Training List
Handles creating, reading and updating training events.
GET /api/training/?format=api&offset=20&ordering=keywords
{ "count": 378, "next": "https://catalogue.france-bioinformatique.fr/api/training/?format=api&limit=20&offset=40&ordering=keywords", "previous": "https://catalogue.france-bioinformatique.fr/api/training/?format=api&limit=20&ordering=keywords", "results": [ { "id": 58, "name": "Analysis of NGS data with R", "shortName": "", "description": "https://cnrsformation.cnrs.fr/stage-19025-Analyses-NGS-avec-R.html?axe=98\n", "homepage": "https://cnrsformation.cnrs.fr/pdf/16147.pdf", "is_draft": false, "costs": [], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Statistical Tests", "R Language", "Variant analysis", "Knowledge mining", "Statistical Genetics", "Transcriptomics (RNA-seq)", "Genomics (DNA-seq)" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "CNRS fee-based training\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/258/?format=api" ] }, { "id": 41, "name": "RNASeq data analysis", "shortName": "", "description": "\nObjectives :\n Understand the main steps in analyzing RNAseq data for a differential gene expression study\n How to perform a command line analysis with Snakemake\nAlternating between theoretical and practical parts.\nPrerequisite: knowledge of command line usage or having followed the \"Introduction to the command line\" training course.\n\n", "homepage": "http://www.pf-bird.univ-nantes.fr/training/", "is_draft": false, "costs": [ "Priced" ], "topics": [], "keywords": [ "Autre", "Gene expression differential analysis", "Galaxy", "Transcriptomics (RNA-seq)" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "This training is open to all (public and private) with no institution restrictions and is accessible through the University of Nantes continuing education programme.\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 382, "name": "Introduction à l'analyse de données transcriptomiques avec Galaxy", "shortName": "", "description": "L’objectif est de se familiariser avec les étapes d’analyses des données transcriptomiques ou RNA-seq avec référence pour extraire les gènes et fonctions différentiellement exprimés. Nous proposons au personnel non-bioinformaticien de les accompagner dans la prise en main de ces étapes d’analyses en utilisant la plateforme de bio-analyse Galaxy. \r\n\r\n\r\nAprès une introduction à la transcriptomique, une session pratique sur la plateforme Galaxy couvrira comment :\r\n- évaluer la qualité des données transcriptomiques,\r\n- aligner des données transcriptomiques sur un génome de référence,\r\n- estimer le nombre de séquences par gènes,\r\n- construire et faire une analyse d’expression différentielle des gènes\r\n- faire une analyse de l’enrichissement fonctionnel des gènes différentiellement exprimés", "homepage": "", "is_draft": false, "costs": [ "Free to academics" ], "topics": [ "http://edamontology.org/topic_3308", "http://edamontology.org/topic_1775", "http://edamontology.org/topic_0203", "http://edamontology.org/topic_3170" ], "keywords": [ "Galaxy", "RNA-seq", "Transcriptomics (RNA-seq)" ], "prerequisites": [ "Galaxy - Basic usage" ], "openTo": "Internal personnel", "accessConditions": "Formation ouverte au personnel de l’UCA & Associés\r\nAvoir un ordinateur portable et un accès wifi eduroam\r\nAvoir un compte sur la plateforme Galaxy (Faire une demande le cas échéant sur hub.mesocentre.uca.fr)\r\nÊtre familier avec Galaxy", "maxParticipants": null, "contacts": [ "https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=api", "https://catalogue.france-bioinformatique.fr/api/userprofile/807/?format=api" ], "elixirPlatforms": [], "communities": [], "sponsoredBy": [ { "id": 1, "name": "CNRS - IFB", "url": "https://catalogue.france-bioinformatique.fr/api/eventsponsor/CNRS%20-%20IFB/?format=api" }, { "id": 16, "name": "Université Clermont Auvergne", "url": "https://catalogue.france-bioinformatique.fr/api/eventsponsor/Universit%C3%A9%20Clermont%20Auvergne/?format=api" } ], "organisedByOrganisations": [ { "id": 96, "name": "Mésocentre Clermont-Auvergne", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/M%C3%A9socentre%20Clermont-Auvergne/?format=api" }, { "id": 87, "name": "AuBi", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/AuBi/?format=api" } ], "organisedByTeams": [ { "id": 31, "name": "AuBi", "url": "https://catalogue.france-bioinformatique.fr/api/team/AuBi/?format=api" } ], "logo_url": "https://mesocentre.uca.fr/medias/photo/logoaubi-2019minus_1553844844490-jpg?ID_FICHE=41175", "updated_at": "2024-06-06T08:06:54.982689Z", "audienceTypes": [ "Undergraduate", "Graduate", "Professional (initial)", "Professional (continued)" ], "audienceRoles": [ "Researchers", "Life scientists", "Biologists" ], "difficultyLevel": "Novice", "trainingMaterials": [ { "id": 144, "name": "Reference-based RNA-Seq data analysis with Galaxy", "url": "https://catalogue.france-bioinformatique.fr/api/trainingmaterial/Reference-based%20RNA-Seq%20data%20analysis%20with%20Galaxy/?format=api" }, { "id": 145, "name": "Introduction to Transcriptomics", "url": "https://catalogue.france-bioinformatique.fr/api/trainingmaterial/Introduction%20to%20Transcriptomics/?format=api" } ], "learningOutcomes": "At the end of the tutorial, learners would be able to:\r\n- Check a sequence quality report generated by FastQC for RNA-Seq data\r\n- Explain the principle and specificity of mapping of RNA-Seq data to an eukaryotic reference genome\r\n- Select and run a state of the art mapping tool for RNA-Seq data\r\n- Evaluate the quality of mapping results\r\n- Describe the process to estimate the library strandness\r\n- Estimate the number of reads per genes\r\n- Explain the count normalization to perform before sample comparison\r\n- Construct and run a differential gene expression analysis\r\n- Analyze the DESeq2 output to identify, annotate and visualize differentially expressed genes\r\n- Perform a gene ontology enrichment analysis\r\n- Perform and visualize an enrichment analysis for KEGG pathways", "hoursPresentations": 1, "hoursHandsOn": 7, "hoursTotal": 8, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/637/?format=api" ] }, { "id": 73, "name": "Galaxy : RNASeq alignment and transcripts assemblies", "shortName": "", "description": "As the command line training but with Galaxy. Organized jointly by the Sigenae and the Bioinfo Genotoul platforms.\n", "homepage": "http://bioinfo.genotoul.fr/index.php/events/rnaseq-alignment-and-transcripts-ass…", "is_draft": false, "costs": [], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Gene expression differential analysis", "Galaxy", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "You need to register (via the website) and pay 165 euros a day for academic and 550 euros a day for a private\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 59, "name": "Advanced sequence analysis", "shortName": "", "description": "https://cnrsformation.cnrs.fr/stage-19019-Analyse-avancee-de-sequences.h...\n", "homepage": "https://cnrsformation.cnrs.fr/pdf/16148.pdf", "is_draft": false, "costs": [ "Priced" ], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Sequence Algorithm", "Bioinformatics & Biomedical", "Galaxy", "Variant analysis", "Transcriptomics (RNA-seq)", "Genomics (DNA-seq)", "Sequence annotation", "Pattern matching", "Multiple sequence alignment" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "CNRS fee-based training\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/259/?format=api" ] }, { "id": 2, "name": "Ateliers NGS, Master BIBS U-Psud", "shortName": "", "description": "NA\n", "homepage": "http://www.bibs.u-psud.fr/m2_ami2b.php", "is_draft": false, "costs": [], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Linux", "Sequence Algorithm", "Gene expression differential analysis", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [ "Master" ], "openTo": "Internal personnel", "accessConditions": "BIBS\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 80, "name": "Bioinformatique pour le traitement de données de séquençage (NGS)", "shortName": "", "description": "\nLes objectifs sont :\n- Savoir choisir les outils d'analyse\n- Etre autonome pour effectuer un pipeline d'analyse\n- Comprendre les principes des méthodes d'analyse\n- Savoir manipuler les fichiers de séquences : préparation et filtration\n- Etre capable d'évaluer la qualité des données\n- Savoir analyser avec ou sans génome de référence\nhttps://cnrsformation.cnrs.fr/\n\n", "homepage": "http://cnrsformation.cnrs.fr/stage-17010-Bioinformatique-pour-le-traitement-de-d…", "is_draft": false, "costs": [], "topics": [], "keywords": [ "Methodology", "NGS Data Analysis", "Analysis of RNAseq data", "Assembly of genomes and transcriptomes", "Read alignment on genomes", "Variant analysis", "Complete genomes", "Transcriptomics (RNA-seq)", "Genomics (DNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "S'acquitter des frais d'inscription, notions de base en informatique : fichiers, répertoire..., notions du système linux et des lignes de commandes, niveau master\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/264/?format=api" ] }, { "id": 47, "name": "Analyse de données RNA-seq sous l’environnement Galaxy ", "shortName": "", "description": "\n\nObjectifs de la formation\nAcquérir les connaissances générales sur les méthodes de séquençage à haut-débit.\nConnaître les caractéristiques des données obtenues dans le cadre de l’analyse du transcriptome (RNA-seq).\nSavoir planifier une expérience simple de type RNA-seq en fonction de ses objectifs scientifiques et des caractéristiques et contraintes expérimentales.\nConnaître les principales méthodes et outils d’analyse des données RNA-seq . Pouvoir les mettre en oeuvre dans un cas simple via un serveur web Galaxy.\nPouvoir visualiser les résultats dans un navigateur de génome.\nDurée de la formation : 2,5 jours\n\n\n", "homepage": "http://www.biosciencesco.fr/formation-continue/bio-informatique/analyse-des-donn…", "is_draft": false, "costs": [], "topics": [], "keywords": [ "Methodology", "Biostatistics", "NGS Data Analysis", "Analysis of RNAseq data", "Assembly of genomes and transcriptomes", "Read alignment on genomes", "Statistical Tests", "Gene expression differential analysis", "Galaxy", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "Informations et inscriptions:\nhttp://www.biosciencesco.fr/formation-continue/bio-informatique/analyse-...\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/257/?format=api" ] }, { "id": 16, "name": "Formations à la plate-forme Microscope", "shortName": "", "description": "The LABGeM team at Genoscope regularly organizes training courses dedicated to the analysis of bacterial genomes via the use of the MicroScope platform at the University of Évry.\n \nThe course \"Annotation and analysis of prokaryotic genomes using the MicroScope platform\" lasting 4.5 days is aimed at:\nacquiring theoretical and practical knowledge of genome annotation tools (structural and functional annotation, metabolic networks annotation)\nknowing how to interpret the results of functional annotation tools\nknowing how to carry out various comparative analyzes: analyzes of conserved syntenia, pan-genomes, phylogenetic and metabolic profiles\nlearning to interpret the results of metabolic network prediction tools and search for candidate genes for enzymatic activities\napplying those tools to the analysis of genomes of interest to the participants \nEach session is made up of half theory and half practical work. During the training, participants have the opportunity to work on their own data during practical work.\n \nThis training is aimed at doctoral students, engineers, researchers, experienced biological or medical laboratory technicians. It concerns both people who already have an annotation project on the MicroScope platform and wishing to deepen its use, as well as those wishing to learn microbial genomics.\n \n \nIn addition, if you are a user of the MicroScope platform and you have already followed the training \"Annotation and analysis of prokaryotic genomes using the MicroScope platform\" a few years ago we have implemented a new training , the \"MicroScope Platform - Advanced Course\" training in order to update your knowledge on the latest evolutions of the platform and to deepen some of its major functionalities.\n \nThis training, lasting 2 days, will consolidate your use of the platform but also go further:\nPresentation of the evolutions of the MicroScope platform\nPresentation of the new flagship features of the MicroScope platform\nPresentation of tools for RNA-seq analyzes\nDeepening of the functionalities allowing the exploration of the bacterial metabolism\n", "homepage": "https://labgem.genoscope.cns.fr/professional-trainings/microscope-professional-t…", "is_draft": false, "costs": [], "topics": [], "keywords": [ "Methodology", "Metagenomics", "Metabolic Network Modelling", "Read alignment on genomes", "Gene expression differential analysis", "Web portals", "Variant analysis", "Interfaces", "Systems Biology", "Interoperability", "Metabolomics and Fluxomics", "Metabolic network analysis", "Genome analysis", "Structural and functional annotation of genomes", "Complete genomes", "Transcriptomics (RNA-seq)", "Genomics (DNA-seq)", "Functional and regulatory pathways comparison", "Genomes comparison", "Data collection curation", "Comparative genomics", "Data Integration", "Data management and transfer", "NGS Sequencing Data Analysis", "Toolkit", "Tool integration", "Databases and information systems", "Développements technologiques de l‘Information et de la Communication" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "For more information and registration : https://labgem.genoscope.cns.fr/professional-trainings/microscope-professional-trainings/.\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 2, "name": "Ateliers NGS, Master BIBS U-Psud", "shortName": "", "description": "NA\n", "homepage": "http://www.bibs.u-psud.fr/m2_ami2b.php", "is_draft": false, "costs": [], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Linux", "Sequence Algorithm", "Gene expression differential analysis", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [ "Master" ], "openTo": "Internal personnel", "accessConditions": "BIBS\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 73, "name": "Galaxy : RNASeq alignment and transcripts assemblies", "shortName": "", "description": "As the command line training but with Galaxy. Organized jointly by the Sigenae and the Bioinfo Genotoul platforms.\n", "homepage": "http://bioinfo.genotoul.fr/index.php/events/rnaseq-alignment-and-transcripts-ass…", "is_draft": false, "costs": [], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Gene expression differential analysis", "Galaxy", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "You need to register (via the website) and pay 165 euros a day for academic and 550 euros a day for a private\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 358, "name": "Traitement bioinformatique et analyse différentielle de données d’expression RNA-seq sous Galaxy", "shortName": "Analyse données RNA-seq sous Galaxy", "description": "Objectifs pédagogiques\r\nA l’issue de cette formation, vous serez capable, dans le cadre d’une analyse de données RNA- seq avec génome de référence et plan d’expérience simple :\r\n* de connaître le vocabulaire et les concepts bioinformatiques et biostatistiques ;\r\n* de savoir enchaîner de façon pertinente un ensemble d’outils bioinformatiques et biostatistiques dans l’environnement Galaxy ;\r\n* de comprendre le matériel et méthodes d’un article du domaine ;\r\n* d’évaluer la pertinence d’une analyse RNA-seq en identifiant les éléments clefs et comprendre les particularités liées à la nature des données.\r\n\r\nProgramme\r\nBioinformatique :\r\n* Obtenir des données de qualité : nettoyage, filtrage, qualité\r\n* Aligner les lectures sur un génome de référence\r\n* Détecter de nouveaux transcrits\r\n* Quantifier l’expression des gènes\r\n* Préparer et déployer unensemble d’analyses sur plusieurs échantillons\r\n\r\nBiostatistique :\r\n* Construire un plan d’expérience simple\r\n* Normaliser les données de comptage\r\n* Identifier les gènes différentiellements exprimés\r\n* Se sensibiliser aux tests multiples\r\n\r\nAnalyse de protocoles Bioinformatique et Biostatistiques issus de la littérature", "homepage": "https://documents.migale.inrae.fr/trainings.html", "is_draft": false, "costs": [ "Priced" ], "topics": [ "http://edamontology.org/topic_3308", "http://edamontology.org/topic_0203", "http://edamontology.org/topic_0102", "http://edamontology.org/topic_3170" ], "keywords": [ "Gene expression differential analysis", "RNA-seq", "Transcriptomics" ], "prerequisites": [ "Galaxy - Basic usage" ], "openTo": "Everyone", "accessConditions": "", "maxParticipants": 10, "contacts": [ "https://catalogue.france-bioinformatique.fr/api/userprofile/769/?format=api" ], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [ { "id": 88, "name": "BioinfOmics", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/BioinfOmics/?format=api" }, { "id": 82, "name": "INRAE", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/INRAE/?format=api" } ], "organisedByTeams": [ { "id": 10, "name": "MIGALE", "url": "https://catalogue.france-bioinformatique.fr/api/team/MIGALE/?format=api" } ], "logo_url": "https://migale.inrae.fr/sites/default/files/migale-orange_0.png", "updated_at": "2025-01-23T15:20:05.977558Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "Novice", "trainingMaterials": [], "learningOutcomes": "A l’issue de cette formation, vous serez capable, dans le cadre d’une analyse de données RNA- seq avec génome de référence et plan d’expérience simple :\r\n\r\n* de connaître le vocabulaire et les concepts bioinformatiques et biostatistiques ;\r\n* de savoir enchaîner de façon pertinente un ensemble d’outils bioinformatiques et biostatistiques dans l’environnement Galaxy ;\r\n* de comprendre le matériel et méthodes d’un article du domaine ;\r\n* d’évaluer la pertinence d’une analyse RNA-seq en identifiant les éléments clefs et comprendre les particularités liées à la nature des données.", "hoursPresentations": 6, "hoursHandsOn": 12, "hoursTotal": 18, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/583/?format=api", "https://catalogue.france-bioinformatique.fr/api/event/690/?format=api" ] }, { "id": 41, "name": "RNASeq data analysis", "shortName": "", "description": "\nObjectives :\n Understand the main steps in analyzing RNAseq data for a differential gene expression study\n How to perform a command line analysis with Snakemake\nAlternating between theoretical and practical parts.\nPrerequisite: knowledge of command line usage or having followed the \"Introduction to the command line\" training course.\n\n", "homepage": "http://www.pf-bird.univ-nantes.fr/training/", "is_draft": false, "costs": [ "Priced" ], "topics": [], "keywords": [ "Autre", "Gene expression differential analysis", "Galaxy", "Transcriptomics (RNA-seq)" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "This training is open to all (public and private) with no institution restrictions and is accessible through the University of Nantes continuing education programme.\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 148, "name": "Cycle « Analyse de données de séquençage à haut-débit » - Module 3/5 : Analyses RNA-seq - partie 1 (bioinformatique)", "shortName": "", "description": "Bilille propose chaque année un cycle de formation d'introduction à l'analyse des données de séquençage à haut débit.\r\nCe cycle est composé de 5 modules, à la carte : \r\n- Module 1: Analyses ADN\r\n- Module 2: Analyses de variants\r\n- Module 3: Analyses RNA-seq, bioinformatique\r\n- Module 4: Analyses RNA-seq, biostatistique\r\n- Module 5: Métagénomique\r\nLes fiches descriptives sont accessibles sur le site de Bilille. Chaque module comprend des présentations générales et des séances pratiques sur ordinateur, avec Galaxy.\r\nLes objectifs du module 3 sont :\r\n- Savoir réaliser une analyse transcriptomique par RNA-seq avec ou sans (de novo) génome de référence à l’aide du portail Galaxy\r\n- Avoir un regard critique sur la qualité des lectures obtenues par le séquenceur\r\n- Connaître et savoir paramétrer les outils nécessaires à l’analyse", "homepage": "https://bilille.univ-lille.fr/training/training-offer", "is_draft": false, "costs": [], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Gene expression differential analysis", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "Etre familier avec la plate-forme web Galaxy (idéalement avoir suivi la formation bilille « Initiation à Galaxy »)\r\nAvoir suivi le module 1/5 « Analyses ADN » de ce cycle ou toute autre formation permettant de justifier de connaissances sur les données de séquençage haut débit et leur alignement.", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [ { "id": 66, "name": "University of Lille", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/University%20of%20Lille/?format=api" }, { "id": 56, "name": "INSERM", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/INSERM/?format=api" }, { "id": 52, "name": "CNRS", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/CNRS/?format=api" } ], "organisedByTeams": [ { "id": 3, "name": "Bilille", "url": "https://catalogue.france-bioinformatique.fr/api/team/Bilille/?format=api" } ], "logo_url": "https://bilille.univ-lille.fr/fileadmin/_processed_/9/2/csm_logo_bilille_complet_65be9bda8b.png", "updated_at": "2024-12-09T17:43:04.940425Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/277/?format=api" ] }, { "id": 2, "name": "Ateliers NGS, Master BIBS U-Psud", "shortName": "", "description": "NA\n", "homepage": "http://www.bibs.u-psud.fr/m2_ami2b.php", "is_draft": false, "costs": [], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Linux", "Sequence Algorithm", "Gene expression differential analysis", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [ "Master" ], "openTo": "Internal personnel", "accessConditions": "BIBS\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 67, "name": "RNAseq de novo assembly", "shortName": "", "description": "This training session has been designed to give you an overview of the methods and tools used to de novo assemble transcriptomic short reads. You will learn how to pre-process your raw data (fastq files), how an assembler works and how to use it. Finally you will learn how to assess the quality of your assemblies in order to choose the best one. Organized jointly by the Sigenae and bioinfo genotoul platforms.\n", "homepage": "http://bioinfo.genotoul.fr/index.php/events/rnaseq-de-novo-assembly-2/", "is_draft": false, "costs": [ "Priced" ], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "Sequence annotation" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "You need to register (via the website) and pay 165 euros a day for academic and 550 euros a day for a private.\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 73, "name": "Galaxy : RNASeq alignment and transcripts assemblies", "shortName": "", "description": "As the command line training but with Galaxy. Organized jointly by the Sigenae and the Bioinfo Genotoul platforms.\n", "homepage": "http://bioinfo.genotoul.fr/index.php/events/rnaseq-alignment-and-transcripts-ass…", "is_draft": false, "costs": [], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Gene expression differential analysis", "Galaxy", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "You need to register (via the website) and pay 165 euros a day for academic and 550 euros a day for a private\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 47, "name": "Analyse de données RNA-seq sous l’environnement Galaxy ", "shortName": "", "description": "\n\nObjectifs de la formation\nAcquérir les connaissances générales sur les méthodes de séquençage à haut-débit.\nConnaître les caractéristiques des données obtenues dans le cadre de l’analyse du transcriptome (RNA-seq).\nSavoir planifier une expérience simple de type RNA-seq en fonction de ses objectifs scientifiques et des caractéristiques et contraintes expérimentales.\nConnaître les principales méthodes et outils d’analyse des données RNA-seq . Pouvoir les mettre en oeuvre dans un cas simple via un serveur web Galaxy.\nPouvoir visualiser les résultats dans un navigateur de génome.\nDurée de la formation : 2,5 jours\n\n\n", "homepage": "http://www.biosciencesco.fr/formation-continue/bio-informatique/analyse-des-donn…", "is_draft": false, "costs": [], "topics": [], "keywords": [ "Methodology", "Biostatistics", "NGS Data Analysis", "Analysis of RNAseq data", "Assembly of genomes and transcriptomes", "Read alignment on genomes", "Statistical Tests", "Gene expression differential analysis", "Galaxy", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "Informations et inscriptions:\nhttp://www.biosciencesco.fr/formation-continue/bio-informatique/analyse-...\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/257/?format=api" ] }, { "id": 148, "name": "Cycle « Analyse de données de séquençage à haut-débit » - Module 3/5 : Analyses RNA-seq - partie 1 (bioinformatique)", "shortName": "", "description": "Bilille propose chaque année un cycle de formation d'introduction à l'analyse des données de séquençage à haut débit.\r\nCe cycle est composé de 5 modules, à la carte : \r\n- Module 1: Analyses ADN\r\n- Module 2: Analyses de variants\r\n- Module 3: Analyses RNA-seq, bioinformatique\r\n- Module 4: Analyses RNA-seq, biostatistique\r\n- Module 5: Métagénomique\r\nLes fiches descriptives sont accessibles sur le site de Bilille. Chaque module comprend des présentations générales et des séances pratiques sur ordinateur, avec Galaxy.\r\nLes objectifs du module 3 sont :\r\n- Savoir réaliser une analyse transcriptomique par RNA-seq avec ou sans (de novo) génome de référence à l’aide du portail Galaxy\r\n- Avoir un regard critique sur la qualité des lectures obtenues par le séquenceur\r\n- Connaître et savoir paramétrer les outils nécessaires à l’analyse", "homepage": "https://bilille.univ-lille.fr/training/training-offer", "is_draft": false, "costs": [], "topics": [], "keywords": [ "NGS Data Analysis", "Analysis of RNAseq data", "Gene expression differential analysis", "Transcript and transcript variant analysis", "Transcriptomics (RNA-seq)", "NGS Sequencing Data Analysis" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "Etre familier avec la plate-forme web Galaxy (idéalement avoir suivi la formation bilille « Initiation à Galaxy »)\r\nAvoir suivi le module 1/5 « Analyses ADN » de ce cycle ou toute autre formation permettant de justifier de connaissances sur les données de séquençage haut débit et leur alignement.", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [ { "id": 66, "name": "University of Lille", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/University%20of%20Lille/?format=api" }, { "id": 56, "name": "INSERM", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/INSERM/?format=api" }, { "id": 52, "name": "CNRS", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/CNRS/?format=api" } ], "organisedByTeams": [ { "id": 3, "name": "Bilille", "url": "https://catalogue.france-bioinformatique.fr/api/team/Bilille/?format=api" } ], "logo_url": "https://bilille.univ-lille.fr/fileadmin/_processed_/9/2/csm_logo_bilille_complet_65be9bda8b.png", "updated_at": "2024-12-09T17:43:04.940425Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/277/?format=api" ] }, { "id": 74, "name": "Galaxy : sRNAseq", "shortName": "", "description": "As the command line training but with Galaxy. Organized jointly by the Sigenae and Bioinfo Genotoul platforms.\n", "homepage": "http://bioinfo.genotoul.fr/index.php/events/srnaseq/", "is_draft": false, "costs": [], "topics": [], "keywords": [ "NGS Data Analysis", "Small and long non-coding RNAs", "Analysis of RNAseq data", "Galaxy" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "You need to register (via the website) and pay 165 euros a day for academic and 550 euros a day for a private\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] } ] }
