors_info=”{}”]<\/p>\n

Che R.,\u00a0Mirani B.,\u00a0Panah M., Chen X., Luo H., and Alexandrov A.\u00a0(2025<\/strong>)\u00a0Identification of RMP24 and RMP64, Human Ribonuclease MRP-Specific Protein Components.\u00a0Cell Reports<\/em><\/strong>\u00a0https:\/\/doi.org\/10.1016\/j.celrep.2025.115752<\/a><\/p>\n

Che R., Panah M., Mirani B., Knowles K., Ostapovich A., Majumdar D., Chen X., DeSimone J., White W., Noonan M., Luo H., and\u00a0Alexandrov, A.\u00a0(2025<\/strong>) Identification of Human Pathways Acting on Nuclear Non-Coding RNAs Using the Mirror Forward Genetic Approach.\u00a0Nature Communications<\/em>\u00a0<\/strong>https:\/\/doi.org\/10.1038\/s41467-025-59998-3<\/a><\/p>\n

Tan S, Carbone MA, Zhou S, Morozova T, Arya G, Zhang F, Anholt RRH, Huang W and Mackay TFC. 2025. Systems genetics of Drosophila aging. Cell Rep<\/em>, submitted.<\/p>\n

Chaturvedi A, Shankar V, Simkhada B, Lyman RA, Freymuth P, Howansky E, Collins KM, Mackay TFC and Anholt RRH. 2025. Arsenic toxicity in the Drosophila brain at single cell resolution. Front Toxicol,<\/em> submitted<\/p>\n

Simkhada B, Nazario-Yepiz NO, Freymuth PS, Lyman RA, Shankar V, Wiggins K, Flanagan-Steet H, Basu A, Weiss RJ, Anholt RRH and Mackay TFC. 2025. A Drosophila model for mucopolysaccharidosis IIIB. Genetics<\/em> 229,<\/strong> iyae219.<\/p>\n

Chaturvedi A<\/strong>, Shankar V, Simkhada B, Lyman R A, Freymuth P, Howansky E, Collins K M, Mackay T F C, Anholt R R H (2025) Arsenic Toxicity in the Drosophila Brain at Single Cell Resolution, BioRxiv preprint: https:\/\/www.biorxiv.org\/content\/10.1101\/2025.04.09.647950v1<\/a>.<\/p>\n

[\/et_pb_accordion_item][et_pb_accordion_item title=”2024″ _builder_version=”4.27.4″ _module_preset=”default” global_colors_info=”{}” open=”off”]<\/p>\n

Collins KM, Howansky E, Macon-Foley SC, Adonay ME, Shankar V, Lyman RF, Nazario-Yepiz NO, Brooks, JK, Lyman RA, Mackay TFC and Anholt RRH. 2024. Drosophila toxicogenomics: Genetic variation and sexual dimorphism in susceptibility to 4-methylimidazole. Hum Genomics<\/em> 18,<\/strong> 119<\/p>\n

Yamamoto A, Huang W, Carbone MA, Anholt RRH and Mackay TFC. 2024. The genetic basis of incipient sexual isolation in Drosophila melanogaster<\/em>. Proc Biol Sci<\/em> 291,<\/strong> 20240672.<\/p>\n

Yamamoto A, Huang W, Anholt RRH and Mackay TFC. 2024. The genetic basis of variation in Drosophila melanogaster<\/em> mating behavior. iScience<\/em> 27,<\/strong>109837.<\/p>\n

Alexandrov, A.,\u00a0Che, R., Mirani, B., Panah, M.\u00a0(2024<\/strong>)\u00a0Bacteria-Free Approach for Expressing Nucleic Acids and Proteins in Eukaryotic Cells.\u00a0U.S. Patent Application 18\/949,053<\/em>.<\/strong><\/p>\n

Ates I, Stuart C, Rathbone T, Barzi M, He G, Major AM, Shankar V<\/strong>, Lyman RA<\/strong>, Angner SS<\/strong>, Mackay TFC<\/strong>, Srinivasan S, Farris AB, Bissig, K-D and Cottle RN<\/strong>. 2024. Ex vivo gene editing and cell therapy for hereditary tyrosinemia type 1. Hepatol Commun<\/em> 8:<\/strong> e0424.<\/p>\n

Bai X, Duren Z<\/strong>, Wan L and Xia LC. 2024. Joint inference of clonal structure using single-cell genome and transcriptome sequencing data. NAR Genom Bioinform<\/em> 6:<\/strong> lqae017.<\/p>\n

Dai S, Davidson J, Ullmer B, Newman WE and Konkel MK. <\/strong>\u00a02024. Generative AI syntheses of platform, content, visuals, and kinetics for cyberphysical computationally mediated posters and broader applications.\u00a0 Companion Proc. of ACM Intelligent User Interfaces (IUI)<\/em> pp. 45-49.<\/p>\n

Dasgupta S<\/strong>, Simonich MT and Tanguay RL. 2024. Developmental toxicity assessment using zebrafish-based high-throughput screening. Methods Mol Biol<\/em> 2707:<\/strong> 71-82.<\/p>\n

Feliciano DM.<\/strong> 2024. Do neural stem cell extracellular vesicles help evade depression? Neuroscience<\/em> 538: 93-94.<\/p>\n

Rini Pauly, Layla Johnson, F. Alex Feltus<\/strong>, and Emily Casanova. “Enrichment of Rare and Uncommon Neanderthal Polymorphisms in Autistic Probands and Siblings.” Molecular Psychiatry, 2024. https:\/\/doi.org\/10.1038\/s41380-024-02593-7<\/a><\/p>\n

Rini Pauly and F. Alex Feltus<\/strong>. “Simplified Detection of Genetic Background Admixture Using Artificial Intelligence.” Clinical Genetics, 2024. https:\/\/doi.org\/10.1111\/cge.14527<\/a><\/p>\n

Justin Presley, Xi Wang, Xusheng Ai, Tianyuan Yu, Tym Brandel, Proyash Podder, Varun Patil, Alex Afanasyev, F. Alex Feltus<\/strong>, Lixia Zhang, Susmit Shannigrahi. “‘Hydra: A Scalable Decentralized P2P Storage Federation for Large Scientific Datasets.” 2024 International Conference on Computing,<\/p>\n

Networking and Communications (ICNC), pages 1-7, 2024.<\/p>\n

Wendell J. Pereira, Jade Boyd, Daniel Conde, Paolo M. Triozzi, Kelly M. Balmant, Christopher Dervinis, Henry W. Schmidt, Carolina Boaventura-Novaes, Sanhita Chakraborty, Sara A. Knaack, Yueyao Gao, Frank Alexander Feltus<\/strong>, Sushmita Roy, Jean-Michel An\u00e9, Julia Frugoli, Matias Kirst. “The single-cell transcriptome program of nodule development cellular lineages in Medicago truncatula.” Cell Reports (43(2), 2024. https:\/\/doi.org\/10.1016\/j.celrep.2024.113747<\/a><\/p>\n

Forenzo C and Larsen J<\/strong>. 2024. Bridging clinical radiotherapy and space radiation therapeutics through reactive oxygen species (ROS)-triggered delivery. Free Radic Biol Med<\/em> 219:<\/strong> 88-103.<\/p>\n

Foster D, Cakley A and Larsen J<\/strong>. 2024. Optimizing enzyme-responsive polymersomes for protein-based therapies. Nanomedicine (Lond)<\/em> 19:<\/strong> 213-229.<\/p>\n

Foster D, Williams L, Arnold N and Larsen J<\/strong>. 2024. Therapeutic developments for neurodegenerative GM1 gangliosidosis. Front Neurosci<\/em> 18:<\/strong>1392683.<\/p>\n

Hogan MP, Holding ML, Nystrom GS, Colston TJ, Bartlett DA, Mason AJ, Ellsworth SA, Rautsaw RM, Lawrence KC, Strickland JL, He B, Fraser P, Margres MJ, Gilbert DM, Gibbs HL, Parkinson CL<\/strong> and Rokyta DR. 2024. The genetic regulatory architecture and epigenomic basis for age-related changes in rattlesnake venom. Proc Natl Acad Sci U S A<\/em> 121:<\/strong> e2313440121.<\/p>\n

Holmberg JC, Riley VA, Sokolov AM, Mukherjee S and Feliciano DM<\/strong>. 2024. Protocol for electroporating and isolating murine (sub)ventricular zone cells for single-nuclei omics. STAR Protoc<\/em> 5:<\/strong>103095.<\/p>\n

Jan S, Rustgi S<\/strong>, Barmukh R, Shikari AB, Leske B, Bekuma A, Sharma D, Ma W, Kumar U, Kumar U, Bohra A, Varshney RK and Mir RR. 2024. Advances and opportunities in unraveling cold-tolerance mechanisms in the world’s primary staple food crops. Plant Genome<\/em> 17: e20402.<\/p>\n

Jennings L, Walters HA, McCraw TJ, Turner JL and Mason JM<\/strong>. 2024. FBH1 deficiency sensitizes cells to WEE1 inhibition by promoting mitotic catastrophe. DNA Repair (Amst)<\/em> 133:<\/strong>103611.<\/p>\n

Konkel MK<\/strong> and Casanova EL. 2024. A mobile DNA sequence could explain tail loss in humans and apes. Nature<\/em> 626:<\/strong> 958-959.<\/p>\n

Kraft FH,Crino OL, Adeniran-Obey SO, Moraney RA, Clayton DF, George JM<\/strong> and Buchanan KL. 2024. Parental developmental experience affects vocal learning in offspring. Sci Rep<\/em> 14:<\/strong>13787.<\/p>\n

Lee JJ, Wang T, Wiggins K, Lu PN, Underwood C, Ochenkowska K, Samarut E, Pollard LM, Flanagan-Steet H<\/strong> and Steet R<\/strong>. 2024. Dysregulated lysosomal exocytosis drives protease-mediated cartilage pathogenesis in multiple lysosomal disorders. iScience <\/em>27:<\/strong>109293.<\/p>\n

Li X<\/strong>, Freeman N and Wang L. 2023. Q-learning based methods for dynamic treatment regimes. In: Y Zhao and D Chen (Eds) Precision Medicine: Methods and Applications<\/em>, Springer.<\/p>\n

Li X<\/strong>, Yu S, Wang Y, Wang G, Wang L and Lai M-J. 2024.\u00a0 Nonparametric regression for 3D point cloud learning. JMLR<\/em> 25:<\/strong>1-56.<\/p>\n

Lopez VK, Cramer EY, Pagano R, et al [109 authors, including Li X<\/strong>). 2024. Challenges of COVID-19 case forecasting in the US, 2020-2021. PLoS Comput Biol<\/em> 20:<\/strong> e1011200.<\/p>\n

Meher PK, Sahu TK, Gupta A, Kumar A and Rustgi S<\/strong>. 2024. ASRpro: A machine-learning computational model for identifying proteins associated with multiple abiotic stress in plants. Plant Genome<\/em> 17:<\/strong> e20259.<\/p>\n

Napolitano JM, Srikanth S, Noorai RE, Wilson S, Williams KE, Rosales-Garcia RA, Krueger B, Emerson C, Parker S, Pruitt J, Dango R, Iyer L, Shafi A, Jayawardena I, Parkinson CL<\/strong>, McMahan C<\/strong>, Rennert L, Peng CA and Dean D. 2024. SARS-CoV-2 variant introduction following spring break travel and transmission mitigation strategies. PLoS One<\/em> 19:<\/strong> e0301225.<\/p>\n

Neri-Castro E, Zarzosa V, Lomonte B, Zamudio F, Hernandez-Orihuela L, Olvera-Rodr\u00edguez A, Rodr\u00edguez-Sol\u00eds AM, Borja M, Garc\u00eda-V\u00e1zquez UO, Jones JM, Parkinson CL<\/strong> and Alag\u00f3n A. 2024. Exploring venom diversity in Mixcoatlus browni<\/em> and Mixcoatlus barbouri<\/em>: A comparative analysis of two rare Mexican snake species with crotoxin-like presence. Biochimie<\/em> 225:<\/strong> 81-88.<\/p>\n

Oladosu O, Chin E, Barksdale C, Powell RR, Bruce T and Stamatikos A<\/strong>. 2024. Inhibition of miR-33a-5p in macrophage-like cells in vitro promotes apoAI-mediated cholesterol efflux. Pathophysiology<\/em> 31:<\/strong>117-126.<\/p>\n

Pereira WJ, Boyd J, Conde D, Triozzi PM, Balmant KM, Dervinis C, Schmidt HW, Boaventura-Novaes C, Chakraborty S, Knaack SA, Gao Y, Feltus FA<\/strong>, Roy S, An\u00e9 JM, Frugoli J and Kirst M. 2024. The single-cell transcriptome program of nodule development cellular lineages in Medicago truncatula<\/em>. Cell Rep<\/em> 43:<\/strong>113747.<\/p>\n

Riley VA, Shankar V<\/strong>, Holmberg JC, Sokolov AM, Neckles VM, Williams K<\/strong>, Lyman RA<\/strong>, Mackay TFC<\/strong> and Feliciano DM<\/strong>. 2023. Tsc2 coordinates neuroprogenitor differentiation. iScience<\/em> 26<\/strong>:12.<\/p>\n

Self S, Yang Y, Walden H, Yabsley MJ, McMahan C<\/strong> and Herrin BH. 2024. A nowcast model to predict outdoor flea activity in real time for the contiguous United States. Parasit Vectors<\/em> 17:<\/strong> 27.<\/p>\n

Ullmer B, Dai S, Gomes De Siqueira A, McLendon IV M, Filipiak B, Shafiee L, Newman WE and Konkel MK. <\/strong>\u00a02024.\u00a0 Variations on a hexagon: Iterative design of interactive cyberphysical tokens and constraints.\u00a0 Proc. of ACM Tangible, Embedded, and Embodied Interaction<\/em> pp1-17.<\/p>\n

Wang Z, Rowe DB, Li X<\/strong> and Brown DA. 2024. A fully Bayesian approach for comprehensive mapping of magnitude and phase brain activation in complex-valued fMRI data. Magn Reson Imaging<\/em> 109:<\/strong> 271-285.<\/p>\n

Williams L and Larsen J<\/strong>. 2024. Nanoparticle-mediated delivery of non-viral gene editing technology to the brain. Prog Neurobiol<\/em> 232:<\/strong>102547.<\/p>\n

Worthington MA, Christie RH, Masino AJ<\/strong> and Kark SM. 2024. Identifying unmet needs in major depressive disorder using a computer-assisted alternative to conventional thematic analysis: Qualitative interview study with psychiatrists. JMIR Form Res<\/em> 8:<\/strong> e48894.<\/p>\n

Yamamoto A, Huang W, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2024. The genetic basis of variation in Drosophila melanogaster<\/em> mating behavior. iScience <\/em>27:<\/strong>109837.<\/p>\n

Yamamoto A, Huang W, Carbone MA, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2024. The genetic basis of incipient sexual isolation in Drosophila melanogaster<\/em>. Proc Biol Sci<\/em> 291:<\/strong> 20240672.<\/p>\n

Yang Y, McMahan CS<\/strong>, Wang YB and Ouyang Y. 2024. Estimation of l<\/em>0<\/sub> norm penalized models: A statistical treatment. Comput Stat Data Anal<\/em> 192:<\/strong>107902.<\/p>\n

Zhao S, Ijaodoro I, McGowan M and Alexov E<\/strong>. 2024. Calculation of electrostatic free energy for the nonlinear Poisson-Boltzmann model based on the dimensionless potential. J Comput Phys<\/em> 497:<\/strong>112634.<\/p>\n

[\/et_pb_accordion_item][et_pb_accordion_item title=”2023″ _builder_version=”4.27.4″ _module_preset=”default” global_colors_info=”{}” open=”off”]<\/p>\n

Elise Schnabel, Jacklyn Thomas, Rabia Elhawaz, Yueyao Gao, William Poehlman, Suchitra Chavan, Asher Pasha, Eddi Esteban, Nicholas Provart, F. Alex Feltus<\/strong>, Julia Frugoli. ” A laser capture microdissection transcriptome of M. truncatula roots responding to rhizobia reveals spatiotemporal tissue expression patterns of genes involved in nodule signaling and organogenesis.” Molecular Plant-Microbe Interactions (in press), 2023.<\/p>\n

Xusheng Ai, Melissa C. Smith, and F. Alex Feltus<\/strong>. “Generative Adversarial Networks Applied to Gene Expression Analysis: An Interdisciplinary Perspective.” Computational and Systems Oncology (in press), 2023.<\/p>\n

Elise Schnabel, Yueyao Gao, William Poehlman, Suchitra Chavan, F. Alex Feltus<\/strong>, and Julia Frugoli. ” A Medicago truncatula Autoregulation of Nodulation Mutant Transcriptome Analysis Reveals Disruption of the SUNN Pathway Causes Constitutive Expression Changes in Some Genes, but Overall Response to Rhizobia Resembles Wild-Type, Including Induction of TML1 and TML2.” Current Issues in Molecular Biology 45(6), 4612-4631, 2023. https:\/\/doi.org\/10.3390\/cimb45060293.<\/a><\/p>\n

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  1. Wang, X. Ai, F. A. Feltus<\/strong> and S. Shannigrahi, “GNSGA: A Decentralized Data Replication Algorithm for Big Science Data,” 2023 IFIP Networking Conference (IFIP Networking), Barcelona, Spain, 2023, pp. 1-9, doi: 10.23919\/IFIPNetworking57963.2023.10186357.<\/li>\n<\/ol>\n

    Arnab Mutsuddy, Cemal Erdem, Jonah R. Huggins, Michael Salim, Daniel Cook, Nicole Hobbs, F. Alex Feltus<\/strong>, and Marc R. Birtwistle. “Computational Speed-Up of Large-Scale, Single-Cell Model Simulations Via a Fully-Integrated SBML-Based Format.” Bioinformatics Advances Volume 3, Issue 1, vbad039, 2023. https:\/\/doi.org\/10.1093\/bioadv\/vbad039<\/a>.<\/p>\n

    Sankalpa Timilsina, Justin Presley, David Reddick, Susmit Shannigrahi, Xusheng Ai, Coleman Mcknight, and Alex Feltus<\/strong>. “Utilizing NDN DPDK for Kubernetes Genomics Data Lake., Technical Report NDN-0070, 2022.<\/p>\n

    [\/et_pb_accordion_item][et_pb_accordion_item title=”2022″ _builder_version=”4.27.4″ _module_preset=”default” global_colors_info=”{}” open=”off”]<\/p>\n

    Allison R Hickman, Benafsh Husain, Bradley Selee, Rini Pauly, Yuqing Hang, and F. Alex Feltus*.<\/strong> “Discovery of eQTL Alleles Associated with Autism Spectrum Disorder: A Case-Control Study”. Journal of Autism and Developmental Disorders, 2022. https:\/\/doi.org\/10.1007\/s10803-022-05631-x<\/a><\/p>\n

    Nelligan N, Bender MR, and Feltus FA*.<\/strong> “Simulating the Restoration of Normal Gene Expression from Different Thyroid Cancer Stages Using Deep Learning.”\u00a0 BMC Cancer (22)612, 2022\u00a0 https:\/\/doi.org\/10.1186\/s12885-022-09704-z<\/a>.<\/p>\n

    Cemal Erdem, Ethan M. Bensman, Arnab Mutsuddy, Michael M. Saint-Antoine, Mehdi Bouhaddou, Robert C. Blake, Will Dodd, Sean M. Gross, Laura M. Heiser, F. Alex Feltus<\/strong>, Marc R. Birtwistle*. “A Simple and Efficient Pipeline for Construction, Merging, Expansion, and Simulation of Large-Scale, Single-Cell Mechanistic Models.” Nature Communications, 13 (3555), 2022. https:\/\/doi.org\/10.1038\/s41467-022-31138-1<\/a>.<\/p>\n

    Yuqing Hang, Josh Burns, Benjamin T. Shealy, Rini Pauly, Stephen P. Ficklin, and Frank A. Feltus<\/strong>*. “Identification of condition-specific regulatory mechanisms in normal and cancerous human lung tissue.” BMC Genomics 23, 350, 2022. https:\/\/doi.org\/10.1186\/s12864-022-08591-92022<\/a>.<\/p>\n

    David E. Reddick, Justin Presley, Frank A. Feltus<\/strong>, Susmit Shannigrahi*. “WIP AABAC – Automated Attribute Based Access Control for Genomics Data.” SACMAT ’22: Proceedings of the 27th ACM on Symposium on Access Control Models and Technologies. June 2022 Pages 217-222, 2022. https:\/\/doi.org\/10.1145\/3532105.3535037.<\/a><\/p>\n

    John Hadish, Tyler D. Biggs, Benjamin T. Shealy, M. Reed Bender, Coleman B. McKnight, Connor Wytko, Melissa C. Smith, F. Alex Feltus<\/strong>, Loren A. Honaas, Stephen P. Ficklin*. “GEMmaker: process massive RNA-seq datasets on heterogeneous computational infrastructure.” BMC Bioinformatics 23, 156 (2022). https:\/\/doi.org\/10.1186\/s12859-022-04629-7<\/a><\/p>\n

    David Reddick. F. Alex Feltus<\/strong>, Susmit Shannigrahi*. “Case Study of Attribute Based Access Control for Genomics Data Using Named Data Networking.” 2022 IEEE 19th Annual Consumer Communications & Networking Conference (CCNC). 8-11 Jan. 2022. https:\/\/doi.org\/10.1109\/CCNC49033.2022.9700642.<\/a><\/p>\n

    Gao Y, Selee B, Schnabel EL, Poehlman WL, Chavan SA, Frugoli JA and Feltus FA*.<\/strong> “Time Series Transcriptome Analysis in Medicago truncatula Shoot and Root Tissue During Early Nodulation.” Frontiers in Plant Science. 13:861639, 2022. doi: https:\/\/doi.org\/10.3389\/fpls.2022.861639<\/a><\/p>\n

    Benafsh Husain, M. Reed Bender, and F. Alex Feltus<\/strong>.” EdgeCrafting: Mining embedded, latent, non-linear patterns to construct Gene Relationship Networks.” G3:Genes|Genetics|Genomes. 12-4, jkac042, 2022 https:\/\/doi.org\/10.1093\/g3journal\/jkac042<\/a><\/p>\n

    Joel Gershenfeld, Karen S. Baker, Nicholas Berente, Pat Canavan, F. Alex Feltus<\/strong>, Alysia Garmulewicz, Ron Hutchins, John Leslie King, Christine Kirkpatrick, Chris Lenhardt, Spencer Lewis, Michael Maffie, Matthew Mayernik, Barbara Mittleman, Beth Plale, Rahesh Sampath, Namchul Shin, Shelley Stall, John Towns, Susan Winter, Pips Veazey. “When Launching a Collaboration, Keep it Agile.” Stanford Social Innovation Review. 20(2), 2022.<\/p>\n

    Allison R. Hickman, Yuqing Hang, Rini Pauly, and Frank A. Feltus*.\u00a0 <\/strong>“Identification of Condition-Specific Biomarker Systems in Uterine Cancer.” G3:Genes|Genetics|Genomes. 12-1, January 2022, jkab392, 2021. https:\/\/doi.org\/10.1093\/g3journal\/jkab392<\/a><\/p>\n

    [\/et_pb_accordion_item][et_pb_accordion_item title=”2021″ _builder_version=”4.27.4″ _module_preset=”default” global_colors_info=”{}” open=”off”]<\/p>\n

    Alexandrov, A.,\u00a0Steitz, J.A.\u00a0(2021<\/strong>)\u00a0Fluorescence Amplification Method for Forward Genetic Discovery of Factors in Human mRNA Degradation.\u00a0U.S. Patent US11060153B2.<\/em><\/strong><\/p>\n

    Feltus FA<\/strong> and Clarke DJ. “ISO digital learning solutions (DLS) Toolkit.” https:\/\/capacity.iso.org\/home\/iso-digital-learning-solutions.html<\/a>, 2021.<\/p>\n

    Joshua J.R. Burns, Benjamin T. Shealy, Mitchell S. Greer, John A. Hadish, Matthew T. McGowan, Tyler Biggs, Melissa C. Smith, F. Alex Feltus<\/strong>, Stephen P. Ficklin. “Addressing Noise in Co-Expression Network Construction.” Briefings in Bioinformatics bbab495, 2021. https:\/\/doi.org\/10.1093\/bib\/bbab495<\/a><\/p>\n

    Siqi Liu, Varun Patil, Tianyuan Yu, Alexander Afanasyev, Frank Alex Feltus<\/strong>, Susmit Shannigrahi, and Lixia Zhang. “Designing Hydra with Centralized versus Decentralized Control: A Comparative Study.”\u00a0 ACM CoNEXT 2021 Interdisciplinary Workshop on (de)Centralization in the Internet (ACM IWCI 2021). P4-10, 2021. https:\/\/doi.org\/10.1145\/3488663.3493690<\/a><\/p>\n

    Shealy BT, Feltus FA<\/strong>, and Smith MC*. “Intelligent Resource Provisioning for Scientific Workflows and HPC”. IEEE Workshop on Workflows in Support of Large-Scale Science (WORKS). 15 Nov. 2021. https:\/\/doi.org\/10.1109\/WORKS54523.2021.00007<\/a><\/p>\n

    Cameron Ogle, Susmit Shannigrahi, David Riddick, Coleman McKnight, Rini Pauly, Tyler Biggs, Stephen Ficklin, F. Alex Feltus<\/strong>*. “Information Centric Networking for Genomics Data Management and Integrated Workflows” Frontiers in Big Data. Volume 4, 2021.<\/p>\n

    Baker BM, Mokashi SS<\/strong>, Shankar V<\/strong>, Hatfield JS<\/strong>, Hannah RC, Mackay TFC<\/strong> and Anholt RRH<\/strong>. 2021. The Drosophila brain on cocaine at single cell resolution. Genome Res<\/em>, in press. doi: 10.1101\/gr.268037.120.<\/p>\n

    Baker BM, Carbone MA, Huang W, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2021. \u00a0\u00a0Genetic basis of variation in cocaine and methamphetamine consumption in outbred populations of Drosophila melanogaster. Proc Natl Acad Sci USA, <\/em>in press. BioRxiv 2021. doi: https:\/\/doi.org\/10.1101\/2021.o3.o1.433403.<\/p>\n

    Herbert A<\/strong>, Wang H, Saski C, and Turechek W. 2021. Draft Genome Sequences of Two Xanthomonas fragariae Strains.\u00a0Microbiol. resour<\/em> 10<\/strong>: 16. doi: 10.1128\/MRA.00138-21.<\/p>\n

    Huggett SB, Hatfield JS<\/strong>, Walters JD, McGeary J, Welsh J, Mackay TFC<\/strong>, Anholt RRH<\/strong> and Palmer RHC. 2021. Ibrutinib as a potential therapeutic for cocaine use disorder. Biol Psychiatry<\/em>, submitted. MedRxiv 2021. https\/\/www.medrxiv.org\/content\/10.1101\/2021.02.05.21251228v1<\/p>\n

    Johnstun JA, Shankar V<\/strong>, Mokashi SS<\/strong>, Sunkara LT<\/strong>, Ihearahu UE, Lyman RL<\/strong>, Mackay TFC<\/strong> and Anholt RRH<\/strong>. 2021. Functional diversification, redundancy and epistasis among paralogs of the Drosophila melanogaster Obp50a-d<\/em> gene cluster. Mol Biol Evol<\/em> 38, 2030-2044. https:\/\/doi.org\/10.1093\/molbev\/msab004.<\/p>\n

    Mokashi SS<\/strong>, Shankar V<\/strong>, MacPherson RA<\/strong>, Hannah RC, Mackay TFC<\/strong> and Anholt RRH<\/strong>. 2021. Developmental alcohol exposure in Drosophila: Effects on adult phenotypes and gene expression in the brain. Front Psychiatry, <\/em>submitted. BioRXiv https:\/\/biorxiv.org\/cgi\/content\/short\/2021.04.22.440913v1.<\/p>\n

    Morozova TV, Shankar V<\/strong>, MacPherson RA<\/strong>, Zhou S, Mackay TFC<\/strong> and Anholt RRH<\/strong>. 2021. Modulation of the Drosophila transcriptome by developmental exposure to alcohol. In preparation.<\/p>\n

    Nazario-Yepiz NO<\/strong>, Fern\u00e1ndez Sobaberas J, Lyman R<\/strong>, Campbell MR III<\/strong>, Shankar V<\/strong>, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2021. A Drosophila model for metabolic syndrome: Physiological and metabolomic consequences of reduced expression of the brummer<\/em> triglyceride lipase. Sci Rep<\/em>, submitted.<\/p>\n

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    Targonski C, Shearer CA, Shealy BT, Smith MC and Feltus FA.<\/strong> 2019. Uncovering biomarker genes with enriched classification potential from Hallmark gene sets. Sci Rep<\/em> 9<\/strong>: 9747. doi: 10.1038\/s41598-019-46059-1.<\/p>\n

    Tsai KL, Evans JM, Noorai RN, Starr-Moss AN and Clark LA<\/strong>. 2019. Novel Y chromosome retrocopies in canids revealed through a genome-wide association study for sex. Genes (Basel)<\/em> 10<\/strong>: 320. doi: 10.3390\/genes10040320.<\/p>\n

    Vanderlinde T, Guimar\u00e3es DE, Nazario-Yepiz NO <\/strong>and Carvalho AB. 2019. An improved genome assembly for Drosophila navojoa<\/em>, the basal species in the mojavensis cluster. J Hered<\/em> 110<\/strong>: 118-123.<\/em> doi: 10.1093\/jhered\/esy059.<\/p>\n

    Walker JA, Jordan VE, Storer JM, Steely CJ, Gonzalez-Quiroga P, Beckstrom TO, Rewerts LC, St Romain CP, Rockwell CE, Rogers J, Jolly CJ and Konkel MK<\/strong>. 2019. Alu<\/em> insertion polymorphisms shared by Papio<\/em> baboons and Theropithecus gelada<\/em> reveal an intertwined common ancestry. Mob DNA<\/em> 10<\/strong>: 46. doi: 10.1186\/s13100-019-0187-y.<\/p>\n

    Walters JD<\/strong>, Gill SS and Mercuri JJ. 2019. Ethanol-mediated compaction and cross-linking enhance mechanical properties and degradation resistance while maintaining cytocompatibility of a nucleus pulposus scaffold. J Biomed Mater Res B Appl Biomater <\/em>8<\/strong>: 2488-2499. doi: 10.1002\/jbm.b.34339.<\/p>\n

    Wang J and Wang L<\/strong>. 2019. Deep learning of the back-splicing code for circular RNA formation. Bioinformatics<\/em> 35<\/strong>: 5235-5242. doi: 10.1093\/bioinformatics\/btz382.<\/p>\n

    Yang T, Gallagher CM and McMahan CS.<\/strong> 2019. A robust regression methodology via M-estimation. Communications in Statistics<\/em> 48:<\/strong> 1092-1107. doi: 10.1080\/03610926.2018.1423698.<\/p>\n

    Zeng W, Chen X, Duren Z<\/strong>, Wang Y, Jiang R and Wong WH. 2019. DC3 is a method for deconvolution and coupled clustering from bulk and single-cell genomics data. Nat Commun<\/em> 10<\/strong>: 4613. doi: 10.1038\/s41467-019-12547-1.<\/p>\n

    Zhebentyayeva T, Shankar V<\/strong>, Scorza R, Callahan A, Ravelonandro M, Castro S, DeJong T, Saski CA, Dardick C. 2019. Genetic characterization of world-wide Prunus domestica<\/em> (plum) germplasm using sequence-based genotyping. Hortic Res<\/em> 6<\/strong>: 12. doi: 10.1038\/s41438-018-0090-6.<\/p>\n

     <\/p>\n

    [\/et_pb_accordion_item][\/et_pb_accordion][\/et_pb_column][\/et_pb_row][\/et_pb_section]<\/p>\n","protected":false},"excerpt":{"rendered":"

    Che R.,\u00a0Mirani B.,\u00a0Panah M., Chen X., Luo H., and Alexandrov A.\u00a0(2025)\u00a0Identification of RMP24 and RMP64, Human Ribonuclease MRP-Specific Protein Components.\u00a0Cell Reports\u00a0https:\/\/doi.org\/10.1016\/j.celrep.2025.115752 Che R., Panah M., Mirani B., Knowles K., Ostapovich A., Majumdar D., Chen X., DeSimone J., White W., Noonan M., Luo H., and\u00a0Alexandrov, A.\u00a0(2025) Identification of Human Pathways Acting on Nuclear Non-Coding RNAs Using […]<\/p>\n","protected":false},"author":4,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_et_pb_use_builder":"on","_et_pb_old_content":"

    Dr. Trudy Mackay<\/strong><\/h4>\r\nGabrawy MM, Campbell S, Carbone MA, Morozova TV, Arya GH, Turlapati LB, Walston JD, Starz-Gaiano M, Everett L, Mackay TFC<\/strong>, Leips J and Abadir PM. 2019. Lisinopril preserves physical resilience and extends life span in a genotype-specific manner in Drosophila melanogaster<\/em>. J Gerontol A Biol Sci Med Sci <\/em>74<\/strong>: 1844-1852. doi: 10.1093\/gerona\/glz152.\r\n\r\nHarbison ST, Kumar S, Huang W, McCoy LJ, Smith KR and Mackay TFC<\/strong>. 2019. Genome wide association study of circadian behavior in Drosophila melanogaster<\/em>. Behav Genet<\/em> 49<\/strong>: 60-82. doi: 10.1007\/s10519-018-9932-0.\r\n\r\nHighfill CA, Baker BM<\/strong>, Stevens SD, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2019. Genetics of cocaine and methamphetamine consumption and preference in Drosophila melanogaster<\/em>. PLoS Genet<\/em> 15<\/strong>: e1007834. doi: 10.1371\/journal.pgen.1007834.\r\n\r\nHuang W, Campbell T, Carbone MA, Jones WE, Unselt D, Anholt RRH<\/strong> and Mackay TFC.<\/strong> 2020. Context-dependent genetic architecture of Drosophila<\/em> lifespan. PLoS Biol<\/em> 18<\/strong>: e3000645. doi: 10.1371\/journal.pbio.3000645.\r\n\r\nMatute DR, Comeault AA, Earley E, Serrato-Capuchina A, Peede D, Monroy-Eklund A, Huang W, Jones CD, Mackay TFC<\/strong> and Coyne JA. 2020. Rapid and predictable evolution of admixed populations between two Drosophila<\/em> species pairs. Genetics<\/em> 214<\/strong>: 211-230.\u00a0doi: 10.1534\/genetics.119.302685.\r\n\r\nMorgante F<\/strong>, Huang W, S\u00f8rensen P, Maltecca C and Mackay TFC<\/strong>. 2019. Leveraging multiple layers of data to predict Drosophila<\/em> complex traits. bioRxiv<\/em> 824896. doi: 10.1101\/824896.\r\n\r\nParker GA, Kohn N, Spirina A, McMillen A, Huang W and Mackay TFC<\/strong>. 2020. Genetic basis of increased lifespan and postponed senescence in Drosophila melanogaster<\/em>. G3 (Bethesda)<\/em> 10<\/strong>: 1087-1098. doi: 10.1534\/g3.120.401041.\r\n\r\nSass TN, MacPherson RA,<\/strong> Mackay TFC<\/strong> and Anholt RRH<\/strong>. 2020. A high-throughput method for measuring alcohol sedation time of individual Drosophila melanogaster. J Vis Exp <\/em>158<\/strong>: e61108. doi: 10.3791\/61108.\r\n\r\nZhou S, Morgante F<\/strong>, Geisz MS, Ma J, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2020. Systems genetics of the Drosophila<\/em> metabolome. Genome Res<\/em> 30<\/strong>: 392-405. doi: 10.1101\/gr.243030.118.\r\n\r\n\u00a0\r\n

    Dr. Robert Anholt<\/strong><\/h4>\r\nAnholt RRH<\/strong>. 2020. Chemosensation and evolution of Drosophila host plant selection. iScience<\/em> 23:<\/strong> 100799. doi: 10.1016\/j.isci.2019.100799.\r\n\r\nAnholt RRH.<\/strong> 2020. Evolution of epistatic networks and the genetic basis of innate behaviors. Trends Genet<\/em>. 36<\/strong>: 24-29. doi: 10.1016\/j.tig.2019.10.005.\r\n\r\nAnholt RRH<\/strong>, Wolfner MF, O\u2019Grady P and Harbison ST. 2020. Evolution of reproductive behavior. Genetics<\/em> 214<\/strong>: 49-73. doi: 10.1534\/genetics.119.302263.\r\n\r\nEverett LJ, Huang W, Zhou S, Carbone MA, Lyman RF<\/strong>, Arya GH, Geisz MS, Ma J, Morgante F<\/strong>, St Armour G, Turlapati L, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2020. Gene expression networks in the Drosophila<\/em> Genetic Reference Panel.\u00a0 Genome Res<\/em> 30<\/strong>: 485-496. doi: 10.1101\/gr.257592.119.\r\n\r\nHighfill CA, Baker BM<\/strong>, Stevens SD, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2019. Genetics of cocaine and methamphetamine consumption and preference in Drosophila melanogaster<\/em>. PLoS Genet<\/em> 15<\/strong>: e1007834. doi: 10.1371\/journal.pgen.1007834.\r\n\r\nHuang W, Campbell T, Carbone MA, Jones WE, Unselt D, Anholt RRH<\/strong> and Mackay TFC.<\/strong> 2020. Context-dependent genetic architecture of Drosophila<\/em> lifespan. PLoS Biol<\/em> 18<\/strong>: e3000645. doi: 10.1371\/journal.pbio.3000645.\r\n\r\nSass TN, MacPherson RA,<\/strong> Mackay TFC<\/strong> and Anholt RRH<\/strong>. 2020. A high-throughput method for measuring alcohol sedation time of individual Drosophila melanogaster. J Vis Exp <\/em>158<\/strong>: e61108. doi: 10.3791\/61108.\r\n\r\nZhou S, Morgante F<\/strong>, Geisz MS, Ma J, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2020. Systems genetics of the Drosophila<\/em> metabolome. Genome Res<\/em> 30<\/strong>: 392-405. doi: 10.1101\/gr.243030.118.\r\n\r\n\u00a0\r\n

    Brandon Baker \u2013 graduate student<\/strong><\/h4>\r\nHighfill CA, Baker BM<\/strong>, Stevens SD, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2019. Genetics of cocaine and methamphetamine consumption and preference in Drosophila melanogaster<\/em>. PLoS Genet<\/em> 15<\/strong>: e1007834. doi: 10.1371\/journal.pgen.1007834.\r\n\r\n\u00a0\r\n

    Dr. Leigh Anne Clark<\/strong><\/h4>\r\nMurphy SC, Recio A, de la Fuente C, Guo LT, Shelton GD and Clark LA<\/strong>. 2019. A glycine transporter SLC6A5 frameshift mutation causes startle disease in Spanish greyhounds. Hum Genet<\/em> 138<\/strong>: 509-513. doi: 10.1007\/s00439-019-01986-x.\r\n\r\nTsai KL, Evans JM, Noorai RN, Starr-Moss AN and Clark LA<\/strong>. 2019. Novel Y chromosome retrocopies in canids revealed through a genome-wide association study for sex. Genes (Basel)<\/em> 10<\/strong>: 320. doi: 10.3390\/genes10040320.\r\n\r\n\u00a0\r\n

    Dr. Zhana Duren<\/strong><\/h4>\r\nDuren Z<\/strong>, Chen X, Xin J, Wang Y and Wong WH. 2020. Time course regulatory analysis based on paired expression and chromatin accessibility data. Genome Res<\/em> 30<\/strong>: 622-634. doi: 10.1101\/gr.257063.119.\r\n\r\nLingjie L, Wang Y, Torkelson JL, Shankar G, Pattison JM, Zhen HH, Fang F, Duren Z<\/strong>, Xin J, Gaddam S, Melo SP, Piekos SN, Li J, Liaw EJ, Chen L, Li R, Wernig M, Wong WH, Chang HY and Oro AE. 2019. TFAP2C-and p63-dependent networks sequentially rearrange chromatin landscapes to drive human epidermal lineage commitment. Cell Stem Cell<\/em> 24<\/strong>: 271-284. doi: 10.1016\/j.stem.2018.12.012.\r\n\r\nZeng W, Chen X, Duren Z<\/strong>, Wang Y, Jiang R and Wong WH. 2019. DC3 is a method for deconvolution and coupled clustering from bulk and single-cell genomics data. Nat Commun<\/em> 10<\/strong>: 4613. doi: 10.1038\/s41467-019-12547-1.\r\n\r\nZhang X, Hong D, Ma S, Ward T, Ho M, Pattni R, Duren Z<\/strong>, Stankov A, Bade Shrestha S, Hallmayer J, Wong WH, Reiss AL and Urban AE. 2020. Integrated functional genomic analyses of Klinefelter and Turner syndromes reveal global network effects of altered X chromosome dosage. Proc Natl Acad Sci USA<\/em> 117<\/strong>: 4864-4873. doi: 10.1073\/pnas.1910003117.\r\n\r\nZhu X, Duren Z<\/strong> and Wong WH. Modeling regulatory network topology improves genome-wide analyses of complex human traits. 2020. BioRxiv<\/em> doi: 10.1101\/2020.03.13.990010.\r\n\r\n\u00a0\r\n

    Dr. F. Alex Feltus<\/strong><\/h4>\r\nCasanova EL, Switala AE, Dandamudi S, Hickman AR, Vandenbrink J, Sharp JL, Feltus FA<\/strong> and Casanova MF. 2019. Autism risk genes are evolutionarily ancient and maintain a unique feature landscape that echoes their function. Autism Res<\/em> 12<\/strong>: 860-869. doi: 10.1002\/aur.2112.\r\n\r\nGreene MA, Britt JL, Powell RR, Feltus FA<\/strong>, Bridges WC, Bruce T, Klotz JL, Miller MF and Duckett SK. 2019. Ergot alkaloid exposure during gestation alters: 3. Fetal growth, muscle fiber development and miRNA transcriptome. J Anim Sci <\/em>97<\/strong>: 3153-3168. doi:10.1093\/jas\/skz153.\r\n\r\nMills N, Bensman EM, Poehlman WL, Ligon WB 3rd<\/sup> and Feltus FA<\/strong>. 2019. Moving just enough deep sequencing data to get the job done. Bioinform Biol Insights <\/em>13<\/strong>: 1177932219856359. doi: 10.1177\/1177932219856359.\r\n\r\nPaterson AH, Kong W, Johnston RM, Nabukalu P, Wu G, Poehlman WL, Goff VH, Isaacs K, Lee TH, Guo H, Zhang D, Sezen UU, Kennedy M, Bauer D, Feltus FA<\/strong>, Weltzien E, Rattunde HF, Barney JN, Barry K, Cox TS and Scanlon MJ. 2020. The evolution of an invasive plant, Sorghum halepense<\/em> L. (\u2018Johnsongrass\u2019). Front Genet<\/em> 11<\/strong>: 317. doi: 10.3389\/fgene.2020.00317.\r\n\r\nSpoor S, Cheng CH, Sanderson LA, Condon B, Almsaeed A, Chen M, Bretaudeau A, Rasche H, Jung S, Main D, Bett K, Staton M, Wegrzyn JL, Feltus FA<\/strong> and Ficklin SP. 2019. Tripal v3: an ontology-based toolkit for construction of FAIR biological community databases. Database (Oxford)<\/em>\u00a0doi: 10.1093\/database\/baz077.\r\n\r\n\u00a0\r\n

    Dr. Julia George<\/strong><\/h4>\r\nYip, P.K., Schmitzberger, M., Al-Hasan, M., George, J.<\/strong>, Tripoliti, E., Michael-Titus, A.T., Clayton, D., & Priestley, J.V. (2020) Serotonin Expression in the Song Circuitry of Adult Male Zebra Finches. Neuroscience<\/em>, 444<\/strong>, 170\u2013182.\r\n\r\nRhie, A. et al (2020) Towards complete and error-free genome assemblies of all vertebrate species. Preprint at https:\/\/www.biorxiv.org\/content\/10.1101\/2020.05.22.110833v1.\r\n\r\nGeorge, J.M<\/strong>., Bell, Z.W., Condliffe, D., Dohrer, K., Abaurrea, T., Spencer, K., Leit\u00e3o, A., Gahr, M., Hurd, P.J., & Clayton, D.F. (2020) Acute social isolation alters neurogenomic state in songbird forebrain. Proc. Natl. Acad. Sci. U. S. A.<\/em>, 117<\/strong>, 23311\u201323316.\r\n\r\nBell, Z.W., Lovell, P., Mello, C.V., Yip, P.K., George, J.M<\/strong>., & Clayton, D.F. (2019) Urotensin-related gene transcripts mark developmental emergence of the male forebrain vocal control system in songbirds. Sci. Rep.<\/em>, 9<\/strong>, 816.\r\n\r\nYsselstein, D., Dehay, B., Costantino, I.M., McCabe, G.P., Frosch, M.P., George, J.M<\/strong>., Bezard, E., & Rochet, J.-C. (2017) Endosulfine-alpha inhibits membrane-induced \u03b1-synuclein aggregation and protects against \u03b1-synuclein neurotoxicity. Acta Neuropathol Commun<\/em>, 5<\/strong>, 3.\r\n\r\nTuttle, M.D., Comellas, G., Nieuwkoop, A.J., Covell, D.J., Berthold, D.A., Kloepper, K.D., Courtney, J.M., Kim, J.K., Barclay, A.M., Kendall, A., Wan, W., Stubbs, G., Schwieters, C.D., Lee, V.M.Y., George, J.M<\/strong>., & Rienstra, C.M. (2016) Solid-state NMR structure of a pathogenic fibril of full-length human \u03b1-synuclein. Nat. Struct. Mol. Biol.<\/em>, 23<\/strong>, 409\u2013415.\r\n\r\n\u00a0\r\n

    Dr. Miriam Konkel<\/strong><\/h4>\r\nCasanova EL and Konkel MK<\/strong>. 2020. The developmental gene hypothesis for punctuated equilibrium: Combined roles of developmental regulatory genes and transposable elements. Bioessays<\/em> 42<\/strong>: e1900173. doi: 10.1002\/bies.201900173.\r\n\r\nRogers J, Raveendran M, Harris RA, Mailund T, Lepp\u00e4l\u00e4 K, Athanasiadis G, Schierup MH, Cheng J, Munch K, Walker JA, Konkel MK<\/strong>, Jordan V, Steely CJ, Beckstrom TO, Bergey C, Burrell A, Schrempf D, Noll A, Kothe M, Kopp GH, Liu Y, Murali S, Billis K, Martin FJ, Muffato M, Cox L, Else J, Disotell T, Muzny DM, Phillips-Conroy J, Aken B, Eichler EE, Marques-Bonet T, Kosiol C, Batzer MA, Hahn MW, Tung J, Zinner D, Roos C, Jolly CJ, Gibbs RA and Worley KC. 2019. The comparative genomics and complex population history of Papio<\/em> baboons. Sci Adv<\/em> 5<\/strong>: eaau6947. doi: 10.1126\/sciadv.aau6947.\r\n\r\nStorer JM, Mierl JR, Brantley SA, Threeton B, Sukharutski Y, Rewerts LC, St Romain CP, Foreman MM, Baker JN, Walker JA, Orkin JD, Melin AD, Phillips KA, Konkel MK<\/strong> and Batzer MA. 2019. Amplification dynamics of Platy-1 retrotransposons in the Cebidae Platyrrhine lineage. Genome Biol Evol<\/em> 4<\/strong>: 1105-1116. doi: 10.1093\/gbe\/evz062.\r\n\r\nWalker JA, Jordan VE, Storer JM, Steely CJ, Gonzalez-Quiroga P, Beckstrom TO, Rewerts LC, St Romain CP, Rockwell CE, Rogers J, Jolly CJ and Konkel MK<\/strong>. 2019. Alu<\/em> insertion polymorphisms shared by Papio<\/em> baboons and Theropithecus gelada<\/em> reveal an intertwined common ancestry. Mob DNA<\/em> 10<\/strong>: 46. doi: 10.1186\/s13100-019-0187-y.\r\n\r\n\u00a0\r\n

    Dr. Richard Lyman<\/strong><\/h4>\r\nEverett LJ, Huang W, Zhou S, Carbone MA, Lyman RF<\/strong>, Arya GH, Geisz MS, Ma J, Morgante F<\/strong>, St Armour G, Turlapati L, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2020. Gene expression networks in the Drosophila<\/em> Genetic Reference Panel.\u00a0 Genome Res<\/em> 30<\/strong>: 485-496. doi: 10.1101\/gr.257592.119.\r\n\r\n\u00a0\r\n

    Roberta Lyman \u2013 Staff Scientist<\/strong><\/h4>\r\nAnderson KL, Kearns R, Lyman RL<\/strong>, and Correa MT. 2019. Staphylococci in dairy goats and human milkers, and the relationship with herd management practices. Small Ruminant Research<\/em> 171<\/strong>: 13-22 doi: 10.1016\/j.smallrumres.2018.11.021.\r\n\r\n\u00a0\r\n

    Rebecca MacPherson \u2013 graduate student<\/strong><\/h4>\r\nSass TN, MacPherson RA,<\/strong> Mackay TFC<\/strong> and Anholt RRH<\/strong>. 2020. A high-throughput method for measuring alcohol sedation time of individual Drosophila melanogaster. J Vis Exp <\/em>158<\/strong>: e61108. doi: 10.3791\/61108.\r\n\r\n\u00a0\r\n

    Dr. C. Steven McMahan<\/strong><\/h4>\r\nBilder C, Tebbs J and McMahan C<\/strong>. 2019. Informative group testing for multiplex assays. Biometrics<\/em> 75:<\/strong> 278-288. doi: 10.1111\/biom.12988.\r\n\r\nGettings JR, Self SCW, McMahan CS<\/strong>, Brown DA, Nordone SK and Yabsley MJ. 2020. Local and regional temporal trends (2013-2019) of canine Ehrlichia<\/em> spp<\/em>. seroprevalence in the USA. Parasites and Vectors<\/em> 13:<\/strong> 153. doi: 10.1186\/s13071-020-04022-4.\r\n\r\nGregory K, Wang D and McMahan C<\/strong>. 2019. Adaptive elastic net regression with group testing data. Biometrics<\/em> 75:<\/strong> 13-23. doi: 10.1111\/biom.12973.\r\n\r\nHou P, Tebbs J, Wang D, McMahan C<\/strong> and Bilder C. 2020. Array testing with multiplex assays. Biostatistics<\/em> 21<\/strong>: 417-431. doi: 10.1093\/biostatistics\/kxy058.\r\n\r\nJoyner C, McMahan C,<\/strong> Baurley J and Pardamean B. 2020. A two-phase Bayesian methodology for the analysis of binary phenotypes in genome-wide association studies. Biom J<\/em> 62<\/strong>: 191-201. doi: 10.1002\/bimj.201900050\r\n\r\nSekhon R, Joyner C, Ackerman A, McMahan C,<\/strong> Cook D and Robertson D. 2020. Stalk bending strength is strongly associated with maize stalk lodging incidence across multiple Environments. Field Crops<\/em> 249<\/strong>: e107737. doi: 10.1016\/j.fcr.2020.107737.\r\n\r\nSelf SCW, Liu Y, Nordone SK, Yabsley MJ, Walden HS, Lund RB, Bowman DD, Carpenter C, McMahan CS<\/strong> and Gettings JR. 2019. Canine vector-borne disease: mapping and the accuracy of forecasting using big data from the veterinary community. Anim Health Res Rev <\/em>20<\/strong>: 47-60. doi: 10.1017\/S1466252319000045.\r\n\r\nWithana Gamage PW, Chaudari M, McMahan CS<\/strong>, Kim EH and Kosorok MR. 2020. An extended proportional hazards model for interval-censored data subject to instantaneous failures. Lifetime Data Anal<\/em> 26<\/strong>: 158-182. doi: 10.1007\/s10985-019-09467-z.\r\n\r\nYang T, Gallagher CM and McMahan CS.<\/strong> 2019. A robust regression methodology via M-estimation. Communications in Statistics<\/em> 48:<\/strong> 1092-1107. doi: 10.1080\/03610926.2018.1423698.\r\n\r\n\u00a0\r\n

    Dr. Fabio Morgante<\/strong><\/h4>\r\nEverett LJ, Huang W, Zhou S, Carbone MA, Lyman RF<\/strong>, Arya GH, Geisz MS, Ma J, Morgante F<\/strong>, St Armour G, Turlapati L, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2020. Gene expression networks in the Drosophila<\/em> Genetic Reference Panel.\u00a0 Genome Res<\/em> 30<\/strong>: 485-496. doi: 10.1101\/gr.257592.119.\r\n\r\nMorgante F<\/strong>, Huang W, S\u00f8rensen P, Maltecca C and Mackay TFC<\/strong>. 2019. Leveraging multiple layers of data to predict Drosophila<\/em> complex traits. bioRxiv<\/em> 824896. doi: 10.1101\/824896.\r\n\r\nZhou S, Morgante F<\/strong>, Geisz MS, Ma J, Anholt RRH<\/strong> and Mackay TFC<\/strong>. 2020. Systems genetics of the Drosophila<\/em> metabolome. Genome Res<\/em> 30<\/strong>: 392-405. doi: 10.1101\/gr.243030.118.\r\n\r\n\u00a0\r\n

    Dr. Nestor Octavio Nazario-Yepiz<\/strong><\/h4>\r\nMateus RP, Nazario-Yepiz NO<\/strong>, Ibarra-Laclette E, Ramirez Loustalot-Laclette M, Markow TA. 2019. Developmental and transcriptomal responses to seasonal dietary shifts in the cactophilic Drosophila mojavensis <\/em>of North America. J Hered<\/em> 110<\/strong>: 58-67. <\/em>doi: 10.1093\/jhered\/esy056.\r\n\r\nPfeiler E and Nazario-Yepiz NO<\/strong>. 2020. DNA-based taxonomy and potential suppression of long-established names: the case of Telegonus fulgerator<\/em> (Lepidoptera: Hesperiidae). Syst Biodivers<\/em> 18<\/strong>: 338\u2013346. doi: 10.1080\/14772000.2020.1758825.\r\n\r\nPfeiler E, Nazario-Yepiz NO<\/strong>, Hern\u00e1ndez-Cervantes PL and Markow TA. 2020. Mitochondrial DNA barcodes provide insight into the phylogeography and subspecies controversy in the widespread neotropical White Peacock butterfly, Anartia jatrophae <\/em>(Nymphalidae: Nymphalinae). Biol J Linn Soc<\/em> 130<\/strong>: 700\u2013714. doi: 10.1093\/biolinnean\/blaa080.\r\n\r\nVanderlinde T, Guimar\u00e3es DE, Nazario-Yepiz NO <\/strong>and Carvalho AB. 2019. An improved genome assembly for Drosophila navojoa<\/em>, the basal species in the mojavensis cluster. J Hered<\/em> 110<\/strong>: 118-123.<\/em> doi: 10.1093\/jhered\/esy059.\r\n\r\n\u00a0\r\n

    Dr. Vijay Shankar<\/strong><\/h4>\r\nKrombeen SK, Shankar V<\/strong>, Noorai RE, Saski CA, Sharp JL, Wilson ME and Wilmoth TA. 2019. The identification of differentially expressed genes between extremes of placental efficiency in maternal line gilts on day 95 of gestation. BMC Genomics<\/em> 20<\/strong>: 254. doi: 10.1186\/s12864-019-5626-0.\r\n\r\nNayduch D, Shankar V<\/strong>, Mills MK, Robl T, Drolet BS, Ruder MG, Scully ED and Saski CA. 2019. Transcriptome response of female Culicoides sonorensis<\/em> biting midges (Diptera: Ceratopogonidae) to early infection with Epizootic Hemorrhagic Disease Virus (EHDV-2). Viruses <\/em>11<\/strong>: 473. doi: 10.3390\/v11050473.\r\n\r\nNoorai RE, Shankar V<\/strong>, Freese NH, Gregorski CM and Chapman SC. 2019. Discovery of genomic variants by whole-genome resequencing of the North American Araucana chicken. PLoS One<\/em> 14<\/strong>: e0225834. doi: 10.1371\/journal.pone.0225834.\r\n\r\nZhebentyayeva T, Shankar V<\/strong>, Scorza R, Callahan A, Ravelonandro M, Castro S, DeJong T, Saski CA, Dardick C. 2019. Genetic characterization of world-wide Prunus domestica<\/em> (plum) germplasm using sequence-based genotyping. Hortic Res<\/em> 6<\/strong>: 12. doi: 10.1038\/s41438-018-0090-6.\r\n\r\n\u00a0\r\n

    Dr. Lakshmi Sunkara<\/strong><\/h4>\r\nSunkara LT<\/strong>, Ahmad SM and Heidari M. 2019. RNA-seq analysis of viral gene expression in the skin of Marek\u2019s disease virus infected chicken. Vet Immunol Immunopathol<\/em> 213<\/strong>: 109882. doi: 10.1016\/j.vetimm.2019.109882.\r\n\r\n\u00a0\r\n

    Dr. Joshua Walters<\/strong><\/h4>\r\nWalters JD<\/strong>, Gill SS and Mercuri JJ. 2019. Ethanol-mediated compaction and cross-linking enhance mechanical properties and degradation resistance while maintaining cytocompatibility of a nucleus pulposus scaffold. J Biomed Mater Res B Appl Biomater <\/em>8<\/strong>: 2488-2499. doi: 10.1002\/jbm.b.34339.\r\n\r\n\u00a0\r\n

    Dr. Lianjiang (LJ) Wang<\/strong><\/h4>\r\nAng CE, Ma Q, Wapinski OL, Fan S, Flynn RA, Lee QY, Coe B, Onoguchi M, Olmos VH, Do BT, Dukes-Rimsky L, Xu J, Tanabe K, Wang L<\/strong>, Elling U, Penninger JM, Zhao Y, Qu K, Eichler EE, Srivastava A, Wernig M and Chang HY. 2019. The novel lncRNA lnc-NR2F1<\/em> is pro-neurogenic and mutated in human neurodevelopmental disorders. Elife<\/em> 8<\/strong>: 41770. doi: 10.7554\/eLife.41770.\r\n\r\nGudenas BL, Wang J, Kuang SZ, Wei AQ, Cogill SB and Wang LJ<\/strong>. 2019. Genomic data mining for functional annotation of human long noncoding RNAs.\u00a0 J Zhejiang Univ Sci <\/em>20<\/strong>: 476-487. doi:10.1631\/jzus.B1900162.\r\n\r\nKuang S and Wang L<\/strong>. 2020. Identification and analysis of consensus RNA motifs binding to the genome regulator CTCF. NAR Genomics and Bioinformatics<\/em> 2<\/strong>: lqaa031. doi: 10.1093\/nargab\/lqaa031.\r\n\r\nWang J and Wang L<\/strong>. 2020. Deep analysis of RNA N6-adenosine methylation (m6A) patterns in human cells. NAR Genomics and Bioinformatics<\/em> 2<\/strong>: lqaa007. doi: 10.1093\/nargab\/lqaa007.\r\n\r\nWang J and Wang L<\/strong>. 2019. Deep learning of the back-splicing code for circular RNA formation. Bioinformatics<\/em> 35<\/strong>: 5235-5242. doi: 10.1093\/bioinformatics\/btz382.","_et_gb_content_width":"","footnotes":"","_links_to":"","_links_to_target":""},"class_list":["post-69","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/scienceweb.clemson.edu\/ihg\/wp-json\/wp\/v2\/pages\/69","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/scienceweb.clemson.edu\/ihg\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/scienceweb.clemson.edu\/ihg\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/scienceweb.clemson.edu\/ihg\/wp-json\/wp\/v2\/users\/4"}],"replies":[{"embeddable":true,"href":"https:\/\/scienceweb.clemson.edu\/ihg\/wp-json\/wp\/v2\/comments?post=69"}],"version-history":[{"count":0,"href":"https:\/\/scienceweb.clemson.edu\/ihg\/wp-json\/wp\/v2\/pages\/69\/revisions"}],"wp:attachment":[{"href":"https:\/\/scienceweb.clemson.edu\/ihg\/wp-json\/wp\/v2\/media?parent=69"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}