{"id":429,"date":"2017-11-21T19:03:04","date_gmt":"2017-11-21T17:03:04","guid":{"rendered":"http:\/\/members.loria.fr\/IsaureCB\/?page_id=429"},"modified":"2023-06-21T15:05:25","modified_gmt":"2023-06-21T13:05:25","slug":"phd","status":"publish","type":"page","link":"https:\/\/members.loria.fr\/IsaureCB\/jobs-available\/phd\/","title":{"rendered":"PhD"},"content":{"rendered":"

PhD Grant available<\/span><\/h3>\n

Deap-learning host-pathogen surface <\/span>interactome to design novel therapeutics<\/span><\/strong><\/h2>\n

 <\/p>\n

Thesis supervisor<\/strong><\/span>:<\/span> Hamed Khakzad (CR <\/span>INRIA, LORIA<\/span>)<\/span><\/p>\n

Thesis promotor<\/strong><\/span>:<\/span> <\/b>Isaure Chauvot de Beauchene<\/span> (CR CNRS, LORIA).<\/span><\/span><\/p>\n

Starting date<\/strong><\/span>: Fall 2023 or early 2024, depending on candidate availability
\n<\/span><\/p>\n

Duration<\/strong><\/span>: 36 months<\/span><\/p>\n

Funding<\/strong><\/span>: INRIA CPJ, already acquired
\n<\/span><\/p>\n

Salary<\/strong><\/span>: 2050 gross\/month in 1st-2nd year, 2158 gross\/month in 3rd year.
\n<\/span><\/p>\n

 <\/p>\n

Antimicrobial resistance (AMR) is one of the top ten global public health threats <\/span>facing humanity and is predicted to cause 10 million deaths yearly by 2050.<\/span>
R<\/span>esistance against antibiotics have been increasingly observed world-wide, showing <\/span>an essential need for novel therapeutics. Accordingly, the detailed understanding of <\/span>the molecular interactions between pathogens and their hosts is crucial. <\/span><\/p>\n

The main goal of this PhD project is to<\/span> study the<\/span> surfaces of<\/span> protein-protein <\/span>interactions<\/span><\/strong> that help Streptococcus Pyogenes to evade the immune responses. Such <\/span>information will be used then to<\/span> design protein binders<\/span> to inhibit such interactions. <\/span>To achieve this goal, the candidate will develop a<\/span> deep learning<\/span><\/strong> model to predict the <\/span>binding sites and the potential binders within the search space. <\/span>This position will provide<\/span> international collaboration<\/span><\/strong> with microbiologists and <\/span>protein design groups with the possibility of in-site<\/span> internships<\/span> for 1-3 months.<\/span><\/p>\n

The PhD candidate will be hosted in the<\/span> CAPSID team, LORIA<\/span> lab<\/span> (INRIA \u2013<\/span>CNRS \u2013 UL)<\/span>, supervised by<\/span> Hamed Khakzad<\/span> (<\/span>INRIA<\/span> Junior Professor) with<\/span>
expertise in integrative structural biology, host-pathogen interactions, protein design, <\/span>and deep learning,<\/span> Marie-Dominique Devignes<\/span> (CNRS, HDR), expert in data<\/span>
integration and knowledge discovery from biological databases,<\/span> and<\/span> Isaure Chauvot <\/span>de Beauchene<\/span>, expert in macromolecular modeling and docking<\/span>. The team consists<\/span>
of<\/span> 7<\/span> permanent<\/span> researchers<\/span> with<\/span> expertise<\/span> in<\/span> macromolecular<\/span> interactions<\/span> and <\/span>docking, structural biology, and deep learning, together with several PhD and master<\/span>
students.<\/span><\/p>\n

Eligibility<\/strong><\/span>:<\/span><\/p>\n

    \n
  • Master’s degree in Computer Science, Bioinformatics, Chemoinformatics or a <\/span>related master program<\/span><\/li>\n
  • Proficiency in programming languages (Python) and good coding practices is a <\/span>must<\/span><\/li>\n
  • Skills in algorithm design<\/span><\/li>\n
  • Experience in machine learning and\/or deep learning (scikit, PyTorch)<\/span><\/li>\n
  • Ability to work independently and also to work in a team<\/span><\/li>\n
  • Excellent oral and written English skills<\/span><\/li>\n<\/ul>\n

    Applications<\/span> <\/strong><\/span> must be sent t<\/span>o Hamed.Khakzad@inria.fr, <\/span><\/span>and must include: <\/span><\/p>\n

      \n
    • a detailed recent CV<\/li>\n
    • a list of publications, if any<\/li>\n
    • a cover letter describing the candidate’s research interest and expertise relevant to the subject<\/span><\/li>\n
    • the name of at least 2 scientists willing to provide a letter of recommendation, incl. Master supervisor.<\/li>\n
    • the Master thesis reports if available<\/li>\n
    • links to the Master\/PhD thesis if available<\/li>\n
    • links to personal code repositories (s.a. github), if any<\/li>\n<\/ul>\n","protected":false},"excerpt":{"rendered":"

      PhD Grant available
      \nDeap-learning host-pathogen surface interactome to design novel therapeutics<\/p>\n

       <\/p>\n

      Thesis supervisor: Hamed Khakzad (CR INRIA, LORIA)<\/p>\n

      Thesis promotor: Isaure Chauvot de Beauchene (CR CNRS, LORIA).<\/p>\n

      Starting date: Fall 2023 or early 2024, depending on candidate availability\n<\/p>\n

      Duration: 36 months<\/p>\n

      Funding: INRIA CPJ, already acquired\n<\/p>\n

      Salary: 2050 gross\/month in 1st-2nd year, 2158 gross\/month in 3rd year.\n<\/p>\n

       <\/p>\n

      Antimicrobial resistance (AMR) is one of the top ten global public health threats facing humanity and is predicted to cause 10 million deaths yearly by 2050.<\/p>\n","protected":false},"author":152,"featured_media":0,"parent":396,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-429","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/members.loria.fr\/IsaureCB\/wp-json\/wp\/v2\/pages\/429","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/members.loria.fr\/IsaureCB\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/members.loria.fr\/IsaureCB\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/members.loria.fr\/IsaureCB\/wp-json\/wp\/v2\/users\/152"}],"replies":[{"embeddable":true,"href":"https:\/\/members.loria.fr\/IsaureCB\/wp-json\/wp\/v2\/comments?post=429"}],"version-history":[{"count":19,"href":"https:\/\/members.loria.fr\/IsaureCB\/wp-json\/wp\/v2\/pages\/429\/revisions"}],"predecessor-version":[{"id":785,"href":"https:\/\/members.loria.fr\/IsaureCB\/wp-json\/wp\/v2\/pages\/429\/revisions\/785"}],"up":[{"embeddable":true,"href":"https:\/\/members.loria.fr\/IsaureCB\/wp-json\/wp\/v2\/pages\/396"}],"wp:attachment":[{"href":"https:\/\/members.loria.fr\/IsaureCB\/wp-json\/wp\/v2\/media?parent=429"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}