{"id":5302,"date":"2021-12-24T04:00:00","date_gmt":"2021-12-08T13:23:53","guid":{"rendered":"https:\/\/www.ibs.re.kr\/bimag\/?post_type=tribe_events&#038;p=5302"},"modified":"2021-12-21T13:35:51","modified_gmt":"2021-12-21T04:35:51","slug":"2021-12-24","status":"publish","type":"tribe_events","link":"https:\/\/www.ibs.re.kr\/bimag\/event\/2021-12-24\/","title":{"rendered":"Information Integration and Energy Expenditure in Gene Regulation"},"content":{"rendered":"<p>We will discuss about &#8220;Information Integration and Energy Expenditure in Gene Regulation&#8221;, Estrada et al., <em>Cell,<\/em> 2016<\/p>\n<p>Abstract: The quantitative concepts used to reason about gene regulation largely derive from bacterial studies. We show that this bacterial paradigm cannot explain the sharp expression of a canonical developmental gene in response to a regulating transcription factor (TF). In the absence of energy expenditure, with regulatory DNA at thermodynamic equilibrium, information integration across multiple TF binding sites can generate the required sharpness, but with strong constraints on the resultant \u201chigher-order cooperativities.\u201d Even with such integration, there is a \u201cHopfield barrier\u201d to sharpness; for\u00a0<span class=\"math\"><span id=\"MathJax-Element-1-Frame\" class=\"MathJax_SVG\" style=\"box-sizing: border-box; margin: 0px; padding: 0px; display: inline-block; font-style: normal; font-weight: normal; line-height: normal; font-size: 16.2px; text-indent: 0px; text-align: left; text-transform: none; letter-spacing: normal; word-spacing: normal; overflow-wrap: normal; white-space: nowrap; float: none; direction: ltr; max-width: none; max-height: none; min-width: 0px; min-height: 0px; border: 0px; position: relative;\" tabindex=\"0\" role=\"presentation\" data-mathml=\"&lt;math xmlns=&quot;http:\/\/www.w3.org\/1998\/Math\/MathML&quot;&gt;&lt;mi is=&quot;true&quot;&gt;n&lt;\/mi&gt;&lt;\/math&gt;\"><span class=\"MJX_Assistive_MathML\" role=\"presentation\">n<\/span><\/span><\/span>\u00a0TF binding sites, this barrier is represented by the Hill function with the\u00a0Hill coefficient\u00a0<span class=\"math\"><span id=\"MathJax-Element-2-Frame\" class=\"MathJax_SVG\" style=\"box-sizing: border-box; margin: 0px; padding: 0px; display: inline-block; font-style: normal; font-weight: normal; line-height: normal; font-size: 16.2px; text-indent: 0px; text-align: left; text-transform: none; letter-spacing: normal; word-spacing: normal; overflow-wrap: normal; white-space: nowrap; float: none; direction: ltr; max-width: none; max-height: none; min-width: 0px; min-height: 0px; border: 0px; position: relative;\" tabindex=\"0\" role=\"presentation\" data-mathml=\"&lt;math xmlns=&quot;http:\/\/www.w3.org\/1998\/Math\/MathML&quot;&gt;&lt;mi is=&quot;true&quot;&gt;n&lt;\/mi&gt;&lt;\/math&gt;\"><span class=\"MJX_Assistive_MathML\" role=\"presentation\">n<\/span><\/span><\/span>. If, however, energy is expended to maintain regulatory DNA away from thermodynamic equilibrium, as in\u00a0kinetic proofreading, this barrier can be breached and greater sharpness achieved. Our approach is grounded in fundamental physics, leads to testable experimental predictions, and suggests how a quantitative paradigm for eukaryotic gene regulation can be formulated.<\/p>\n","protected":false},"excerpt":{"rendered":"<p>We will discuss about &#8220;Information Integration and Energy Expenditure in Gene Regulation&#8221;, Estrada et al., Cell, 2016 Abstract: The quantitative concepts used to reason about gene regulation largely derive from &hellip; <\/p>\n<p class=\"link-more\"><a href=\"https:\/\/www.ibs.re.kr\/bimag\/event\/2021-12-24\/\" class=\"more-link\">Continue reading<span class=\"screen-reader-text\"> &#8220;Information Integration and Energy Expenditure in Gene Regulation&#8221;<\/span><\/a><\/p>\n","protected":false},"author":3,"featured_media":0,"template":"","meta":{"_editorskit_title_hidden":false,"_editorskit_reading_time":0,"_editorskit_is_block_options_detached":false,"_editorskit_block_options_position":"{}","_uag_custom_page_level_css":"","_tribe_events_status":"","_tribe_events_status_reason":"","footnotes":""},"tags":[],"tribe_events_cat":[219],"class_list":["post-5302","tribe_events","type-tribe_events","status-publish","hentry","tribe_events_cat-journal-club","cat_journal-club"],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v27.5 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>Information Integration and Energy Expenditure in Gene Regulation - Biomedical Mathematics Group<\/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.ibs.re.kr\/bimag\/event\/2021-12-24\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Information Integration and Energy Expenditure in Gene Regulation - Biomedical Mathematics Group\" \/>\n<meta property=\"og:description\" content=\"We will discuss about &#8220;Information Integration and Energy Expenditure in Gene Regulation&#8221;, Estrada et al., Cell, 2016 Abstract: The quantitative concepts used to reason about gene regulation largely derive from &hellip; 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Continue reading \"Information Integration and Energy Expenditure in Gene Regulation\"","og_url":"https:\/\/www.ibs.re.kr\/bimag\/event\/2021-12-24\/","og_site_name":"Biomedical Mathematics Group","article_modified_time":"2021-12-21T04:35:51+00:00","twitter_card":"summary_large_image","twitter_misc":{"Est. reading time":"1 minute"},"schema":{"@context":"https:\/\/schema.org","@graph":[{"@type":"WebPage","@id":"https:\/\/www.ibs.re.kr\/bimag\/event\/2021-12-24\/","url":"https:\/\/www.ibs.re.kr\/bimag\/event\/2021-12-24\/","name":"Information Integration and Energy Expenditure in Gene Regulation - Biomedical Mathematics Group","isPartOf":{"@id":"https:\/\/www.ibs.re.kr\/bimag\/#website"},"datePublished":"2021-12-08T13:23:53+00:00","dateModified":"2021-12-21T04:35:51+00:00","breadcrumb":{"@id":"https:\/\/www.ibs.re.kr\/bimag\/event\/2021-12-24\/#breadcrumb"},"inLanguage":"en-US","potentialAction":[{"@type":"ReadAction","target":["https:\/\/www.ibs.re.kr\/bimag\/event\/2021-12-24\/"]}]},{"@type":"BreadcrumbList","@id":"https:\/\/www.ibs.re.kr\/bimag\/event\/2021-12-24\/#breadcrumb","itemListElement":[{"@type":"ListItem","position":1,"name":"Home","item":"https:\/\/www.ibs.re.kr\/bimag\/"},{"@type":"ListItem","position":2,"name":"Events","item":"https:\/\/www.ibs.re.kr\/bimag\/events\/"},{"@type":"ListItem","position":3,"name":"Information Integration and Energy Expenditure in Gene Regulation"}]},{"@type":"WebSite","@id":"https:\/\/www.ibs.re.kr\/bimag\/#website","url":"https:\/\/www.ibs.re.kr\/bimag\/","name":"Biomedical Mathematics Group","description":"\uae30\ucd08\uacfc\ud559\uc5f0\uad6c\uc6d0 \uc758\uc0dd\uba85\uc218\ud559\uadf8\ub8f9","publisher":{"@id":"https:\/\/www.ibs.re.kr\/bimag\/#organization"},"potentialAction":[{"@type":"SearchAction","target":{"@type":"EntryPoint","urlTemplate":"https:\/\/www.ibs.re.kr\/bimag\/?s={search_term_string}"},"query-input":{"@type":"PropertyValueSpecification","valueRequired":true,"valueName":"search_term_string"}}],"inLanguage":"en-US"},{"@type":"Organization","@id":"https:\/\/www.ibs.re.kr\/bimag\/#organization","name":"IBS Biomedical Mathematics Group","url":"https:\/\/www.ibs.re.kr\/bimag\/","logo":{"@type":"ImageObject","inLanguage":"en-US","@id":"https:\/\/www.ibs.re.kr\/bimag\/#\/schema\/logo\/image\/","url":"https:\/\/www.ibs.re.kr\/bimag\/cms\/wp-content\/uploads\/2021\/02\/ibs-circle-1.png","contentUrl":"https:\/\/www.ibs.re.kr\/bimag\/cms\/wp-content\/uploads\/2021\/02\/ibs-circle-1.png","width":250,"height":250,"caption":"IBS Biomedical Mathematics Group"},"image":{"@id":"https:\/\/www.ibs.re.kr\/bimag\/#\/schema\/logo\/image\/"}}]}},"uagb_featured_image_src":{"full":false,"thumbnail":false,"medium":false,"medium_large":false,"large":false,"1536x1536":false,"2048x2048":false,"dimag-thumbnail":false,"twentyseventeen-featured-image":false,"twentyseventeen-thumbnail-avatar":false},"uagb_author_info":{"display_name":"BIMAG","author_link":"https:\/\/www.ibs.re.kr\/bimag\/author\/hphongblog\/"},"uagb_comment_info":0,"uagb_excerpt":"We will discuss about &#8220;Information Integration and Energy Expenditure in Gene Regulation&#8221;, Estrada et al., Cell, 2016 Abstract: The quantitative concepts used to reason about gene regulation largely derive from &hellip; Continue reading \"Information Integration and Energy Expenditure in Gene Regulation\"","jetpack_sharing_enabled":true,"_links":{"self":[{"href":"https:\/\/www.ibs.re.kr\/bimag\/wp-json\/wp\/v2\/tribe_events\/5302","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.ibs.re.kr\/bimag\/wp-json\/wp\/v2\/tribe_events"}],"about":[{"href":"https:\/\/www.ibs.re.kr\/bimag\/wp-json\/wp\/v2\/types\/tribe_events"}],"author":[{"embeddable":true,"href":"https:\/\/www.ibs.re.kr\/bimag\/wp-json\/wp\/v2\/users\/3"}],"version-history":[{"count":4,"href":"https:\/\/www.ibs.re.kr\/bimag\/wp-json\/wp\/v2\/tribe_events\/5302\/revisions"}],"predecessor-version":[{"id":5362,"href":"https:\/\/www.ibs.re.kr\/bimag\/wp-json\/wp\/v2\/tribe_events\/5302\/revisions\/5362"}],"wp:attachment":[{"href":"https:\/\/www.ibs.re.kr\/bimag\/wp-json\/wp\/v2\/media?parent=5302"}],"wp:term":[{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.ibs.re.kr\/bimag\/wp-json\/wp\/v2\/tags?post=5302"},{"taxonomy":"tribe_events_cat","embeddable":true,"href":"https:\/\/www.ibs.re.kr\/bimag\/wp-json\/wp\/v2\/tribe_events_cat?post=5302"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}