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  • Nuclear structure and dynamics

    28 September - 2 October 2011

    LIsle sur la Sorgue, France

    Nuclear structure and dynamics https://tess.elixir-europe.org/events/nuclear-structure-and-dynamics 2011-09-28 09:00:00 UTC 2011-10-02 00:00:00 UTC EMBO Domaine de Mousquety, LIsle sur la Sorgue, France Domaine de Mousquety LIsle sur la Sorgue France Genomics [] [] [] meetings_and_conferences [] SystemsBiologyTranscriptomics
  • Quality Control – From Molecules to Organelles

    19 September - 22 October 2012

    Heidelberg, Germany

    Quality Control – From Molecules to Organelles https://tess.elixir-europe.org/events/quality-control-from-molecules-to-organelles 2012-09-19 00:00:00 UTC 2012-10-22 00:00:00 UTC EMBL Heidelberg European Molecular Biology Laboratory, Heidelberg, Germany European Molecular Biology Laboratory Heidelberg Germany Proteomics Genomics [] [] [] meetings_and_conferences [] Transcriptomics
  • The Complex Life of mRNA

    8 - 11 October 2012

    Heidelberg, Germany

    The Complex Life of mRNA https://tess.elixir-europe.org/events/the-complex-life-of-mrna-9b8c002c-8adf-488c-bec3-d5470bcb09cc 2012-10-08 00:00:00 UTC 2012-10-11 00:00:00 UTC EMBL Heidelberg European Molecular Biology Laboratory, Heidelberg, Germany European Molecular Biology Laboratory Heidelberg Germany Genomics [] [] [] meetings_and_conferences [] Transcriptomics
  • Cybertaxonomy and biodiversity information with special emphasis on geospatial related data (Novice or Advanced Training)

    1 December 2012

    Tervuren, Belgium

    Cybertaxonomy and biodiversity information with special emphasis on geospatial related data (Novice or Advanced Training) https://tess.elixir-europe.org/events/cybertaxonomy-and-biodiversity-information-with-special-emphasis-on-geospatial-related-data-novice-or-advanced-training 2012-12-01 00:00:00 UTC 2012-12-01 00:00:00 UTC Distributed European School of Taxonomy Royal Museum for Central Africa, Tervuren, Belgium Royal Museum for Central Africa Tervuren Belgium Bioinformatics [] [] [] workshops_and_courses [] TranscriptomicsBiodiversityInformation
  • The Complex Life of mRNA

    5 - 8 October 2014

    Heidelberg, Germany

    The Complex Life of mRNA https://tess.elixir-europe.org/events/the-complex-life-of-mrna 2014-10-05 01:00:00 UTC 2014-10-08 01:00:00 UTC EMBO/EMBL European Molecular Biology Laboratory, Heidelberg, Germany European Molecular Biology Laboratory Heidelberg Germany Genomics [] [] [] meetings_and_conferences [] Transcriptomics
  • Revolutionizing Next-Generation Sequencing (2nd edition)

    20 - 21 March 2017

    Antwerpen, Belgium

    Elixir node event
    Revolutionizing Next-Generation Sequencing (2nd edition) https://tess.elixir-europe.org/events/revolutionizing-next-generation-sequencing-2nd-edition Revolutionizing Next-Generation Sequencing (2nd edition) A VIB Tools & Technologies Conference Enabled by better cost-performance curves and novel technology developments, Next-Generation Sequencing technologies keep on pushing the boundaries of our scientific knowledge. The NGS-field is still expanding and to take advantage of new opportunities offered by these technologies in life sciences, VIB Conferences will host the second edition of Revolutionizing Next-Generation Sequencing: Tools and Technologies. After a sold-out 2015 edition, RNGS17 will look at emerging tools and approaches for: Large-scale Sequencing Applications for Current and Emerging Next-Generation Sequencing Platforms Single-Cell Genomics Epigenetics Next-gen Transcriptomics technologies Ultra-long reads and Assembly Computational genomics and data analysis In addition to a great scientific and technology program, the conference will provide ample opportunities to network during the breaks, poster sessions, the conference dinner and our ‘Meet the Expert’ session! You can find more info about the sold out first edition in our event archive. 2017-03-20 08:45:00 UTC 2017-03-21 17:45:00 UTC VIB Conferences Koningin Astridplein 20, 20, Koningin Astridplein, Antwerpen, Belgium Koningin Astridplein 20, 20, Koningin Astridplein Antwerpen Anwerpen Belgium 2018 Epigenomics VIB www.vibconferences.be conferences@vib.be Bluebee Covaris Perkin Elmer SeqLL BD Bioké Diagenode Labcyte Multiplicom Takara Westburg To see all our sponsors please visit www.vibconferences.be PhD'sAcademicsPost-DocsIndustry meetings_and_conferences first_come_first_served Structural genomicsPreclinical and clinical studiesclinical sequencingPopulation geneticsSingle Cell GenomicsDNA-seqSequencingApplied NGSEpigenomicsGenome structureGenome MappingTranscriptomicsData Analysis
  • Bioinformatics for Molecular Biologists (4-day course)

    29 May - 2 June 2017

    Alcobendas, Spain

    Bioinformatics for Molecular Biologists (4-day course) https://tess.elixir-europe.org/events/bioinformatics-for-molecular-biologists-4-day-course-56d73c61-6703-4c8f-b7c7-91a8ec441a91 Over 4 days you will explore the open source world associated to bioinformatics with our experts. You will be introduced with various topics, from the basics of Linux, to widely used programming languages such as Perl™ and Python™ and the world’s most popular open source database MySQL™. A well balanced combination of lectures and practical sessions will reinforce new learning progressively building momentum towards a practical project where the newly acquired knowledge will be applied. New powerful options will be introduced to give you more confidence when handling large datasets. Ultimately, you will discover what’s beyond rigid user interfaces and apply your learning with real data. • Manage your own database (create your knowledge base). Free yourself from spreadsheets! • Personalise your analysis beyond options. Available in Torrent Browser or Ion Reporter™ software •Parse your VCF (extract information from flat files). Compare different samples and find the most common variants 2017-05-29 13:04:00 UTC 2017-06-02 13:04:00 UTC Thermo Fisher Scientific Avenida de la Vega, 1, Alcobendas, Spain Avenida de la Vega, 1 Alcobendas Madrid Spain 28108 [] learn-europe@thermofisher.com [] [] 6 [] first_come_first_served bioinformaticsPython for Biologistslinuxperl
  • Genome Annotation with Monica Munoz-Torres

    27 June 2017

    University of Melbourne, Australia

    Genome Annotation with Monica Munoz-Torres https://tess.elixir-europe.org/events/genome-annotation-with-monica-munoz-torres 2017-06-27 09:00:00 UTC 2017-06-27 17:00:00 UTC Melbourne Bioinformatics 161 Barry St, Carlton, University of Melbourne, Australia 161 Barry St, Carlton University of Melbourne Australia Bioinformatics Genomics Data submission, annotation and curation Melbourne Bioinformatics [] [] [] [] BioinformaticsGenomics
  • Introduction to NGS Data Analysis

    27 - 29 June 2017

    Camperdown, Australia

    Introduction to NGS Data Analysis https://tess.elixir-europe.org/events/introduction-to-ngs-data-analysis-8290433d-ac97-4f5c-99ed-8a9bec24a058 Introduction to NGS Data Analysis is a three-day, hands-on workshop that offers attendees a basic understanding of NGS data analysis workflows. The workshop provides hands-on computational experience in analysis of NGS data using common analytical approaches for ChIP-Seq, RNA-Seq data and de novo genome assembly. 2017-06-27 09:00:00 UTC 2017-06-29 17:00:00 UTC Bioplatforms Australia Johns Hopkins Centre, Camperdown, Australia Johns Hopkins Centre Camperdown Australia 2006 Bioinformatics University of Sydney kchamp@bioplatforms.com [] [] workshops_and_courses [] Genomics
  • GATK Best Practices for Variant Discovery

    17 - 19 July 2017

    Edinburgh, United Kingdom

    Elixir node event
    GATK Best Practices for Variant Discovery https://tess.elixir-europe.org/events/gatk-best-practices-for-variant-discovery This workshop will focus on the core steps involved in calling variants with the Broad’s Genome Analysis Toolkit, using the Best Practices developed by the GATK team. You will learn why each step is essential to the variant discovery process, what are the operations performed on the data at each step, and how to use the GATK tools to get the most accurate and reliable results out of your dataset. In the course of this workshop, we highlight key functionalities such as the GVCF workflow for joint variant discovery in cohorts, RNAseq-specific processing, and somatic variant discovery using MuTect2. We also preview capabilities of the upcoming GATK version 4, including a new workflow for CNV discovery, and we demonstrate the use of pipelining tools to assemble and execute GATK workflows. 2017-07-17 09:00:00 UTC 2017-07-19 17:00:00 UTC The King's Buildings, The University of Edinburgh, Edinburgh, United Kingdom The King's Buildings, The University of Edinburgh Edinburgh United Kingdom Bioinformatics Genomics Edinburgh Genomics Bert Overduin - bert.overduin@ed.ac.uk [] [] workshops_and_courses [] Variant discoveryGenomicsBioinformatics
  • Long-read Data Analysis workshop

    18 - 19 July 2017

    Kensington, Australia

    Long-read Data Analysis workshop https://tess.elixir-europe.org/events/long-read-data-analysis-workshop Workshop Content: Introduction to long-read sequencing Practical considerations when performing long-read sequencing and analysis Introduction to the command line interface and NGS file formats Short and long-read de novo genome assembly (microbial) Comparison between short and long-read assemblies This workshop will be delivered using a mixture of lectures, hands-on practical sessions, and open discussions. 2017-07-18 09:00:00 UTC 2017-07-19 17:00:00 UTC Bioplatforms Australia Red Centre Building, Kensington, Australia Red Centre Building Kensington Australia 2033 Bioinformatics University of New South Wales [] [] workshops_and_courses [] Genomics
  • Cancer Genomics workshop

    25 - 27 July 2017

    University of Sydney, Australia

    Cancer Genomics workshop https://tess.elixir-europe.org/events/cancer-genomics-workshop-4a98d5cd-8e5d-42d0-9845-3a52e9fee96d The Cancer Genomics workshop aims to provide an introduction to cancer genomics analytical pipelines for single nucleotide variations (SNV), copy number variations (CNV) and structural variations (SV). 2017-07-25 09:00:00 UTC 2017-07-27 17:00:00 UTC Bioplatforms Australia Charles Perkins Centre, University of Sydney, Australia Charles Perkins Centre University of Sydney Australia Bioinformatics University of Sydney kchamp@bioplatforms.com [] [] workshops_and_courses [] BioinformaticsCancerGenomics
  • Introduction to ChIP-seq Data Analysis and Visualisation using Ensembl

    23 - 24 November 2017

    Edinburgh, United Kingdom

    Elixir node event
    Introduction to ChIP-seq Data Analysis and Visualisation using Ensembl https://tess.elixir-europe.org/events/introduction-to-chip-seq-data-analysis-and-visualisation-using-ensembl-d125d464-c708-4919-8322-19d50246c22d ChIP-seq (Chromatin ImmunoPrecipitation followed by Sequencing) is a popular high-throughput sequencing assay to identify binding sites of DNA-associated proteins and histone modifications. Determining how proteins interact with DNA and the epigenetic landscape is essential for elucidating the regulation of gene expression. The aim of this workshop is to familiarise the participants with the primary analysis of ChIP-seq data sets by providing a balanced set of lectures and practicals on analysis methodologies. Practicals include publicly available ChIP-seq datasets, processed using widely used and open-source software programs (e.g. FASTQC, BWA, samtools, bedtools, wiggletools, MACS2, MEME, TOMTOM, ngsplot) and visualised on the Ensembl genome browser. 2017-11-23 09:00:00 UTC 2017-11-24 17:00:00 UTC The King's Buildings, The University of Edinburgh, Edinburgh, United Kingdom The King's Buildings, The University of Edinburgh Edinburgh United Kingdom EH9 3JN Genomics ChIP-seq Bioinformatics Edinburgh Genomics Bert Overduin - bert.overduin@ed.ac.uk [] [] workshops_and_courses [] BioinformaticsChIP-seqGenomics
  • 3rd Advanced in silico Drug Design workshop/hackathon 2018

    23 - 26 January 2018

    Olomouc, Czechia

    Elixir node event
    3rd Advanced in silico Drug Design workshop/hackathon 2018 https://tess.elixir-europe.org/events/3rd-advanced-in-silico-drug-design-workshop-hackathon-2018 3ADD workshop/hackathon (23.1.-26.1.2018) is focused on the use of in silico drug design tools and approaches. We will cover both structure-based drug design (molecular docking, structural bioinformatics tools) and ligand-based drug design (QSAR, pharmacophores). Hackathon on the last day is the best opportunity to try your skills either on our challenge or to gather expert opinion on your own drug design problem. 2018-01-23 12:30:00 UTC 2018-01-26 15:00:00 UTC ELIXIR: The Czech Republic Node and Palacky University Olomouc (UPOL) 17. listopadu 1192/12, 12, 17. listopadu, Olomouc, Czechia 17. listopadu 1192/12, 12, 17. listopadu Olomouc Olomouc Czechia Molecular modelling Cheminformatics Drug discovery Palacky University Olomouc http://fch.upol.cz/en/research/conferences-workshops/3add/ [] PhD Students or young researchers in molecular biology and/or genetics with little or no background in bioinformatics. 36 workshops_and_courses registration_of_interest Virtual ScreeningMolecular dockingQSARPharmacophores
  • Applied Bioinformatics in Life Sciences (2nd edition)

    8 - 9 March 2018

    Leuven, Belgium

    Elixir node event
    Applied Bioinformatics in Life Sciences (2nd edition) https://tess.elixir-europe.org/events/applied-bioinformatics-in-life-sciences-2nd-edition Registration is now open! As an integral part of biological research, the field of bioinformatics brings forth innovative computational approaches leading to high-impact results in an increasingly data-dense environment. After a sold-out first edition in March 2016, this second edition will feature recent developments in bioinformatics research, and highlight the power of computational biology in the fields of medical, agricultural, and biotechnology research. Renowned speakers will present how bioinformatics is applied broadly in life sciences, and shed light on the future perspectives of their research. During four plenary sessions, the speakers will focus on the topics: Medical Integrative Omics Proteomics and Metabolomics Structural Bioinformatics Systems Biology ​Conference attendees will have ample networking opportunities besides an exciting scientific program. Find out more about the first edition 'ABLS' Poster information: Format: A0 (841 x 1189 mm / 33.1 x 46.8 in), portrait orientation 2018-03-08 08:45:00 UTC 2018-03-09 17:30:00 UTC VIB Conference series Iers college, 1, Janseniusstraat, Leuven, Belgium Iers college, 1, Janseniusstraat Leuven Vlaams-Brabant Belgium 3000 VIB Practical questions: VIB conferences team +32 9 244 66 11 conferences@vib.be [] PhDAcademicsIndustry 250 meetings_and_conferences first_come_first_served ProteomicsMetabolomicsbioinformaticsSystems biologyProteinsEpigenomicscellular signalingMass spectrometry datamass spectrometry
  • Introduction to Galaxy and the GVL

    20 March 2018

    Carlton, Australia

    Introduction to Galaxy and the GVL https://tess.elixir-europe.org/events/introduction-to-galaxy-and-the-gvl 2018-03-20 09:30:00 UTC 2018-03-20 12:30:00 UTC Melbourne Bioinformatics Melbourne Bioinformatics, 187 Grattan St, Carlton, Australia Melbourne Bioinformatics, 187 Grattan St Carlton Australia 3053 Bioinformatics University of Melbourne [] [] workshops_and_courses [] GalaxyGenomics
  • Variant Calling with Galaxy & the GVL for beginners

    21 March 2018

    Carlton, Australia

    Variant Calling with Galaxy & the GVL for beginners https://tess.elixir-europe.org/events/variant-calling-with-galaxy-the-gvl-for-beginners-0281d622-39e8-4e65-92a0-02ba3f2b2fb8 2018-03-21 09:30:00 UTC 2018-03-21 12:30:00 UTC Melbourne Bioinformatics Melbourne Bioinformatics, 187 Grattan St, Carlton, Australia Melbourne Bioinformatics, 187 Grattan St Carlton Australia Bioinformatics University of Melbourne [] [] workshops_and_courses [] Variant callingGalaxyGenomics
  • Implementation of Data Management Plans & Data Stewardship in practice

    11 September 2018

    Athens, Greece

    Elixir node event
    Implementation of Data Management Plans & Data Stewardship in practice https://tess.elixir-europe.org/events/implementation-of-data-management-plans-data-stewardship-in-practice ELIXIR workshop “Implementation of Data Management Plans & Data Stewardship in practice”, taking place on Sept 11, 2018 as part of the ECCB2018 in Athens, Greece. 2018-09-11 17:30:00 UTC 2018-09-11 19:00:00 UTC Hellenic Society for Computational Biology Stavros Niarchos Foundation Cultural Center, 364, Leoforos Andrea Siggrou, Athens, Greece Stavros Niarchos Foundation Cultural Center, 364, Leoforos Andrea Siggrou Athens Attica Greece Data management Data submission, annotation and curation Stavros Niarchos Foundation Cultural Center [] bioinformaticiansdata stewards 30 workshops_and_courses registration_of_interest data managementdata stewardshipeLearningEeLP
  • Genome assembly and annotation course 4

    24 - 28 September 2018

    Montferrier-sur-Lez (Montpellier area), France

    Elixir node event
    Genome assembly and annotation course 4 https://tess.elixir-europe.org/events/genome-assembly-and-annotation-course-4 ELIXIR Genome assembly and annotation course 4, Sept 24-28 2018 at the CIRAD, Montpellier, France 2018-09-24 09:00:00 UTC 2018-09-28 17:00:00 UTC ELIXIR-BE, ELIXIR-FR, ELIXIR-NO, ELIXIR-PT, ELIXIR-SE, ELIXIR-SI Cirad, 389, Avenue Agropolis, Montferrier-sur-Lez (Montpellier area), France Cirad, 389, Avenue Agropolis Montferrier-sur-Lez (Montpellier area) Hérault France Genomics CIRAD elixir@mf.uni-lj.si [] life scientistsResearchersPhD students 25 [] registration_of_interest Genomics AssemblyTrainingeLearningEeLP
  • Linux for Genomics

    1 October 2018

    Edinburgh, United Kingdom

    Elixir node event
    Linux for Genomics https://tess.elixir-europe.org/events/linux-for-genomics-4e98de3e-0102-46ab-9720-22f1122fd31d Genomic studies produce vast amounts of data, usually in the form of very large text files. Linux is particularly suited to working with such files, and is therefore arguably one of the most important tools in a bioinformatician’s toolkit. The Linux command-line enables one to view, filter and manipulate large text files that are difficult or impossible to handle with applications like Word or Excel, write pipelines to perform certain tasks, and run bioinformatics software for which no web interface is available. In this workshop we will first cover the most used Linux commands, followed by a short introduction to several popular command-line tools that were especially developed for genomics as well as file formats commonly used in genomics (BED, FASTA, FASTQ, GFF/GTF, SAM/BAM, VCF). 2018-10-01 09:00:00 UTC 2018-10-01 17:00:00 UTC The King's Buildings, The University of Edinburgh, Edinburgh, United Kingdom The King's Buildings, The University of Edinburgh Edinburgh United Kingdom EH9 3JN Genomics Bioinformatics Edinburgh Genomics Donald Dunbar - donald.dunbar@ed.ac.uk [] [] workshops_and_courses [] BioinformaticsGenomicsLinux
  • FAIR Data Management in Life Sciences

    27 October 2018

    Lyon, France

    FAIR Data Management in Life Sciences https://tess.elixir-europe.org/events/fair-data-management-in-life-sciences Are you curious about data management, or how research groups handle their data management pipelines? Do you want to engage with other like-minded researchers in best practice for your data management? Are you overwhelmed by new regulations from funders requiring data management plans? Or are you a developer in the data management sphere? Then come and join our workshop/user meeting on “FAIR Data Management in Life Sciences” as a satellite meeting of the ICSB 2018 in Lyon France. It will be held Saturday 27th October before the main meeting. Registration is free, and is first come first served. Research projects with advanced data management pipelines will be presenting their best practice. Thought leaders in data management will be there to help you with any questions you have. Importantly, YOU get to decide on break out topics or steer discussion during the day. This workshop will be hosted by the FAIRDOM infrastructure (https://fair-dom.org), and bring together FAIRDOM users, FAIR platform developers, and researchers from across the world to discuss: (i) best practices in data management; (ii) cutting edge platform development, and; (iii) community use and requirements of FAIR data platforms. Our key theme this year will be integrating the data pipeline for cross platform data exchange. Throughout the day there will be: (i) presentations by research groups who are pioneering data management in systems, synthetic, and agricultural life-sciences; (ii) networking events so attendees can get to know FAIR platform developers and expert data managers; (iii) training in FAIR data management platforms, including FAIRDOM platforms, and COMBINE standards; (iv) discussions about the future of FAIR and data management within life-sciences. 2018-10-27 09:00:00 UTC 2018-10-27 18:00:00 UTC FAIRDOM ENS Lyon - Site Monod, 46, Allée d'Italie, Lyon, France ENS Lyon - Site Monod, 46, Allée d'Italie Lyon Rhône France Systems biology Data management Systems medicine Bioinformatics University of ManchesterHeidelberg Institute for Theoretical Studies [] Life Science Researchersdata managersdata librariansPhD students, postDoc and PIs in Life Sciences, Biomedicine and Bioinformatics with little or no knowledge of network biology tools, who are interested in learning how to apply such tools in their research.life science industry workshops_and_courses first_come_first_served data managementtrainingexpertise exchangelife scienceslife sciences, bioinformaticsSystems biologySynthetic biologysystems medicinemetadata
  • Type 2 Immunity in Homeostasis and Disease

    21 - 22 February 2019

    Brugge, Belgium

    Type 2 Immunity in Homeostasis and Disease https://tess.elixir-europe.org/events/type-2-immunity-in-homeostasis-and-disease Type 2 inflammation rich in eosinophils, basophils and mast cells and orchestrated by Th2 lymphocytes has been mainly studied in the context of allergies and immune responses to helminths. Since the discovery of type 2 innate lymphoid cells there has been a strong interest in understanding how type 2 immunity is induced and regulated, for example by barrier epithelial cells. Given the recent introduction of new biologics that target type 2 cytokines to treat severe allergic disease, we are accumulating a lot of new insights on type 2 immune responses in humans as well. This meeting will not only focus on new effector and regulatory mechanisms of the type 2 immune response. It will also offer a number of talks taking a broader look on type 2 immunity, dealing with such topics as type 2 immunity in homeostasis, growth and repair, metabolism, neuro-immune interactions and cancer. Understanding these alternative roles for type 2 immunity will be important to address the benefits and potential pitfalls of long-term inhibition of type 2 immunity by biologicals and could elucidate new therapeutic pathways for very common diseases like asthma, obesity, diabetes and cancer. Abstracts can be submitted for the following topics: Tissue homeostasis and repair Type 2 Neuro-immune axis Type 2 in allergy, asthma & helminth infection Type 2 Immunity & Cancer Deadlines: • Early Bird: 10 January 2019 • Late Registration: 7 February 2019 • Abstract deadline: 19 December 2018 2019-02-21 08:00:00 UTC 2019-02-22 18:00:00 UTC VIB Conferences OLD ST. JOHN SITE, Zonnekemeers, Brugge, Belgium OLD ST. JOHN SITE, Zonnekemeers Brugge West-Vlaanderen Belgium 8000 VIBGhent UniversityCell Press confferences@vib.be Vector Builder [] meetings_and_conferences [] ImmunityCancer, Cancer Biomarkers, Cancer Biomarkers in Clinical Use, Types of Biomarker and Biomarkers, Surgical oncology, Pediatric Oncology, Haematologist-oncology, Gynecologist oncology, Orthopaedic Oncology, Breast Cancer, Neuro-oncology, Pathophysiology of Cancer, Cancer Pharmacology, Cancer Therapeutics, Homeopathy Cancer Treatment Cancer Epigenetics, Cancer: Lifestyle and Nutrition, Cancer Prognosis and Predictive Factor, Cancer Proteomics, Molecular Epidemiology of Cancer, Cancer Nursing and Care, Cancer Diagnosis, Cancer Biopsy, Magnetic Resonance Imaging (MRI),Factors Associated with Cancer Prevalence, Cancer Pharma Industry, Economic Impact on CancerAllergyAsthmaType 2 immunity
  • Software carpentry workshop

    1 - 3 April 2019

    Bergen, Norway

    Software carpentry workshop https://tess.elixir-europe.org/events/software-carpentry-workshop-3acee97f-5c7d-48a0-b87d-a6523f239ce9 Software Carpentry aims to help researchers get their work done in less time and with less pain by teaching them basic research computing skills. This hands-on workshop will cover basic concepts and tools, including program design, version control, data management, and task automation. Participants will be encouraged to help one another and to apply what they have learned to their own research problems. The WS is over three days. The first day will concentrate on Unix shell and Git, and day two and day three on R for Reproducible Scientific Analysis. 2019-04-01 09:00:00 UTC 2019-04-03 17:00:00 UTC Bergen, Bergen, Norway Bergen Bergen Hordaland Norway 5008 University of BergenElixir Norway David Grellscheid <d.grellscheid@gmail.com> [] Graduate StudentsResearchers workshops_and_courses first_come_first_served Software Carpentry R-programmingUNIXShellReproducible Science
  • ChIP-seq and ATAC-seq analysis

    2 - 3 May 2019

    Cambridge, United Kingdom

    Elixir node event
    ChIP-seq and ATAC-seq analysis https://tess.elixir-europe.org/events/chip-seq-and-atac-seq-analysis-cee4dfb5-310c-4c50-b8cd-78d29ad162ed The primary aim of this course is to familiarise participants with the analysis of ChIP-seq and ATAC-seq data and provide hands-on training on the latest analytical approaches. The course starts with an introduction to ChIP-seq experiments for the detection of genome-wide DNA binding sites of transcription factors and other proteins. We first show data quality control and basic analytical steps such as alignment, peak calling and motif analysis, followed by practical examples on how to work with biological replicates and fundamental quality metrics for ChIP-seq datasets. On the second day, we then focus on the analysis of differential binding, comparing between different samples. We will also give an introduction to ATAC-seq data analysis for the detection of regions of open chromatin. 2019-05-02 09:00:00 UTC 2019-05-03 17:00:00 UTC University of Cambridge University of Cambridge, Trinity Ln, Cambridge, United Kingdom University of Cambridge, Trinity Ln Cambridge Cambridgeshire United Kingdom [] sermarcue@gmail.com [] Researchers workshops_and_courses [] ChIP-SeqATAC-seqGenomics
  • Workshop on High-Content Imaging and Data Science for Virtual Screening and Drug Discovery

    13 - 17 May 2019

    Bled, Slovenia

    Elixir node event
    Workshop on High-Content Imaging and Data Science for Virtual Screening and Drug Discovery https://tess.elixir-europe.org/events/workshop-on-high-content-imaging-and-data-science-for-virtual-screening-and-drug-discovery High-throughput phenotypic screening, based on high-content imaging, is increasingly often used as a tool for drug discovery. Compound screens are used to find hits that produce the desired phenotypes in relevant cellular assays. Genomic screens are used to elucidate the underlying molecular pathways and identify suitable drug targets. Since high-content screening produces a lot of data, data science approaches such as statistics, machine learning and neural networks can help interpret the collected data. Just as virtual screening can be performed in chemoinformatics (learning predictive models for QSAR - quantitative structure-activity relations) from data obtained through compound screens, similar approaches can be taken in the context of high-throughput phenotypic screening. This will be the first event of its kind in the region of Slovenia and Friuli-Venezia-Giulia. The event will bring together a group of experts covering different topics in the fields of high-content screening, image analysis, chemoinformatics and machine learning. This will allow graduate students and researchers from both academia and industry to familiarize themselves with these cutting-edge topics. The workshop will have an impact on both the academic and industrial sector in the region (e.g. biotech companies of all sizes). The workshop is part of the INTERREG V-A Italy-Slovenia 2014-2020 project TRAIN (Big Data and Disease Models: A Cross- border Platform for Validated Biotech Industry Kits), which brings together experts on the topic from academia and industry. 2019-05-13 09:00:00 UTC 2019-05-17 18:00:00 UTC Jozef Stefan Institute, Ljubljana, Slovenia Rikli Balance Hotel, Cankarjeva cesta 4, SI-4260 Bled, Slovenia, Bled, Slovenia Rikli Balance Hotel, Cankarjeva cesta 4, SI-4260 Bled, Slovenia Bled Gorenjska Slovenia SI-4260 Drug discovery Genomics Rikli Balance Hotel elixir@mf.uni-lj.si European UnionINTERREG V-A Italy-Slovenia 2014-2020 project TRAIN PhD studentsGraduate studentsResearchersBusiness EntrepreneursBiotechnology CompaniesPharmaceutical Industry workshops_and_courses registration_of_interest INTERREGPhenotypic screeningData analysisVirtual ScreeningHigh-content imaging
  • Introduction to Linux and HPC for biologists

    27 May 2019

    Melbourne, Australia

    Introduction to Linux and HPC for biologists https://tess.elixir-europe.org/events/introduction-to-linux-and-hpc-for-biologists 2019-05-27 09:30:00 UTC 2019-05-27 16:30:00 UTC Melbourne Bioinformatics 187 Grattan St, 187, Grattan Street, Melbourne, Australia 187 Grattan St, 187, Grattan Street Melbourne Melbourne City Australia Bioinformatics University of Melbourne [] [] [] [] HPCbioinformaticslinux
  • Research Data Management and Stewardship

    25 - 26 June 2019

    Belval, Luxembourg

    Research Data Management and Stewardship https://tess.elixir-europe.org/events/research-data-management-and-stewardship 2019-06-25 09:00:00 UTC 2019-06-26 17:00:00 UTC Luxembourg Learning Centre, University of Luxembourg, Belval, Luxembourg Luxembourg Learning Centre, University of Luxembourg Belval Luxembourg Data management University of Luxembourg Pinar ALPER (ELIXIR-Luxembourg) Roland KRAUSE (ELIXIR-Luxembourg) [] Life Science Researchersdata stewards 20 workshops_and_courses registration_of_interest FAIRGDPRDMPdata stewardship
  • Genome assembly and annotation course 5

    1 - 5 July 2019

    Milan, Italy

    Elixir node event
    Genome assembly and annotation course 5 https://tess.elixir-europe.org/events/genome-assembly-and-annotation-course-5 A **genome assembly and annotation course** will take place on **July 1-5, 2019** in **Milan, Italy**, hosted by the Italian ELIXIR Node in cooperation with other ELIXIR nodes that are involved in the ELIXIR-EXCELERATE task 10.3 “Capacity Building in Genome Assembly and Annotation”. Some of the most experienced assembly and annotation experts in Europe will be teaching at the course. The course is aimed at researchers interested in learning more about genome assembly and annotation. It will include information useful for both the beginner and the more advanced user. We will start by introducing general concepts and then continue with a step-by-step description of all major components of a genome assembly and annotation workflow, from raw data all the way to a final assembled and annotated genome. There will be a mix of lectures and hands-on practical exercises using Unix/Linux command line. After the course, the participants will have knowledge of commonly used assembly practices and tools. They will be able to run assembly and annotation projects on their own. **Prerequisites:** - **Working knowledge of Unix/Linux command line** - **As part of the course agenda, course participants will prepare a short presentation about their own projects.** Optionally, they may also bring their own data. **Instructions how to register for the course are available on the [ELIXIR-SI eLearning Platform (EELP)](https://elixir.mf.uni-lj.si/course/view.php?id=45).** You will be able to access the course after you register and your registration is approved by the course organizers. 2019-07-01 09:00:00 UTC 2019-07-05 17:00:00 UTC ELIXIR Italy University of Milano-Bicocca, Building U7, Lab 715, Milan, Italy University of Milano-Bicocca, Building U7, Lab 715 Milan Città Metropolitana di Milano Italy Genomics University of Milano-Bicocca, Italy General questions: gianluca.dellavedova@unimib.it Questions about the course agenda: henrik.lantz@nbis.se National Research Council of ItalyINRANBIS - National Bioinformatics Infrastructure SwedenELIXIR EXCELERATE life scientistsResearchersPhD students 24 workshops_and_courses registration_of_interest Genomics AssemblyTrainingeLearningEeLP
  • Computational PANGenomics

    9 - 13 September 2019

    Oeiras, Portugal

    Elixir node event
    Computational PANGenomics https://tess.elixir-europe.org/events/computational-pangenomics Reference genomes have become central to bioinformatics approaches, and form the core of standard analyses using contemporary sequencing data. However, the use of linear reference genomes, which provide the sequence of one representative genome for a species, is increasingly becoming a limitation as the number of sequenced genomes grows. In particular, they tend to bias us away from the observation of variation in the genomes we study. A general solution to this problem is to use a pangenome that incorporates both sequence and variation from many individuals as our reference system. This pangenome is naturally modelled as a graph with annotations and can provide all the functionality traditionally provided by linear reference genomes. Unlike linear reference genomes, a pangenome readily incorporates both small and large variation, allowing bias-free genotyping at known alleles. In this course, we will explore the use of modern bioinformatic tools that allow researchers to use pangenomes as their reference system when engaging in studies of organisms of all types. Such techniques will aid any researcher working on organisms of high genetic diversity or on organisms lacking a high-quality reference genome. This course targets all researchers interested in learning about an exciting paradigm shift in computational genomics. 2019-09-09 09:30:00 UTC 2019-09-13 17:00:00 UTC The Gulbenkian Training Programme in Bioinformatics Instituto Gulbenkian de Ciência (IGC), 6, Rua Quinta Grande, Oeiras, Portugal Instituto Gulbenkian de Ciência (IGC), 6, Rua Quinta Grande Oeiras Portugal 2781-901 Instituto Gulbenkian de Ciência, Biodata.pt - Elixir's portuguese node of the european project bicourses@igc.gulbenkian.pt [] This course is oriented towards biologists and bioinformaticians. The course will be of particular interest to researchers investigating organisms without a reference genome or populations featuring high levels of genetic diversity. 20 workshops_and_courses registration_of_interest BioinformaticsGenomics
  • 4th Disease Maps Community Meeting - DMCM2019

    2 - 4 October 2019

    Sevilla, Spain

    Elixir node event
    4th Disease Maps Community Meeting - DMCM2019 https://tess.elixir-europe.org/events/4th-disease-maps-community-meeting-dmcm2019 The [4th Disease Maps Community Meeting] (http://disease-maps.org/DMCM2019) is hosted by the [Clinical Bioinformatics Area] (http://www.clinbioinfosspa.es/), FPS, Hospital Virgen del Rocio. **Invited Talks** * _Schizophrenia Map: Data to knowledge to data_ **Jessica Dale Tenenbaum**, Duke University at Durham, North Carolina, USA * _Logic modeling to integrate disease maps and various omics data_ **Julio Saez-Rodriguez**, RWTH-Aachen University Hospital, Aachen, Germany * _Toward whole-cell computational models for precision medicine_ **Jonathan Karr**, Icahn School of Medicine at Mount Sinai, New York, USA * _Computational approaches to tackle chemoresistance in high-grade serous ovarian cancer_ **Sampsa Hautaniemi**, Faculty of Medicine, University of Helsinki, Finland **Afternoon discussion sessions** Afternoon breakout discussion sessions are planned following the example of the 2nd Disease Maps Community Meeting in Luxembourg. We invite proposals: a title and a brief description of the topic (1 page maximum). 4-6 topics will be selected, introduced 2nd October and discussed 3rd and 4th October with summaries presented at the end to all the participants. **Abstract subimission and registration** http://disease-maps.org/DMCM2019 2019-10-02 09:30:00 UTC 2019-10-04 13:30:00 UTC Disease Maps Project Centro de Documentación Clínica Avanzada, s/n, Avda de Manuel Siurot, Sevilla, Spain Centro de Documentación Clínica Avanzada, s/n, Avda de Manuel Siurot Sevilla Spain 41013 Systems medicine Translational medicine Bioinformatics Fundación Progreso y Salud (FPS)Hospital Virgen del Rocio disease-maps-coord@googlegroups.com [] [] meetings_and_conferences [] BioinformaticsClinical BioinformaticsDiseasesDisease mapsTranslational Bioinformaticssystems medicine

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