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| − | ==News==
| + | '''Team activities in 2024''' | ''[[Activites archives|Previous years]]'' |
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| − | <span style="color:blue"><big>TEAM PRESENTATION </big></span>
| + | = Scientific highlights = |
| − | ===Team meetings=== | + | == March == |
| − | '''(*) Every Tuesday 13h30 to 15h30'''<br />
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| − | 1st Tuesday of the month : Reports of members A-G<br />
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| − | 2nd Tuesday of the month : Reports of members H-N<br />
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| − | 3rd Tuesday of the month : Reports of members O-Z<br />
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| − | 4th Tuesday of the month : Meeting for permanent members<br />
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| − | Last Thusrday of the month at 14h00 : Presentations of trainees/students followed by questions (2 to 3 presentations of 12 min for trainees and 1st and 2nd year PhD students, 20 min for 3rd year PhD students).<br />
| + | 25/03: Article "Meyer et al. IMPatienT: an Integrated web application to digitize, process and explore Multimodal PATIENt daTa" accepted for publication in Journal of Neuromuscular Diseases.</br> |
| | + | 21/03: Seminars by PhD students concerning the topic 'détection pour la cybersécurité' with Sherbrooke University (follow up of their visit in February)</br> |
| | + | 21/03: Presentations accepted in RESSI (Rendez-Vous de la Recherche et de l'Enseignement de la Sécurité des Systèmes d'Information; mai) for PhD students of Pierre Parrend: Julien Michel, Majed Jaber, Côme Frappé-Vialatoux</br> |
| | + | 11/03: The project for a Junior Professor Chair 'Atlas comparatif des répertoires de gènes et relations génotype-phénotype' led by Odile Lecompte is accepted. </br> |
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| − | === May 2022 === | + | == February == |
| − | 03-05: Meeting for permanent members <br />
| + | 23/02 : Article accepted : C. Frappé--Vialatoux et P. Parrend, Combining Physical and Network Data for Attack Detection in Water Distribution Networks, Water Distribution Systems Analysis (WDSA)/Computing and Control Water Industry (CCWI) Joint Conference, Ferrara, Italy.</br> |
| | + | 20/02 : Project meeting of CILRET-PASS (PIA and ITMO Génétique Génomique et Bioinformatique d'AVIESAN): Work in progress and perspectives.</br> |
| | + | 12/02 : Invited seminar by Prof Lennart Martens, Ghent University. Lennart is head of the CompOmics [https://www.compomics.com] team and a specialist in the development of tools for proteomics data analysis, including AI approaches.</br> |
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| − | === April 2022 === | + | == January == |
| | + | 24/01 : PhD thesis defense of Amani Abou-Rida, "Enhancing Detection and Explainability in Cybersecurity: A Shift from Machine Learning to Graph Learning.", supervised by Rabih Amhaz and Pierre Parrend</br> |
| | + | 09/01 : Article “Impact of Decentralized Autonomous Organizations (DAO) on society 5.0” accepted in 8th International Conference on Networks and Communications, Rabih Amhaz</br> |
| | + | 29/01 : Project CZI (Chan Zuckerberg Initiative) Collaborative Pairs Pilot Project Awards: "Moonlighting functions in neurodegenerative aaRSopathies", proposition rejected</br> |
| | + | 05/01 : Article "Pathogenic missense variation in PABPC1L/EPAB causes female infertility due to oocyte maturation arrest at the germinal vesicle stage" Journal of Assisted Reproduction and Genetics (accepted in december) publishe on line (C. Mayer, K. Chennen)</br> |
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| − | 01-04: End of Freezer project, with EPITA students (reaction tool in case of computer attack, which allows to prevent the connection of new users, the opening of new network accesses), supervised by Pierre Parrend<br />
| + | = Visitors = |
| − | 04/08-04: Online colloque « Directed Minors & Digraphs Structure Theory », organised by J.-S. Sereni, R. Steiner & S. Wiederrecht in the context of the network « A Sparse (Graphs) Coalition »<br />
| + | <br /> |
| − | 05-04 : Meeting of steering committee Mentorat en Alsace - Université de Strasbourg and Université de Haute Alsace (O. Lecompte)<br />
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| − | 05-04 : Group meeting A (A-K)<br />
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| − | 05-04 : Meeting with SDC team (N. Lachiche, G. Frey) : graph-based analysis of biological networks<br />
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| − | 06-04 : Presentations by students Dorine Merlat, Tuba Uslu, Thimothé Benoit and Antony Seyller <br />
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| − | 07-04 : Article submission to BMC Bioinformatics journal : "IMPatienT: an integrated web application to digitize, process and explore multimodal patient data; C. Meyer et al." <br />
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| − | 08-04 : Meeting of steering committee Open Science Unistra (J. Thompson)<br />
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| − | 12-04 : Article accepted in Nucleic Acids Research : Nevers et al. 'The Quest for Orthologs orthology benchmark service in 2022'<br />
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| − | 12-04 : Journal Club<br />
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| − | 14-04 : Article accepted in BMC Genomics : Boštjančić LL et al.'Host-pathogen coevolution drives innate immune response to Aphanomyces astaci infection in freshwater crayfish: transcriptomic evidence'<br />
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| − | 19-04 : Group meeting B (L-Z)<br />
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| − | 20-04 : Meeting Institut Francais de Bioinformatique, GT Bioinfo Santé (K. Chennen, J. Thompson)<br />
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| − | 21-04 : Article accepted in the conference AIAI2022 : Khodji et al. 'MERLIN: Identifying inaccuracies in Multiple Sequence Alignments using Object Detection'<br />
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| − | 22-04 : Poster presentations at Doctoral School days for Sciences de la Vie et de la Santé (C. Rutz, C. Meyer)<br />
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| − | 25-04 : First meeting of GT RDA (Research Data Alliance) Strasbourg (J. Thompson)<br />
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| − | 25-04 : Presentations by students Quentin Christoffel, Nicolas Haas and Arthur Vogt<br />
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| − | 25/29-04 : Visit of Z. Dvořák & B. Moore (Université Charles de Prague, République tchèque)<br />
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| − | 28-04 : Meeting with Société Urania Therapeutics-CSTB in the context of application for PhD funding CIFRE : "Development of an artificial intelligence algorithm dedicated to trans-reading therapies: Application to rare genetic diseases" (25/04/2022) (N. Haas, K. Chennen, O. Poch) <br />
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| − | 29-04 : First meeting of GT Données EST, RDG (Recherche Data Gouv) : 'Atelier de la donnée' projects (J. Thompson) <br />
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| − | === Mars 2022 === | + | = Doctoral students = |
| − | 01-03 : Meeting for permanent members <br />
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| − | 01-03 : Start of M2 internship by Henri Joel Azemena (Université de Lorraine) supervised by Ali Ayadi<br />
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| − | 01-03 : Start of PhD by Lena Bonassin - supervision : O. Lecompte, co-supervision : K. Theissinger (Francfort)<br />
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| − | 01-03 : Start of PhD by Ljudevit Luka Boštjančić - supervision : K. Theissinger (Francfort), co-supervision : O. Lecompte<br />
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| − | 01-03 : Two theses will start september 2022 co-supervised with Université ASOIU (Baku, Azerbaidjan)<br />
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| − | 02-03 : Project RainRARE, transcriptomic data reception and analysis ((Wojciech Krezel, Kirsley Chennen)<br />
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| − | 08-03 : Group meeting A (A-M)<br />
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| − | 09-03 : Meeting with Urania Therapeutics to discuss the scope of a PhD funding CIFRE (Olivier Poch, Kirsley Chennen, Nicolas Hass, Jean-Paul Renaud)<br />
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| − | 11-03: Communication accepted for RESSI (Rendez-Vous de la Recherche et de l'Enseignement de la Sécurité des Systèmes d'Information) 'Teaching Machine Learning for Cybersecurity', Pierre Parrend<br />
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| − | 14-03 : Meeting to discuss participation of CSTB in the UE Master Omiques, Bioinbfo, données de santé (Olivier Poch, Kirsley Chennen, Agnes Bloch-Zupan)<br />
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| − | 14-03 : Participation of O. Lecompte in the HDR jury of Anaïs Bardet, Université de Strasbourg<br />
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| − | 15-03 : Journal Club<br />
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| − | 16-03 : Meeting NMD (Non-Sens mediated mRNA decay) - Thérapies de Translecture (Olivier Poch, Kirsley Chennen, Nicolas Hass, Jean-Paul Renaud, Fabrice Lejeune)<br />
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| − | 22-03 : Group meeting B (N-Z)<br />
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| − | 23 et 24-03 : Kick-off meeting of ANR PRCI GEODE at LOEWE Centre for Translational Biodiversity Genomics (Francfort) (O. Lecompte, C Rutz, D Merlat)<br />
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| − | 23-03 : Participation of J. Thompson in the HDR jury of Pierre Poulain, Université de Paris Diderot<br />
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| − | 24-03 : Submission of project ANR Correau on the cybersecurity of water networks (Pierre Parrend)<br />
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| − | 28-03 : Meeting with Google Cloud to discuss a possible collaboration on the OrthoInspector project, and use of IA for integration of 3D structure data in the analysis of genetic variants (Olivier Poch, Kirsley Chennen, Arnaud Kress, Julie Thompson, Pierre Collet) <br />
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| − | 29-03 : Meeting for permanent members<br />
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| − | 29-03 : Invitation to CAGI6 meeting (Challenge Critical Assessment of Genome Interpretation VIth version) : results to be announced<br />
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| − | 31-03 : Meeting with Professor Seiamak BAHRAM, PUPH Immunologie biologique, and Vincent Noblet, to discuss a possible collaboration on a project in AI analysis of multi-omics data (Julie Thompson, Olivier Poch, Pierre Collet).
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| − | === Février 2022 === | + | = Internships = |
| − | 01-02 : Meeting for permanent members <br /> | + | 11/03 : Start of internship of Jérémie Carabin, M2 BSIB Supervisors: Kirsley Chennen and Olivier Poch<br /> |
| − | 08-02 : Group meeting (A-M) <br />
| + | 11/03 : Start of internship of Mathilda Moser, M1 BSIB Supervisor: Odile Lecompte<br /> |
| − | 15-02 : Journal Club <br />
| + | 11/03 : Start of internship of Marie Siroux, M1 BSIB Supervisor: Kirsley Chennen<br /> |
| − | 22-02 : Group meeting B (N-Z) <br />
| + | 11/03 : Start of internship of Céline Masson, M1 BSIB Supervisor: Julie Thompson<br /> |
| | + | 01/02 : Start of internship of Adem Boukhari, M2 Intelligence en données de santé, Supervisor: Kirsley Chennen<br /> |
| | + | 01/02 : Start of internship of Hugues Petitjean, ICAM Data Scientist, Supervisor: Kirsley Chennen<br /> |
| | + | 07/01 : Start of internship of Zephyrin Enaux, M2 BSIB. Supervisors: Julie Thompson and Anne Jeannin-Girardon<br /> |
| | + | 07/01 : Start of internship of Laura Billard, M1 Biologie Santé. Supervisor: Kirsley Chennen <br /> |
| | + | <br /> |
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| − | 28-02 : Start of M1 internship by Tuba Uslu (Master Biologie Structurale Intégrative et Bionformatique) supervised by Julie Thompson <br />
| + | = Administrative activities = |
| − | 28-02 : Start of internship by Souliman El Moussaoui (ECAM formation Data Science) supervised by Julie Thompson, Kirlsey Chennen, Nicolas Scalzitti, collaboration Jean Muller, Laboratoire de diagnostic génétique, CHU de Strasbourg <br />
| + | <br /> |
| − | 28-02 : Start of M1 internship by Timothé Benoît (Master Biologie Structurale Intégrative et Bionformatique) supervised by Claudine Mayer <br />
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| − | 28-02 : Start of M1 internship by Anthony Seyller (Master Biologie Structurale Intégrative et Bionformatique) supervised by Claudine Mayer and Kirsley Chennen <br />
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| − | 28-02 : Start of M2 internship by Khayala Gaybaliyeva, M2 Sciences de Données et Intelligence Artificielle, Université Franco-Azerbaidjanaise, supervised by Nathalie Al Makdessi<br />
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| − | 28-02 : Start of M2 internship by Mahir Israyilov, M2 Sciences de Données et Intelligence Artificielle, Université Franco-Azerbaidjanaise, supervised by Ali Ayadi, Anne Jeannin-Girardon and Pierre Collet<br />
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| − | 25-02 : Acceptation of project RARETIA ANR-20-MRB-00XX-03 (ANR/Investissements d'Avenir: Accelerating Research and Innovation on Rare Diseases through Databases)<br />
| + | = Miscellaneous = |
| − | 18-02 : Work meetings with SDC, CSIP, FEMTO-ST, Mob-ion and AAQIUS in the context of project AI-ReFuel ANR 2022 (preparation of a detailed proposal for the transition to phase 2), Ali Ayadi project coordinator.<br />
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| − | 21-02 : Meeting to prepare project Correau, ANR phase 2 (INRAE, Eurométropole, CNAM, ICube)<br />
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| − | 04-02 : End of project MedCTF - medical data management application for cybersecurity challenge, internship of Tayyip Gedik (supervised by Pierre Parrend) <br />
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| − | 16-02 : Submission of a pre-proposal "Development of new analytic tools and pathways to accelerate diagnosis and facilitate diagnostic monitoring of rare diseases" to AP European Joint Programme Rare Diseases, in collaboration with Amélie Piton, IGBMC. <br />
| + | <br /> |
| − | 16-02 : Submission of a pre-proposal "RAinMARK : New tools and predictive markers for better patient care and treatment solutions in MCOPS12" to AP European Joint Programme Rare Diseases, in collaboration with Wojciech KREZEL, IGBMC. <br />
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| − | 09-02 : Submission of a response to Appel à manifestation d’intérêt - Chaire de professeur junior "GROOT: atlas of Gene RepertOire evOluTion", Odile Lecompte <br />
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| − | 02/03-02 : Organisation of meetings <em>Coalition Café</em> (en ligne) by S. Cambie, R. J. Kang, J.-S. Sereni & Y. Yuditski.<br />
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| − | 07/11-02 : Visit of J. Volec (Czech Technical University, République tchèque). <br />
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| − | 10-02 : Presentation by J. Volec at the Stochastic Computing Seminar (IRMA) : <em>Graph limits, common graphs and Sidorenko's conjecture</em>. <br />
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| − | 23-02 : Meeting with Laurence Choulier (faculté de pharmacie) to discuss potential co-supervision of thesis (Quentin Rott), Julie Thompson, Odile Lecompte <br />
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| − | 24-02 : Meeting with Prof. Bourcier and Emilia Koestel, Ophtalmologue, CHU de Strasbourg to discuss potential collaboration as a follow-up of project Myo-XIA, with Corentin Meyer, Julie Thompson, Olivier Poch, Pierre Collet <br />
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| − | === Janvier 2022 === | + | = Team life = |
| − | 03-01 : Start of M2 internship by Dorine Merlat (Master Biologie Structurale Intégrative et Bionformatique) supervised by O. Lecompte <br />
| + | == Team meetings == |
| − | 03-01 : Start of M2 internship by Nicolas Haas (Master Biologie Structurale Intégrative et Bionformatique) supervised by O. Poch and K. Chennen <br />
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| − | 03-01 : Start of M2 internship by Arthur Vogt (Master Biologie Structurale Intégrative et Bionformatique) supervised by C. Mayer <br />
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| − | 03/07-01 : Participation (online) of J.-S. Sereni at the colloque <em>Graph Theory</em> à Oberwolfach (Allemagne) <br />
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| − | 11-1: Start of PhD by Julien Michel on the project Damiage, supervised by Pierre Parrend (programme RAPID, led by EPITA) <br />
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| − | 11-01 : Group meeting A (A-M) <br />
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| − | 11-01 : Annual meeting of French Bioinformatics Institute, to discuss roadmap for 2022-2027 <br />
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| − | 17-01 : Participation of O. Lecompte in the meeting organised by european consortium ERGA (European Reference Genome ATlas)<br />
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| − | 18-01 : (*) Journal Club <br />
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| − | 18/19-01 : Meeting Institut de Myologie Paris; Project: AI and multi-level knowledge base for the diagnosis of congenital myopathies (Corentin Meyer/Olivier Poch/Kirsley Chennen)<br />
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| − | 20-01 : Meeting to prepare project for European Joint Programme RARE DISEASES (Olivier Poch/Kirsley Chennen)<br />
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| − | 21-01 : Meeting with CInflows e-solutions for medical workflows, on the use of AI to determine the size of heart valves and on the anonymization of medical files<br>
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| − | 24-01 : Meeting with Urania Therapeutics, on the creation of a knowledge base dedicated to therapies for genetic diseases with false-sense technology of 'Read-Through' molecules within ribosomes (Olivier Poch/Kirsley Chennen/Nicolas Haas)<br />
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| − | 25-2: Work session 'Anomaly detection in networks' with PhD and post-doc students of 'Réseau' team (Cristel Pelsser) and CSTB (Pierre Parrend)<br />
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| − | 25-01 : Group meeting B (N-Z)<br />
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| − | 27-01 : Presentations by students Lalla Aicha Koné and Yohan Solon<br />
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| − | 31-01 : Meeting to prepare project RDG AMI Atelier de la donnée (Julie Thompson)<br />
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| | | | |
| − | [https://cstb.icube.unistra.fr/index.php/ArchivesActualit%C3%A9s Archive des actualités]
| + | '''(*) Every Tuesday 13h30 to 15h30'''<br /> |
| | + | 1st Tuesday of the month : Reports of members A-M<br /> |
| | + | 2nd Tuesday of the month : Journal Club<br /> |
| | + | 3rd Tuesday of the month : Reports of members M-Z<br /> |
| | + | 4th Tuesday of the month : Meeting for permanent members<br /> |
| | | | |
| | + | Every second Tuesday at 15h00 : Presentations of trainees/students followed by questions (2 to 3 presentations of 12 min for trainees and 1st and 2nd year PhD students, 20 min for 3rd year PhD students).<br /> |
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| − | [[fr:Actualités]] | + | [[fr:Faits_marquants]] |
Team activities in 2024 | Previous years
Scientific highlights
March
25/03: Article "Meyer et al. IMPatienT: an Integrated web application to digitize, process and explore Multimodal PATIENt daTa" accepted for publication in Journal of Neuromuscular Diseases.
21/03: Seminars by PhD students concerning the topic 'détection pour la cybersécurité' with Sherbrooke University (follow up of their visit in February)
21/03: Presentations accepted in RESSI (Rendez-Vous de la Recherche et de l'Enseignement de la Sécurité des Systèmes d'Information; mai) for PhD students of Pierre Parrend: Julien Michel, Majed Jaber, Côme Frappé-Vialatoux
11/03: The project for a Junior Professor Chair 'Atlas comparatif des répertoires de gènes et relations génotype-phénotype' led by Odile Lecompte is accepted.
February
23/02 : Article accepted : C. Frappé--Vialatoux et P. Parrend, Combining Physical and Network Data for Attack Detection in Water Distribution Networks, Water Distribution Systems Analysis (WDSA)/Computing and Control Water Industry (CCWI) Joint Conference, Ferrara, Italy.
20/02 : Project meeting of CILRET-PASS (PIA and ITMO Génétique Génomique et Bioinformatique d'AVIESAN): Work in progress and perspectives.
12/02 : Invited seminar by Prof Lennart Martens, Ghent University. Lennart is head of the CompOmics [1] team and a specialist in the development of tools for proteomics data analysis, including AI approaches.
January
24/01 : PhD thesis defense of Amani Abou-Rida, "Enhancing Detection and Explainability in Cybersecurity: A Shift from Machine Learning to Graph Learning.", supervised by Rabih Amhaz and Pierre Parrend
09/01 : Article “Impact of Decentralized Autonomous Organizations (DAO) on society 5.0” accepted in 8th International Conference on Networks and Communications, Rabih Amhaz
29/01 : Project CZI (Chan Zuckerberg Initiative) Collaborative Pairs Pilot Project Awards: "Moonlighting functions in neurodegenerative aaRSopathies", proposition rejected
05/01 : Article "Pathogenic missense variation in PABPC1L/EPAB causes female infertility due to oocyte maturation arrest at the germinal vesicle stage" Journal of Assisted Reproduction and Genetics (accepted in december) publishe on line (C. Mayer, K. Chennen)
Visitors
Doctoral students
Internships
11/03 : Start of internship of Jérémie Carabin, M2 BSIB Supervisors: Kirsley Chennen and Olivier Poch
11/03 : Start of internship of Mathilda Moser, M1 BSIB Supervisor: Odile Lecompte
11/03 : Start of internship of Marie Siroux, M1 BSIB Supervisor: Kirsley Chennen
11/03 : Start of internship of Céline Masson, M1 BSIB Supervisor: Julie Thompson
01/02 : Start of internship of Adem Boukhari, M2 Intelligence en données de santé, Supervisor: Kirsley Chennen
01/02 : Start of internship of Hugues Petitjean, ICAM Data Scientist, Supervisor: Kirsley Chennen
07/01 : Start of internship of Zephyrin Enaux, M2 BSIB. Supervisors: Julie Thompson and Anne Jeannin-Girardon
07/01 : Start of internship of Laura Billard, M1 Biologie Santé. Supervisor: Kirsley Chennen
Administrative activities
Miscellaneous
Team life
Team meetings
(*) Every Tuesday 13h30 to 15h30
1st Tuesday of the month : Reports of members A-M
2nd Tuesday of the month : Journal Club
3rd Tuesday of the month : Reports of members M-Z
4th Tuesday of the month : Meeting for permanent members
Every second Tuesday at 15h00 : Presentations of trainees/students followed by questions (2 to 3 presentations of 12 min for trainees and 1st and 2nd year PhD students, 20 min for 3rd year PhD students).
