{"id":341,"date":"2018-05-08T18:33:42","date_gmt":"2018-05-08T18:33:42","guid":{"rendered":"http:\/\/erzsoregan.voices.wooster.edu\/?page_id=341"},"modified":"2025-05-05T17:32:28","modified_gmt":"2025-05-05T17:32:28","slug":"independent-study","status":"publish","type":"page","link":"https:\/\/erzsoregan.voices.wooster.edu\/?page_id=341","title":{"rendered":"Independent Study"},"content":{"rendered":"<div class=\"wp-block-image is-style-default\">\n<ul id=\"block-e0e26f76-cad2-45b4-82db-417855efed14\" class=\"block-editor-rich-text__editable block-editor-block-list__block wp-block is-selected wp-block-list rich-text\" role=\"group\" aria-label=\"Block: List\" data-block=\"e0e26f76-cad2-45b4-82db-417855efed14\" data-type=\"core\/list\" data-title=\"List\">\n<li><strong data-rich-text-format-boundary=\"true\">Boolean Modeling&nbsp;projects in mammalian cells.&nbsp;<\/strong> Building on each other&#8217;s IS projects, a subset of my students &nbsp;model life, death, damage, epithelial to mesenchymal transition, and other interesting behaviors of mammalian cells (dots mark the modules a student developed, extended or analyzed):<\/li>\n<\/ul>\n<\/div>\n\n\n<figure class=\"wp-block-image is-resized size-full is-style-default\"><img loading=\"lazy\" decoding=\"async\" width=\"2220\" height=\"1418\" src=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Mammalian_modules.png\" alt=\"\" class=\"wp-image-835\" style=\"width:670px;height:427px\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Mammalian_modules.png 2220w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Mammalian_modules-300x192.png 300w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Mammalian_modules-1024x654.png 1024w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Mammalian_modules-768x491.png 768w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Mammalian_modules-1536x981.png 1536w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Mammalian_modules-2048x1308.png 2048w\" sizes=\"auto, (max-width: 2220px) 100vw, 2220px\" \/><figcaption class=\"wp-element-caption\"><strong>Modular mammalian cell regulatory network model. <\/strong><br>Module-level view with students who contributed to each module during their IS.<\/figcaption><\/figure>\n\n\n\n<ul class=\"wp-block-list\">\n<li><strong>Boolean Modeling in baker&#8217;s yeast. <\/strong>During the summer of 2o2o we embarked on a new project to model some of the conserved single-cell functions such as programmed cell death, or apoptosis, in yeast cells. This involved modules related to mitochondrial dynamics, MOMP, and DNA fragmentation, followed by a modular cell cycle model. Stay tuned for its growth as more students take up the challenge.<\/li>\n<\/ul>\n\n\n<div class=\"wp-block-image is-style-default\">\n<figure class=\"aligncenter size-large is-resized\"><img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"769\" src=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Yeast_modules-1024x769.png\" alt=\"\" class=\"wp-image-836\" style=\"width:512px;height:385px\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Yeast_modules-1024x769.png 1024w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Yeast_modules-300x225.png 300w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Yeast_modules-768x577.png 768w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Yeast_modules.png 1384w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\" \/><figcaption class=\"wp-element-caption\"><strong>Modular yeast regulatory network model. <\/strong><br>Module-level view with students who contributed to each module during their IS.<\/figcaption><\/figure>\n<\/div>\n\n\n<ul class=\"wp-block-list\">\n<li><strong>Other IS projects:<\/strong>\n<ul class=\"wp-block-list\">\n<li><strong><em>Epigenetics:<\/em><\/strong>&nbsp;modeling the dynamics of epigenetic marks at the Oct4 promoter<\/li>\n\n\n\n<li><strong><em>Viral communication: <\/em><\/strong>modeling the benefits of molecular communication between viruses as they influence the lysis-lysogeny switch of their neighbors<\/li>\n\n\n\n<li><strong><em>OARDC projects <\/em><\/strong>co-advised by&nbsp;faculty at the OARDC.<\/li>\n\n\n\n<li><strong><em>Bioinformatics<\/em><i> <\/i><i>projects: <\/i><\/strong>identification of transcriptional&nbsp;switches from single-cell time series data during development, mapping the functional impact of <em>Phytophthora sojae <\/em>effector proteins (with W. Morgan, Wooster) <\/li>\n<\/ul>\n<\/li>\n<\/ul>\n\n\n\n<p><\/p>\n\n\n\n<ul class=\"wp-block-list\">\n<li><strong>Publications with IS&nbsp;students:<\/strong>\n<ol class=\"wp-block-list\">\n<li><strong>Grant Greene<\/strong>, <strong>Ian Zonfa<\/strong>,&nbsp;<strong>Ravasz Regan<\/strong> <strong>E.<\/strong>*,&nbsp;<a href=\"https:\/\/journals.plos.org\/ploscompbiol\/article?id=10.1371\/journal.pcbi.1012735&amp;?utm_id=plos111&amp;utm_source=internal&amp;utm_medium=email&amp;utm_campaign=author\">A Boolean network model of hypoxia, mechanosensing and TGF-\u03b2 signaling captures the role of phenotypic plasticity and mutations in tumor metastasis<\/a>,&nbsp;<em>PLOS Computational Biology<\/em>&nbsp;21(4): e1012735.<\/li>\n\n\n\n<li><strong>Herbert Sizek<\/strong>, D\u00e1vid Deritei, <strong>Katie Fleig<\/strong>, Marlayna Harris, Peter L. Regan, Kimberly Glass, <strong>Ravasz Regan E<\/strong>*,&nbsp;<a href=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S1936523324002110?via%3Dihub\">Unlocking Mitochondrial Dysfunction-Associated Senescence (MiDAS) with NAD<sup>+<\/sup>\u2013 a Boolean Model of Mitochondrial Dynamics and Cell Cycle Control<\/a>,&nbsp;<em>Translational Oncology&nbsp;<\/em>49:102084<em>,&nbsp;<\/em>2024 (special issue \u201c<em>Non-genetic heterogeneity and adaptive mechanisms in cancer evolution and drug resistance<\/em>\u201c).<\/li>\n\n\n\n<li><strong>Emmalee Sullivan<\/strong>, <strong>Marlayna Harris<\/strong>, <strong>Arnav Bhatnagar<\/strong>, <strong>Eric Guberman<\/strong>, <strong>Ian Zonfa<\/strong>, E. Ravasz Regan, <a href=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S258900422300398X\" target=\"_blank\" rel=\"noreferrer noopener\">Boolean modeling of mechanosensitive epithelial to mesenchymal transition and its reversal<\/a>, <em>iScience<\/em> 26(4), 2023.<\/li>\n\n\n\n<li><strong>Eric Guberman<\/strong>, <strong>Hikmet Sherief<\/strong>, E. Ravasz Regan<strong>, <\/strong><a href=\"https:\/\/www.sciencedirect.com\/science\/article\/pii\/S2001037020303482\">Boolean model of anchorage dependence and contact inhibition points to coordinated inhibition but semi-independent induction of proliferation and migration<\/a>, <em>Computational and Structural Biotechnology Journal<\/em>,&nbsp;18: 2145, 2020.<\/li>\n\n\n\n<li><strong>Herbert Sizek<\/strong>,<strong> Andew Hamel<\/strong>, D. Deritei, S. Campbell, E. Ravasz Regan,&nbsp;&nbsp;<a href=\"https:\/\/doi.org\/ 10.1371\/journal.pcbi.1006402\">Boolean model of growth signaling, cell cycle and apoptosis predicts the molecular mechanism of aberrant cell cycle progression driven by hyperactive PI3K<\/a>. <em>PLoS Computational Biology<\/em> 15(3): e1006402, 2019.<\/li>\n\n\n\n<li><strong>Andrea Wade<\/strong>, CH Lin, C Kurkul, E Ravasz Regan, RM Johnson RM, <a href=\"https:\/\/www.mdpi.com\/2075-4450\/10\/1\/20\">Combined toxicity of insecticides and fungicides applied to California almond orchards to honey bee larvae and adults<\/a>. <em>Insects,<\/em>&nbsp;10(1), 20,&nbsp;2019.<\/li>\n<\/ol>\n<\/li>\n<\/ul>\n\n\n\n<h2 class=\"wp-block-heading has-large-font-size\">2025<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><strong>Andrew Beazley<\/strong> (Biology) &#8211; <em>Boolean Modeling of Epithelial Cell Responses in Celiac Disease Pathogenesis<\/em><\/li>\n\n\n\n<li><strong>Guinevieve Beecher<\/strong> (Neurobiology) &#8211; <em>Evaluating the crosstalk of Amyloid-\u03b2 Oligomers, Glutamate and Neurofibrillary Tangles in Alzheimer\u2019s Disease using a Boolean Model<\/em><\/li>\n\n\n\n<li><strong>Isabelle K. Bellefleur<\/strong>&nbsp;(BCMB) &#8211; <em>A Boolean Model of the Neuronal Differentiation Cascade Points to Role of Spy1 in Maintaining a Neuronal Progenitor State in Glioblastoma<\/em><\/li>\n\n\n\n<li><strong><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/?page_id=921\">Jiho Park<\/a><\/strong> (Biology) &#8211; <em>Modeling the Impact of Cellular Senescence on Wound Healing in Lung Alveolar Epithelial Tissue <\/em><\/li>\n\n\n\n<li><strong>Noa Perry<\/strong> (BCMB) &#8211; <em>From Pollution to Pathology: Assessing the Impact of PAH Exposure in Benthic Fish through Gene Expression and Tissue Abnormalities<\/em><\/li>\n\n\n\n<li><strong>Cheyenne Weaver<\/strong> (BCMB) &#8211; Immune Network Dynamics: Boolean Model of Eosinophilic Esophagitis Mast Cell Activation in the Presence of IgE<\/li>\n<\/ul>\n\n\n\n<h2 class=\"wp-block-heading has-large-font-size\">2024<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><strong>Fareeda Abu-Juam<\/strong> (BCMB) &#8211; <em>Probing The Relationship Between Partial Epithelial-to-Mesenchymal-Transition and Cell Shape in Epithelial Cells<\/em><\/li>\n\n\n\n<li><strong>Grant Greene<\/strong>&nbsp;(BCMB) &#8211; <em>Boolean Modeling of the Molecular Dynamics Governing the Epithelial and Endothelial Hypoxic Response<\/em><\/li>\n\n\n\n<li><strong>Rue Ressler<\/strong> (BCMB) &#8211; <em>Cell on the Run! Boolean Modeling of the Migrating Epithelial Cell and Induction of Mesenchymal-Epithelial Transition by OVOL2 and GRHL2<\/em><\/li>\n\n\n\n<li><strong>Nina Reddy<\/strong> (Neurobiology) &#8211; <em>Boolean Modeling and Microglial Matters: Replicating Microglial Behavior in Inflammation and Testing Model Validity<\/em><\/li>\n<\/ul>\n\n\n\n<figure class=\"wp-block-image size-large is-resized\"><img loading=\"lazy\" decoding=\"async\" width=\"768\" height=\"1024\" src=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_7221-768x1024.jpg\" alt=\"\" class=\"wp-image-914\" style=\"width:300px\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_7221-768x1024.jpg 768w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_7221-225x300.jpg 225w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_7221-1152x1536.jpg 1152w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_7221-1536x2048.jpg 1536w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_7221-scaled.jpg 1920w\" sizes=\"auto, (max-width: 768px) 100vw, 768px\" \/><\/figure>\n\n\n\n<figure class=\"wp-block-image size-large is-resized\"><img loading=\"lazy\" decoding=\"async\" width=\"768\" height=\"1024\" src=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_1831-768x1024.jpeg\" alt=\"\" class=\"wp-image-915\" style=\"width:300px\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_1831-768x1024.jpeg 768w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_1831-225x300.jpeg 225w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_1831-1152x1536.jpeg 1152w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_1831-1536x2048.jpeg 1536w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2025\/04\/IMG_1831-scaled.jpeg 1920w\" sizes=\"auto, (max-width: 768px) 100vw, 768px\" \/><\/figure>\n\n\n\n<h2 class=\"wp-block-heading has-large-font-size\">2023<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><strong><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/?page_id=841\" target=\"_blank\" rel=\"noreferrer noopener\">Caitlin Strassburg<\/a><\/strong>&nbsp;(BCMB \/ Mathematics) &#8211; <em>Conservation of Dynamic Modularity in the Regulation of Cell Cycle and Apoptosis control in<\/em> Saccharomyces cerevisiae<\/li>\n\n\n\n<li><strong><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/?page_id=845\">Katie Fleig<\/a><\/strong> (Neurobiology) &#8211; <em>An Overworked Powerhouse: a Boolean Model of Mitochondrial  Dysfunction Associated Senescence in the Context of Aging Microglia<\/em><\/li>\n<\/ul>\n\n\n\n<h2 class=\"wp-block-heading has-large-font-size\">2022<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/?page_id=695\"><strong>Andrea Brown<\/strong><\/a>&nbsp;(BCMB) &#8211; <em>The Seven Deadly Pathways: A Boolean Model of Yeast Apoptosis in Response to Reactive Oxygen Species, DNA damage, and Salt<\/em><\/li>\n\n\n\n<li><strong><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/?page_id=727\" data-type=\"page\" data-id=\"727\">Emma Davidson<\/a> <\/strong>(Neurobiology) &#8211; <em>Time Flies: An analysis of Circadian impact upon cell cycle regulation using Boolean modeling and a developmental Drosophila model<\/em><\/li>\n\n\n\n<li><strong><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/?p=747\" data-type=\"post\" data-id=\"747\">Aelon Ketema Samuel<\/a><\/strong> (Neurobiology) &#8211; <em>A Knock-out Experiment on a Neuronal Boolean Model<\/em><\/li>\n\n\n\n<li><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/ian-zonfa\/\" data-type=\"page\" data-id=\"760\"><strong>Ian Zonfa<\/strong><\/a> (BCMB) &#8211; Boolean Modeling of the Interactions Between Inflammation, Hypoxia, and the Epithelial-Mesenchymal Transition (EMT)<\/li>\n\n\n\n<li><strong><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/thinh-huynh\/\" data-type=\"post\" data-id=\"777\">Thinh Huynh<\/a><\/strong> (BCMB) &#8211; <em>Characterization of a Potential Novel Redox Partner in S. Cerevisiae Mitochondrial Disulfide Relay System and in silico Elucidating Its Essentiality<\/em><\/li>\n\n\n\n<li><strong><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/arnav-bhatnagar\/\" data-type=\"post\" data-id=\"781\">Arnav Bhatnagar<\/a><\/strong> (BCMB) &#8211; <em>Boolean Model of Mesenchymal Cell\u2019s Resistance to Chromosomal Senescence<\/em><\/li>\n<\/ul>\n\n\n\n<figure class=\"wp-block-image size-large\"><img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"790\" src=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Hawaii_conference_photo-1024x790.jpg\" alt=\"\" class=\"wp-image-840\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Hawaii_conference_photo-1024x790.jpg 1024w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Hawaii_conference_photo-300x231.jpg 300w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Hawaii_conference_photo-768x592.jpg 768w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Hawaii_conference_photo-1536x1185.jpg 1536w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2023\/05\/Hawaii_conference_photo-2048x1580.jpg 2048w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\" \/><figcaption class=\"wp-element-caption\"><strong>The 2021-2022 Regan IS lab at Winter Q-Bio&#8217;22, enjoying the sunshine and getting ready to present!&nbsp;<\/strong>#ISoutofPandemic<\/figcaption><\/figure>\n\n\n\n<h2 class=\"wp-block-heading has-large-font-size\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone size-medium wp-image-424\" src=\"http:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/09\/WEB_IS.png\" alt=\"\" width=\"1\" height=\"1\">2021<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><strong>Hikmet Sherief<\/strong> (BCMB) &#8211;&nbsp;<i>Modeling mechano-sensitive&nbsp;differentiation&nbsp;and&nbsp;reprogramming of&nbsp;embryonic stem cells<\/i><\/li>\n\n\n\n<li><strong>Marlayna Harris&nbsp;<\/strong>(BCMB) &#8211; <i>Modeling the&nbsp;relationship between epithelial to&nbsp;mesenchymal transition and cellular senescence&nbsp;<\/i><\/li>\n\n\n\n<li><strong>Stuart Ball<\/strong>&nbsp;(BCMB) &#8211;&nbsp;<i>Quantifying epithelial&nbsp;tissue fitness with a two-scale agent-based \/ Boolean&nbsp;model&nbsp;<\/i><\/li>\n\n\n\n<li><strong>Brieanna Jarell &amp; Alyssa Ramirez<\/strong> (BCMB ; joint project co-advised by Stephanie Strand) &#8211; <em>Experimental and computational study of the flocking phenotype of yeast and its parallels with EMT<\/em><\/li>\n\n\n\n<li><a href=\"http:\/\/erzsoregan.voices.wooster.edu\/Haoyu-Jiang\/\"><strong>Haoyu Jiang<\/strong><\/a> (Biology) &#8211; <em>Investigation of Autophagy: Modeling the Cellular Responds to the Undernutrition Condition<\/em><\/li>\n\n\n\n<li><b><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/paige-sogandares\/\">Paige Sogandares<\/a>&nbsp;<\/b>(Biology) &#8211; <em>Meta-Analysis of Antibiotic Resistance of Helicobacter pylori in Developing Countries<\/em>&nbsp;(co-advised by the&nbsp;University of Arkansas for Medical Sciences)<\/li>\n<\/ul>\n\n\n\n<figure class=\"wp-block-image size-full is-resized is-style-default\"><img loading=\"lazy\" decoding=\"async\" width=\"2560\" height=\"1620\" src=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2021\/04\/IS-2021-Regan-lab-scaled.jpg\" alt=\"\" class=\"wp-image-646\" style=\"width:669px;height:423px\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2021\/04\/IS-2021-Regan-lab-scaled.jpg 2560w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2021\/04\/IS-2021-Regan-lab-300x190.jpg 300w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2021\/04\/IS-2021-Regan-lab-1024x648.jpg 1024w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2021\/04\/IS-2021-Regan-lab-768x486.jpg 768w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2021\/04\/IS-2021-Regan-lab-1536x972.jpg 1536w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2021\/04\/IS-2021-Regan-lab-2048x1296.jpg 2048w\" sizes=\"auto, (max-width: 2560px) 100vw, 2560px\" \/><figcaption class=\"wp-element-caption\"><strong>The 2020-2021 Regan IS lab, meeting as we almost always did &#8211; on Teams.&nbsp;<\/strong>#ISinaPandemic<\/figcaption><\/figure>\n\n\n\n<h2 class=\"wp-block-heading has-large-font-size\">2020<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><strong><a href=\"http:\/\/erzsoregan.voices.wooster.edu\/bao-nguyen\/\">Bao Nguyen<\/a>&nbsp;<\/strong>(Neuro-BIO) &#8211;&nbsp;<i>Modeling neuroinflammation by&nbsp;microglial activation, resolution of inflammation and return to a resting state&nbsp;<\/i>\n<ul class=\"wp-block-list\">\n<li><em><a href=\"https:\/\/news.wooster.edu\/symposium\/2020\/05\/bao-chau-nguyen\/\">VIDEO summary for non-experts<\/a> (in Vietnamese with subtitles &amp; live action!)<\/em><\/li>\n<\/ul>\n<\/li>\n\n\n\n<li><strong>Emma Sullivan <\/strong>(Biology) &#8211; <em>The senescence associated secretory phenotype promotes epithelial mesenchymal transition in neighboring cells<\/em><\/li>\n\n\n\n<li><a href=\"http:\/\/erzsoregan.voices.wooster.edu\/qaiser-zaidi\/\"><strong>Qaiser Zaidi <\/strong><\/a>(BCMB) &#8211; <em>Computational prediction of developmental switches from single-cell time-series RNA-seq&nbsp;<\/em><i class=\"\">data<\/i><\/li>\n\n\n\n<li><strong>Vi Huynh<\/strong> (BCMB &amp; Math) &#8211; <em>Computational Analysis of PsAvh172 Data to Investigate the Targets of Phytophthora sojae in Soybean Host &#8212; A Hierarchical Clustering Evaluation of Yeast RNA-Seq Data<\/em><\/li>\n<\/ul>\n\n\n\n<h2 class=\"wp-block-heading has-large-font-size\">2019<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><strong><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/afton-widdershins\/\">Afton Widdershins<\/a><a href=\"http:\/\/erzsoregan.voices.wooster.edu\/caroline-obermeier\/\">&nbsp;<\/a><\/strong>(BCMB) &#8211;&nbsp;<em>Investigating the Development and Behavior of Heterogeneous Tumors<\/em><\/li>\n\n\n\n<li><strong>Carolina Shams&nbsp;<\/strong>(Neuro-BCMB) &#8211; <em>Defying the System: A Boolean Model of Neuronal Fate Decision and Aberrant Cell Cycle Re-entry in Alzheimer\u2019s Disease<\/em><\/li>\n\n\n\n<li><strong>Eric Guberman&nbsp;<\/strong>(BCMB) &#8211;&nbsp;<i class=\"\">A Boolean Model of Contact Inhibition of Proliferation<\/i><\/li>\n<\/ul>\n\n\n\n<h2 class=\"wp-block-heading\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone wp-image-522\" src=\"http:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2019\/11\/Afton_NetSci_2019-300x195.jpg\" alt=\"\" width=\"288\" height=\"187\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2019\/11\/Afton_NetSci_2019-300x195.jpg 300w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2019\/11\/Afton_NetSci_2019-768x499.jpg 768w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2019\/11\/Afton_NetSci_2019.jpg 1019w\" sizes=\"auto, (max-width: 288px) 100vw, 288px\" \/> <img loading=\"lazy\" decoding=\"async\" class=\" wp-image-523 alignright\" src=\"http:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2019\/11\/Eric_NetSci_2019-300x191.jpg\" alt=\"\" width=\"291\" height=\"185\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2019\/11\/Eric_NetSci_2019-300x191.jpg 300w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2019\/11\/Eric_NetSci_2019-768x488.jpg 768w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2019\/11\/Eric_NetSci_2019.jpg 1021w\" sizes=\"auto, (max-width: 291px) 100vw, 291px\" \/><\/h2>\n\n\n\n<p class=\"has-text-align-center\"><strong>Afton and Eric presenting their IS work at NetSci&#8217;19 in Burlington, Vermont<\/strong><\/p>\n\n\n\n<h2 class=\"wp-block-heading has-large-font-size\">2018<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><strong><a href=\"http:\/\/erzsoregan.voices.wooster.edu\/caroline-obermeier\/\">Caroline Obermeier<\/a> <\/strong>(Biology) &#8211;&nbsp;<em>Modeling the Effect of p16 on Two Types of Senescence<\/em><\/li>\n\n\n\n<li><strong><a href=\"http:\/\/erzsoregan.voices.wooster.edu\/elizabeth-obi\/\">Elizabeth Obi<\/a> <\/strong>(BCMB) &#8211;&nbsp;<em>Modeling the Effects of p14 and p53 on Common Oncogenic Pathways<\/em><\/li>\n\n\n\n<li><strong><a href=\"http:\/\/erzsoregan.voices.wooster.edu\/emma-schroeter\/\">Emma Schroeter<\/a>&nbsp;<\/strong>(Neuroscience) &#8211;&nbsp;<em>A Boolean Model of Neuronal Death upon Cell Cycle Re-entry<\/em><\/li>\n\n\n\n<li><strong><a href=\"http:\/\/erzsoregan.voices.wooster.edu\/campbell-elliot\/\">Campbell Elliott<\/a> <\/strong>(BCMB) &#8211;&nbsp;<em>Using a Boolean Model to Identify Requirements for Successful Yamanaka Reprogramming<\/em><\/li>\n\n\n\n<li><strong>Brendan Kelley-Bukovac<\/strong> (Biology) &#8211; <em>Should You Lyse your Neighbors&#8217; Houses? This Model Says &#8216;No&#8217;: An In Silico Examination of the Interactions between Bacterial and Viral Populations in the Presence of the Arbitrium System for Viral Communications<\/em><\/li>\n<\/ul>\n\n\n\n<p class=\"has-text-align-center\"><img loading=\"lazy\" decoding=\"async\" class=\"alignnone size-medium wp-image-378\" src=\"http:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/RECOMB_2018-225x300.jpg\" alt=\"\" width=\"225\" height=\"300\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/RECOMB_2018-225x300.jpg 225w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/RECOMB_2018-768x1024.jpg 768w\" sizes=\"auto, (max-width: 225px) 100vw, 225px\" \/> <img loading=\"lazy\" decoding=\"async\" class=\"alignnone wp-image-377\" src=\"http:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/Boolean_Presenters-300x225.jpg\" alt=\"\" width=\"362\" height=\"271\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/Boolean_Presenters-300x225.jpg 300w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/Boolean_Presenters-768x576.jpg 768w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/Boolean_Presenters-1024x768.jpg 1024w\" sizes=\"auto, (max-width: 362px) 100vw, 362px\" \/><strong><em>Left:<\/em><\/strong>&nbsp;<strong>Emma, Caroline and Cam presenting their IS work at Recomb&#8217;18 (Paris); <\/strong><strong><em>Right:<\/em> Elizabeth, Emma and Caroline after an amazing joint IS Symposium&nbsp;talk where&nbsp;<\/strong><b>they&nbsp;tied their very&nbsp;different IS projects into a single story.<\/b><\/p>\n\n\n\n<h2 class=\"wp-block-heading has-large-font-size\">2017<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><strong>Micah Auerbach<\/strong>&nbsp;(BCMB) &#8211; A Boolean Model of Early Stem Cell Fate Decisions<\/li>\n\n\n\n<li><strong>Laura Cremer<\/strong> (Biology) &#8211;&nbsp;Modeling the Dynamics of Epigenetic Changes on Key Pluripotency Genes in Response to Reprogramming<\/li>\n\n\n\n<li><strong>Herbert Sizek <\/strong>(BCMB) &#8211;&nbsp;Modeling the Commitment to Senescence Through Mitochondrial Fusion and Chromosomal Restructuring<\/li>\n\n\n\n<li><strong>Nathan Sundheimer<\/strong> (Neuroscience) &#8211;&nbsp;A Boolean Modeling Approach to Understanding Synergies Between Cell Phenotypes in Early Neurogenesis<\/li>\n\n\n\n<li><strong>Andrea Wade<\/strong> (BCMB) &#8211; Insecticide Fungicide Interaction and Synergistic Toxicity in Honey Bees (work @ <a href=\"https:\/\/oardc.osu.edu\">OARDC<\/a>, <a href=\"https:\/\/entomology.osu.edu\/our-people\/reed-johnson\">Reed Johnson&#8217;s Lab<\/a>)<\/li>\n<\/ul>\n\n\n\n<h2 class=\"wp-block-heading\"><img loading=\"lazy\" decoding=\"async\" class=\"wp-image-394 aligncenter\" src=\"http:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/NETWORK-2017-300x232.jpg\" alt=\"\" width=\"641\" height=\"496\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/NETWORK-2017-300x232.jpg 300w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/NETWORK-2017-768x593.jpg 768w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/NETWORK-2017-1024x791.jpg 1024w\" sizes=\"auto, (max-width: 641px) 100vw, 641px\" \/><\/h2>\n\n\n\n<h2 class=\"wp-block-heading has-large-font-size\">2016<\/h2>\n\n\n\n<ul class=\"wp-block-list\">\n<li><a href=\"https:\/\/erzsoregan.voices.wooster.edu\/andrew-hamel\/\"><strong>Andrew Hamel<\/strong><\/a>&nbsp;(BCMB) &#8211;&nbsp;A Dynamical Systems Approach to Understanding Synergies Between Thyroid Cancer Mutations<\/li>\n\n\n\n<li><strong>Heather Skinner<\/strong> (BCMB) &#8211;&nbsp;The Putative Regulatory Role of Hydrogen Cyanide in Ethylene Signaling and Biosynthesis in Arabidopsis seedlings and tomato fruit (work @ <a href=\"https:\/\/oardc.osu.edu\">OARDC<\/a>, <a href=\"https:\/\/plantpath.osu.edu\/our-people\/christopher-g-taylor\">Christopher&nbsp;Taylor&#8217;s Lab<\/a>)<\/li>\n<\/ul>\n\n\n\n<figure class=\"wp-block-image size-large is-resized is-style-default\"><img loading=\"lazy\" decoding=\"async\" width=\"1024\" height=\"750\" src=\"http:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/Andew-qBIO2017_poster-1024x750.jpg\" alt=\"\" class=\"wp-image-398\" style=\"width:667px;height:488px\" srcset=\"https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/Andew-qBIO2017_poster-1024x750.jpg 1024w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/Andew-qBIO2017_poster-300x220.jpg 300w, https:\/\/erzsoregan.voices.wooster.edu\/wp-content\/uploads\/sites\/104\/2018\/05\/Andew-qBIO2017_poster-768x563.jpg 768w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\" \/><figcaption class=\"wp-element-caption\"><strong><strong>Andrew presenting his IS work at Winter Q-Bio&#8217;16, Waikiki, Hawaii<\/strong><\/strong><\/figcaption><\/figure>\n","protected":false},"excerpt":{"rendered":"<p>Boolean Modeling&nbsp;projects in mammalian cells.&nbsp; Building on each other&#8217;s IS projects, a subset of my students &nbsp;model life, death, damage, epithelial to mesenchymal transition, and other interesting behaviors of mammalian cells (dots mark the modules a student developed, extended or &hellip; <a href=\"https:\/\/erzsoregan.voices.wooster.edu\/?page_id=341\">Continue reading <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":276,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-341","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/erzsoregan.voices.wooster.edu\/index.php?rest_route=\/wp\/v2\/pages\/341","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/erzsoregan.voices.wooster.edu\/index.php?rest_route=\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/erzsoregan.voices.wooster.edu\/index.php?rest_route=\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/erzsoregan.voices.wooster.edu\/index.php?rest_route=\/wp\/v2\/users\/276"}],"replies":[{"embeddable":true,"href":"https:\/\/erzsoregan.voices.wooster.edu\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=341"}],"version-history":[{"count":91,"href":"https:\/\/erzsoregan.voices.wooster.edu\/index.php?rest_route=\/wp\/v2\/pages\/341\/revisions"}],"predecessor-version":[{"id":927,"href":"https:\/\/erzsoregan.voices.wooster.edu\/index.php?rest_route=\/wp\/v2\/pages\/341\/revisions\/927"}],"wp:attachment":[{"href":"https:\/\/erzsoregan.voices.wooster.edu\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=341"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}