{"id":11,"date":"2016-09-13T16:59:15","date_gmt":"2016-09-13T16:59:15","guid":{"rendered":"http:\/\/blog.metu.edu.tr\/indbio\/?page_id=11"},"modified":"2026-02-24T09:40:21","modified_gmt":"2026-02-24T09:40:21","slug":"research","status":"publish","type":"page","link":"https:\/\/blog.metu.edu.tr\/indbio\/research\/","title":{"rendered":"Research"},"content":{"rendered":"<h3><strong><span style=\"color: #ff0000\">RESEARCH TOPICS\u00a0\u00a0for the Graduate Students <\/span><\/strong><strong><span style=\"color: #ff0000\">\u00a0<\/span>\u00a0 \u00a0 \u00a0 \u00a0 \u00a0<\/strong><\/h3>\n<p>The \u00c7al\u0131k Research Group is a creative Lab at the forefront of biochemical reaction engineering and biocatalysis (through metabolic engineering in cells) for the production of high-value therapeutic proteins (for the pharmaceutical sectors) and intermediate biomolecules as novel reactants (for chemical industries). We develop green-and-clean processes with low-entropy features and prioritize integrity and safety in our research.<\/p>\n<h3><strong>Research in \u00c7al\u0131k\u2019s Lab\u00a0<\/strong><strong><span style=\"color: #ff0000\">(2025-2026 Spring Semester)\u00a0<\/span><\/strong><\/h3>\n<h4><strong>The six main research lines in Professor \u00c7al\u0131k\u2019s Lab:<\/strong><\/h4>\n<h4><strong>Engineering at molecular- and micro- scales: Lines 1-3 <\/strong><\/h4>\n<p>(1) Design and construction of hybrid-architectured <em>de novo<\/em> synthetic promoters to activate targeted intracellular reaction pathway(s)<\/p>\n<p>(2) Transcriptional engineering in cells for the overexpression of master transcription factor(s) to decrease the pressure on the transcriptional machinery<\/p>\n<p>(3) Design and assembly of <em>de novo<\/em> intracellular reaction pathway(s) for biomolecule synthesis<\/p>\n<h4><strong>Engineering at mesoscale (pilot-scale): Line 4 <\/strong><\/h4>\n<p>(4) Analysis and design of bioreactor operation conditions for bioreactor design<\/p>\n<h4><strong>Computational methodologies for biochemical reaction engineering: Lines 5 and 6 <\/strong><\/h4>\n<p>(5) Genome-scale (GEMs) and biochemical-reactions-based model construction and analysis<\/p>\n<p>(6) Prediction of master transcription factors and binding sites for designing synthetic promoter architectures<\/p>\n<p><span style=\"color: #ff0000\"><strong>\u00a0<\/strong><\/span><\/p>\n<p><span style=\"font-size: xx-large\"><strong><span style=\"color: #002855\">Collaborating with:<\/span><\/strong><\/span><\/p>\n<p><strong><span style=\"color: #002855\">Professor Jianguo Zhang (University of Shanghai for Science and Technology, School of Health Science and Engineering)<\/span><\/strong><\/p>\n<p><strong><span style=\"color: #002855\">Professor Tun\u00e7er H \u00d6zdamar (Ankara University, Dept of Chemical Engineering)<\/span><\/strong><\/p>\n<p><strong><span style=\"color: #002855\">Associate Professor Aybar Acar\u00a0 (METU, Institute of Bioinformatics)<\/span><\/strong><\/p>\n\n\n<p><\/p>\n","protected":false},"excerpt":{"rendered":"<p>RESEARCH TOPICS\u00a0\u00a0for the Graduate Students \u00a0\u00a0 \u00a0 \u00a0 \u00a0 \u00a0 The \u00c7al\u0131k Research Group is a creative Lab at the forefront of biochemical reaction engineering and biocatalysis (through metabolic engineering in cells) for the production of high-value therapeutic proteins (for the pharmaceutical sectors) and intermediate biomolecules as novel reactants (for chemical industries). We develop green-and-clean [&hellip;]<\/p>\n","protected":false},"author":4302,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":"","_links_to":"","_links_to_target":""},"class_list":["post-11","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blog.metu.edu.tr\/indbio\/wp-json\/wp\/v2\/pages\/11","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blog.metu.edu.tr\/indbio\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blog.metu.edu.tr\/indbio\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blog.metu.edu.tr\/indbio\/wp-json\/wp\/v2\/users\/4302"}],"replies":[{"embeddable":true,"href":"https:\/\/blog.metu.edu.tr\/indbio\/wp-json\/wp\/v2\/comments?post=11"}],"version-history":[{"count":0,"href":"https:\/\/blog.metu.edu.tr\/indbio\/wp-json\/wp\/v2\/pages\/11\/revisions"}],"wp:attachment":[{"href":"https:\/\/blog.metu.edu.tr\/indbio\/wp-json\/wp\/v2\/media?parent=11"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}