{"id":266,"date":"2024-05-02T23:08:32","date_gmt":"2024-05-02T21:08:32","guid":{"rendered":"https:\/\/members.loria.fr\/YKarami\/?p=266"},"modified":"2025-04-21T15:37:36","modified_gmt":"2025-04-21T13:37:36","slug":"about-me","status":"publish","type":"post","link":"https:\/\/members.loria.fr\/YKarami\/about-me\/","title":{"rendered":"About me"},"content":{"rendered":"

I am an Inria researcher (CRCN) at Inria center at the Lorraine University in Nancy since January 2023, working on Structural Computational Biology.<\/p>\n

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I have obtained both my bachelor and master in Computer Engineering, and a PhD in Bioinformatics at the Sorbonne Universit\u00e9<\/strong> in 2016. My thesis was focused on understanding the role of disease associated mutations by performing Molecular Dynamics simulations (MD) and analysing the conformational dynamics of proteins. During the PhD I have developed two methods (COMMA<\/a> and Infostery<\/a>) that allow us to investigate the data from MD simulations in a graph theoretic framework. After that I had a 2-year postdoc at the Universit\u00e9 de Paris<\/strong>, focusing on protein modeling. I have developed two methods for loop modeling (DaReUS-Loop<\/a>) and cyclic peptide design (PEP-Cyclizer<\/a>). Then I moved to Institut Pasteur<\/strong> for a 4-year postdoc in the group of Pr. Michael Nilges. In Pasteur, I was involved in several interdisciplinary projects, working with biologists and chemists. My main research was focused on understanding the molecular mechanism of infectious disease and drug design.<\/p>\n

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My current research is focused on developing computational methods to better understand the conformational dynamics of macromolecular complexes. We recently developed ComPASS<\/a>, a method to identify communication pathways within macromolecular complexes.<\/p>\n

 <\/p>\n

Another recent project of the team is DynamicGT<\/a>. We introduced a novel dynamic-aware method for predicting protein-protein binding sites by integrating conformational dynamics into a cooperative graph neural network (Co-GNN) architecture with a geometric transformer (GT).<\/p>\n

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Link to follow me on social media:<\/h5>\n
LinkedIn<\/a><\/h5>\n
X<\/a><\/h5>\n

 <\/p>\n

\"\"<\/a><\/p>\n","protected":false},"excerpt":{"rendered":"

I am an Inria researcher (CRCN) at Inria center at the Lorraine University in Nancy since January 2023, working on Structural Computational Biology.   I have obtained both my bachelor and master in Computer Engineering, and a PhD in Bioinformatics at the Sorbonne Universit\u00e9 in 2016. My thesis was focused on understanding the role of […]<\/p>\n","protected":false},"author":241,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[1],"tags":[],"class_list":["post-266","post","type-post","status-publish","format-standard","hentry","category-non-classe"],"_links":{"self":[{"href":"https:\/\/members.loria.fr\/YKarami\/wp-json\/wp\/v2\/posts\/266","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/members.loria.fr\/YKarami\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/members.loria.fr\/YKarami\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/members.loria.fr\/YKarami\/wp-json\/wp\/v2\/users\/241"}],"replies":[{"embeddable":true,"href":"https:\/\/members.loria.fr\/YKarami\/wp-json\/wp\/v2\/comments?post=266"}],"version-history":[{"count":9,"href":"https:\/\/members.loria.fr\/YKarami\/wp-json\/wp\/v2\/posts\/266\/revisions"}],"predecessor-version":[{"id":286,"href":"https:\/\/members.loria.fr\/YKarami\/wp-json\/wp\/v2\/posts\/266\/revisions\/286"}],"wp:attachment":[{"href":"https:\/\/members.loria.fr\/YKarami\/wp-json\/wp\/v2\/media?parent=266"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/members.loria.fr\/YKarami\/wp-json\/wp\/v2\/categories?post=266"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/members.loria.fr\/YKarami\/wp-json\/wp\/v2\/tags?post=266"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}