{"id":105,"date":"2025-11-26T10:48:27","date_gmt":"2025-11-26T15:48:27","guid":{"rendered":"https:\/\/www.clarku.edu\/mathematics\/?p=105"},"modified":"2025-12-09T12:03:04","modified_gmt":"2025-12-09T17:03:04","slug":"bioinformatic-analysis-of-transcription-factor-binding-sites","status":"publish","type":"post","link":"https:\/\/www.clarku.edu\/mathematics\/bioinformatic-analysis-of-transcription-factor-binding-sites\/","title":{"rendered":"Bioinformatic Analysis of Transcription Factor Binding Sites"},"content":{"rendered":"\n<p class=\"is-style-default\"><strong>Navid Al Hossain, Regan Conrad<\/strong><\/p>\n\n\n<div style=\"color:inherit\" class=\"eyebrow  has-text-align-left\">Mentor: Jacqueline Dresch<\/div>\n\n\n\n<p class=\"has-small-font-size\">Predicting the location of protein binding sites within a genome is a difficult task, but is an integral part of furthering our understanding of gene regulation.<\/p>\n\n\n\n<p class=\"has-small-font-size\">Navid\u2019s project focused on analyzing the correlation between the frequency of binding sites within raw sequence data and the bioinformatically predicted \u2018strength\u2019 of these binding sites. His work has been instrumental in the experimental design and continued collaboration between the Dresch group in the Mathematics and Computer Science Department, the Drewell lab in Biology, and the Spratt lab in Chemistry.<\/p>\n\n\n\n<p class=\"has-small-font-size\">Regan\u2019s project focused on analyzing bioinformatic predictions of binding sites within core promoter regions from Drosophila melanogaster to investigate potential nucleotide dependencies and improve the predictive power of these algorithms.<\/p>\n","protected":false},"excerpt":{"rendered":"<p>Navid Al Hossain, Regan Conrad Predicting the location of protein binding sites within a genome is a difficult task, but is an integral part of furthering our understanding of gene regulation. Navid\u2019s project focused on analyzing the correlation between the frequency of binding sites within raw sequence data and the bioinformatically predicted \u2018strength\u2019 of these [&hellip;]<\/p>\n","protected":false},"author":15,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"footnotes":"","_links_to":"","_links_to_target":""},"categories":[8],"tags":[],"class_list":["post-105","post","type-post","status-publish","format-standard","hentry","category-student-research"],"yoast_head":"<!-- This site is optimized with the Yoast SEO Premium plugin v28.1 (Yoast SEO v28.5) - https:\/\/yoast.com\/product\/yoast-seo-premium-wordpress\/ -->\n<title>Bioinformatic Analysis of Transcription Factor Binding Sites | Mathematics | Clark University<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.clarku.edu\/mathematics\/bioinformatic-analysis-of-transcription-factor-binding-sites\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Bioinformatic Analysis of Transcription Factor Binding Sites\" \/>\n<meta property=\"og:description\" content=\"Navid Al Hossain, Regan Conrad Predicting the location of protein binding sites within a genome is a difficult task, but is an integral part of furthering our understanding of gene regulation. Navid\u2019s project focused on analyzing the correlation between the frequency of binding sites within raw sequence data and the bioinformatically predicted \u2018strength\u2019 of these [&hellip;]\" \/>\n<meta property=\"og:url\" content=\"https:\/\/www.clarku.edu\/mathematics\/bioinformatic-analysis-of-transcription-factor-binding-sites\/\" \/>\n<meta property=\"og:site_name\" content=\"Mathematics\" \/>\n<meta property=\"article:publisher\" content=\"https:\/\/www.facebook.com\/ClarkUniversityWorcester\" \/>\n<meta property=\"article:published_time\" content=\"2025-11-26T15:48:27+00:00\" \/>\n<meta property=\"article:modified_time\" content=\"2025-12-09T17:03:04+00:00\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:creator\" content=\"@clarkuniversity\" \/>\n<meta name=\"twitter:site\" content=\"@clarkuniversity\" \/>\n<meta name=\"twitter:label1\" content=\"Written by\" \/>\n\t<meta name=\"twitter:data1\" content=\"Jordan Aubin\" \/>\n\t<meta name=\"twitter:label2\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data2\" content=\"1 minute\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\\\/\\\/schema.org\",\"@graph\":[{\"@type\":\"Article\",\"@id\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/bioinformatic-analysis-of-transcription-factor-binding-sites\\\/#article\",\"isPartOf\":{\"@id\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/bioinformatic-analysis-of-transcription-factor-binding-sites\\\/\"},\"headline\":\"Bioinformatic Analysis of Transcription Factor Binding Sites\",\"datePublished\":\"2025-11-26T15:48:27+00:00\",\"dateModified\":\"2025-12-09T17:03:04+00:00\",\"mainEntityOfPage\":{\"@id\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/bioinformatic-analysis-of-transcription-factor-binding-sites\\\/\"},\"wordCount\":130,\"articleSection\":[\"Student Research\"],\"inLanguage\":\"en-US\"},{\"@type\":\"WebPage\",\"@id\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/bioinformatic-analysis-of-transcription-factor-binding-sites\\\/\",\"url\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/bioinformatic-analysis-of-transcription-factor-binding-sites\\\/\",\"name\":\"Bioinformatic Analysis of Transcription Factor Binding Sites | Mathematics | Clark University\",\"isPartOf\":{\"@id\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/#website\"},\"datePublished\":\"2025-11-26T15:48:27+00:00\",\"dateModified\":\"2025-12-09T17:03:04+00:00\",\"author\":{\"@id\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/#\\\/schema\\\/person\\\/73c3626fe9ff937cd35eb2269f0ed7a2\"},\"inLanguage\":\"en-US\",\"potentialAction\":[{\"@type\":\"ReadAction\",\"target\":[\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/bioinformatic-analysis-of-transcription-factor-binding-sites\\\/\"]}]},{\"@type\":\"BreadcrumbList\",\"@id\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/wp-json\\\/wp\\\/v2\\\/posts\\\/105#breadcrumbs\",\"itemListElement\":[{\"@type\":\"ListItem\",\"position\":0,\"name\":\"ClarkU\",\"item\":\"https:\\\/\\\/www.clarku.edu\\\/\"},{\"@type\":\"ListItem\",\"position\":1,\"name\":\"Mathematics\",\"item\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\"}]},{\"@type\":\"WebSite\",\"@id\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/#website\",\"url\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/\",\"name\":\"Mathematics\",\"description\":\"\",\"potentialAction\":[{\"@type\":\"SearchAction\",\"target\":{\"@type\":\"EntryPoint\",\"urlTemplate\":\"https:\\\/\\\/www.clarku.edu\\\/mathematics\\\/?s={search_term_string}\"},\"query-input\":{\"@type\":\"PropertyValueSpecification\",\"valueRequired\":true,\"valueName\":\"search_term_string\"}}],\"inLanguage\":\"en-US\"}]}<\/script>\n<!-- \/ Yoast SEO Premium plugin. -->","yoast_head_json":{"title":"Bioinformatic Analysis of Transcription Factor Binding Sites | Mathematics | Clark University","robots":{"index":"index","follow":"follow","max-snippet":"max-snippet:-1","max-image-preview":"max-image-preview:large","max-video-preview":"max-video-preview:-1"},"canonical":"https:\/\/www.clarku.edu\/mathematics\/bioinformatic-analysis-of-transcription-factor-binding-sites\/","og_locale":"en_US","og_type":"article","og_title":"Bioinformatic Analysis of Transcription Factor Binding Sites","og_description":"Navid Al Hossain, Regan Conrad Predicting the location of protein binding sites within a genome is a difficult task, but is an integral part of furthering our understanding of gene regulation. 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