EMBL Events

11 June - 16 June 2023

Quantitative proteomics: strategies and tools to probe biology

Jeroen Krijgsveld, Christina Ludwig, Mikhail Savitski

OverviewSpeakersProgrammePractical InformationSponsorsMedia kit Overview Please see EMBL s COVID 19 safety policy for testing and other requirements to attend this on site course Course overview This course will provide both theoretical and practical training in the use of quantitative proteomics Participants will learn the principles of the most frequently used data acquisition... OverviewSpeakersProgrammePractical InformationSponsorsMedia kit Overview Please see EMBL’s COVID-19 safety policy for testing and other requirements to attend this on-site course. Course overview This course will provide both theoretical and practical training in the use of quantitative proteomics. Participants will learn the principles of the most frequently used data acquisition methods (DDA, DIA, and targeted proteomics) and proteomic quantification approaches (label-free, SILAC, and TMT). The major aim of this course is to practically train the participants in the use of readily available bioinformatic tools as well as in the statistical interpretation of proteomic data, in order to empower them to make informed decisions in their own research. Audience This course is aimed at researchers who know the basics of proteomics and who want to get a deeper understanding of quantitative...

12 June - 16 June 2023

Summer school in bioinformatics

Sophie Spencer

This course provides an introduction to the use of bioinformatics in biological research giving participants guidance for using bioinformatics in their work whilst also providing hands on training in tools and resources appropriate to their research Participants will initially be introduced to bioinformatics theory and practice including best practices for undertaking bioinformatics analysis data management and reproducibility To enable specific exploration of resources in their particular field of interest participants will then be divided into focused groups to work on a project Participants will be required to review some pre recorded material prior to the start of the course Group projects A major element of this course is a group project where participants will be placed in small groups to work together on a challenge set by trainers from EMBL EBI and external institutes This allows people to explore the bioinformatics tools and resources available in their area of interest and apply them to a set problem providing participants with hands on experience relevant to their own research The group work will culminate in a presentation session involving all participants on the final day of the course giving an opportunity for wider discussion on the benefits and challenges of working with biological data Groups are mentored and supported by the trainers who set the initial challenge but the groups will be responsible for driving their projects forward with all members expected to take an active role Groups are pre organised before the course and all group members will be sent some short homework in preparation for their project work prior to the start of the course Basic outlines of the projects on offer this year are given below In your application you must indicate your first and second choice of project based on which you think would benefit your research most Not all projects may be offered and final decisions on which projects will be run during the course will be made based on the number of applicants per project Most of the projects cover mammalian data sets however in many cases the methods and approaches taught are transferable to data from various species Group project one Genome variation across human populations Natural variation between individuals or between different human populations is a result of genome mutations throughout evolutionary history Some mutations may become fixed because of their beneficial effect while most drift among individuals During this project you will investigate genomic variation between two separate human populations of European and Asian descent Using sequence data from a number of individuals from each population you will use a range of bioinformatics tools to discover variants that exist between them In the second section of the project you will attempt to analyse the functional consequences of the variants you have identified attempting to find clinical association and linking them to phenotypes Project mentor Baron Koylass EMBL EBI Group project two Interpreting functional information from large scale protein structure data This project will introduce you to the wealth of publicly available data in the Protein Data Bank PDB and give you the opportunity to investigate how large subsets of structure data can be used to analyse protein features and determine function In the project you will learn how to identify relevant protein structures collate and interpret functional information and implement this process programmatically Project mentor Preeti Choudhary EMBL EBI Marcus Bage EMBL EBI Group project three Modelling cell signalling pathways Curating models of biological processes is an effective training in computational systems biology where the curators gain an integrative knowledge of biological systems modelling and bioinformatics You will learn to encode and simulate ordinary differential equation models of signalling pathways from a recent publication using user friendly software such as COPASI even without extensive mathematical background You will learn to perform in silico experiments new predictions and develop hypotheses Furthermore you will learn how to annotate models and re use pre existing models from open repositories such as BioModels Project mentors Rahuman Sheriff EMBL EBI Krishna Tiwari EMBL EBI Group project four Networks and pathways This project will cover typical bioinformatics analysis steps needed to put differentially expressed genes into a wider biological context You will start with gene expression data RNA seq to build an initial interaction network Next you will learn to combine public network datasets identify key regulators of biological pathways and explore biological function through network analysis You will get first hand experience in integration and co visualising with additional data and functional enrichment analysis All this helps to put the initial results into a previously known context and provide hypotheses for potential follow up experiments We will use Cytoscape Expression Atlas g Profiler StringDb among other tools We also may give a few R packages a try Project mentor Priit Adler University of Tartu Group project five Reusing FAIR Bioimage data an AI application Biological imaging is a rapidly growing field with a vast potential of re use for further scientific research and development Re use of bioimage data requires FAIR Findable Accessible Interoperable Reusable data by public repositories that support FAIR sharing such as the BioImage Archive This project aims to showcase one of many ways of reusing bioimage data by applying artificial intelligence AI models on selected datasets in the BioImage Archive In this project you will learn to search and download the extensive variety of data that is held in this publicly available data resource You will also use Jupyter Python notebooks to visualise image data in the archive and deploy AI models on selected datasets Project mentors Aybuke Kupcu Yoldas EMBL EBI Teresa Zulueta Coarasa EMBL EBI Additional information Please note that we will operate this course face to face at EMBL EBI in Hinxton Hybrid options are not currently available We reserve the right to change the format of this course or cancel it due to the ongoing coronavirus pandemic... This course provides an introduction to the use of bioinformatics in biological research, giving participants guidance for using bioinformatics in their work whilst also providing hands-on training in tools and resources appropriate to their research. Participants will initially be introduced to bioinformatics theory and practice, including best practices for undertaking bioinformatics analysis, data management, and reproducibility. To enable specific exploration of resources in their particular field of interest, participants will then be divided into focused groups to work on a project. Participants will be required to review some pre-recorded material prior to the start of the course. Group projects A major element of this course is a group project, where participants will be placed in small groups to work together on a challenge set by trainers from EMBL-EBI and external...

12 June - 15 June 2023

Life at the periphery: mechanobiology of the cell surface

Alba Diz Muñoz, Zemer Gitai, KC Huang, Ewa Paluch

OverviewSpeakersProgrammePractical informationSponsorsAboutMedia kit Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Symposium overview After a very engaging virtual first edition in 2021 this hybrid symposium on cell surface mechanics will bring together researchers across kingdoms of life interested in dynamic processes occurring at the... OverviewSpeakersProgrammePractical informationSponsorsAboutMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Symposium overview After a very engaging virtual first edition in 2021, this hybrid symposium on cell surface mechanics will bring together researchers across kingdoms of life interested in dynamic processes occurring at the cell surface. The focus will be on new technologies that empower studies of cell wall, cytoskeleton, and membrane biology, such as advanced imaging in in vitro and in vivo systems, as well as approaches combining molecular biology with computational and biophysical approaches. The first edition started building a much-needed bridge between the wall and wall-less fields. This edition will cement that bridge, but turn the focus to the balance between keeping a particular cell...

15 June 2023

Utilising GPUs in scientific algorithms

Adam Smelko

Nowadays GPU programming plays an important role in software development The massive parallel hardware enables us to analyze bigger datasets process data in finer details or visualize simulations in real time Still due to the programming complexity and the lack of knowledge GPUs are not regularly used in many scientific fields Thankfully GPU programming matures and provides simpler tools to utilize GPU hardware In this presentation we describe multiple GPU programming frameworks ranging from high level to low level and showcase them on selected bioinformatics algorithms About the speaker Adam melko is a third year doctoral student in the Department of Distributed and Dependable Systems at Charles University in Prague with the dissertation topic of Employing parallel computing in data intensive tasks He specializes in GPU programming and in the analysis of memory accesses in programs His current research topic involves development of tools for effective memory layouts and traversals of data structures... Nowadays, GPU programming plays an important role in software development. The massive parallel hardware enables us to analyze bigger datasets, process data in finer details or visualize simulations in real-time. Still, due to the programming complexity and the lack of knowledge, GPUs are not regularly used in many scientific fields. Thankfully, GPU programming matures and provides simpler tools to utilize GPU hardware. In this presentation, we describe multiple GPU programming frameworks (ranging from high-level to low-level) and showcase them on selected bioinformatics algorithms. About the speaker Adam Šmelko is a third year doctoral student in the Department of Distributed and Dependable Systems at Charles University in Prague with the dissertation topic of Employing parallel computing in data-intensive tasks.  He specializes in GPU programming and in the analysis of memory...

18 June - 23 June 2023

Computational modelling of multicellular systems

Katie Bentley, James Sharpe, Alejandro Torres-Sánchez

This practical course teaches the basics of multicellular modelling to any researcher wishing to enter the field particularly experimentalists with no prior experience of computational modelling... OverviewSpeakersPreliminary ProgrammePractical InformationSponsorsMedia kit Overview Overview It is a “hands-on” course with 60% of the time devoted to students working on laptops performing exercises designed to give a practical familiarity with different types of computational modelling. The course focuses on the dynamics of multicellular systems- from embryos to organoids, covering both the molecular side (how gene regulatory networks perform pattern formation) and also the mechanical side in 2D and 3D (how the movements and activities of many cells together leads to tissue-level morphogenesis and organisation). Attendees will also work through the week in small groups on group projects, which will be presented on the last day to the whole class. Each day will end with a keynote lecture by a prominent researcher in the field, putting the topic of the day into context through an...

19 June - 21 June 2023

Bioinformatics for principal investigators

Jane Reynolds

This course has been designed to provide principal investigators PI s working in the life sciences with an introduction to the challenges of working with biological data as a research leader Starting with a look at where bioinformatics and data science fits into their research teams the course will enable PI s to take a strategic look at the requirements for undertaking such work and how bioinformatics capacity can be developed from personnel through to computational needs It will additionally provide guidance on strategies for managing data the importance of data sharing how to work with computational collaborators and what resources are available across the life sciences to support such work During this course we will not be teaching hands on bioinformatics analysis but we will be signposting appropriate training resources to upskill you and your team In person course We plan to deliver this course in an in person manner onsite at our training suite at EMBL EBI Hinxton Please be aware that we are continually evaluating the ongoing pandemic situation and as such may need to change the format of courses at short notice Your safety is paramount to us you can read our COVID guidance policy for more information All information is correct at time of publishing Additional information This course is currently under construction and so details are subject to change Please note that we will operate this course face to face at EMBL EBI in Hinxton Hybrid options are not currently available We reserve the right to change the format of this course or cancel it due to the ongoing coronavirus pandemic... This course has been designed to provide principal investigators (PI's) working in the life sciences with an introduction to the challenges of working with biological data as a research leader. Starting with a look at where bioinformatics and data science fits into their research teams, the course will enable PI’s to take a strategic look at the requirements for undertaking such work and how bioinformatics capacity can be developed from personnel through to computational needs. It will additionally provide guidance on strategies for managing data, the importance of data sharing; how to work with computational collaborators and what resources are available across the life sciences to support such work. During this course, we will not be teaching hands-on bioinformatics analysis, but we will be signposting appropriate training resources to upskill you and your team. In-person course We...

19 June - 20 June 2023

Terra incognita: navigating ethical boundaries in the life sciences

Lucia von Bredow

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview EMBL is committed to sharing research advances and sustaining scientific interaction through onsite and virtual courses and conferences We are delighted to announce that this conference will be held as a virtual event and invite you to join us online The virtual conference includes talks from invited speakers... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview EMBL is committed to sharing research advances and sustaining scientific interaction through onsite and virtual courses and conferences. We are delighted to announce that this conference will be held as a virtual event and invite you to join us online. The virtual conference includes talks from invited speakers, short talk presenters and networking opportunities. Conference overview The 23rd Science and Society Conference will examine the breadth of ethical issues present in the life sciences through the lens of molecular biology research. It will explore both the historical context of the intersection between research and ethics, and the fast pace of emerging ethical challenges in the life sciences through two case studies: technology ethics and organoid research. It will present...

21 June 2023

A guide to identifying suitable patient-derived cancer models in CancerModels.Org

Patient derived cancer models PDCMs have become an essential tool in both cancer research and preclinical studies Each model type offers unique advantages and is better suited for specific research areas cell lines are low cost and allow high throughput assays organoids model the impact of intratumour heterogeneity tumour evolution and drug response and patient derived xenografts PDXs retain the tumour architecture to better predict patient response to treatment Seamless access to PDCMs is however hindered by the lack of shared data standards As such PDCMs stakeholders i e researchers clinicians bioinformaticians and analytical tool developers are faced with the challenge to navigate a complex and siloed landscape across multiple commercial and academic resources CancerModels Org is a new cancer research platform that aggregates clinical genomic and functional data from PDXs organoids and cell lines The platform addresses the needs of the stakeholders by standardising harmonising and integrating the complex and diverse data associated with patient derived cancer models Its foundation is underpinned by our efforts to develop and promote the use of descriptive standards e g PDX MI PMID 29092942 to facilitate data interoperability and global sharing of models Further value is provided by enriching the models and data with concepts from well established terminologies e g NCI Thesaurus and links to external resources such as publication platforms raw data archives and cancer specific annotation tools enabling exploration and prioritisation of cancer model variation data CancerModels Org is freely available under an Apache 2 0 license https github com PDCMFinder... Patient-derived cancer models (PDCMs) have become an essential tool in both cancer research and preclinical studies. Each model type offers unique advantages and is better suited for specific research areas: cell lines are low cost and allow high throughput assays, organoids model the impact of intratumour heterogeneity, tumour evolution, and drug response, and patient-derived xenografts (PDXs) retain the tumour architecture to better predict patient response to treatment. Seamless access to PDCMs is, however, hindered by the lack of shared data standards. As such, PDCMs stakeholders - i.e., researchers, clinicians, bioinformaticians and analytical tool developers - are faced with the challenge to navigate a complex and siloed landscape across multiple commercial and academic resources. CancerModels.Org is a new cancer research platform that aggregates clinical, genomic, and functional...

25 June - 30 June 2023

PerMedCoE summer school: from pathway modelling tools to cell-level simulations

Juanita Riveros

The course will combine lectures and hands on exercises to Introduce attendees to key practicalities of working with high performance computing HPC clusters Build first hand experience in using PerMedCoE modelling tools CellNOpt CARNIVAL COBREXA MaBoSS PhysiCell and PhysiBoSS Develop a practical appreciation of using workflow managers and containerised PerMedCoE modelling tools to execute biomedical workflows It will also include poster sessions where participants can present their work and plenty of time for interaction between participants and between participants and trainers This course will take place at the Hotel Montany in Seva less than an hour away from Barcelona Visit the PerMedCoE summer school website for more information... The course will combine lectures and hands-on exercises to: Introduce attendees to key practicalities of working with high-performance computing (HPC) clusters Build first-hand experience in using PerMedCoE modelling tools (CellNOpt, CARNIVAL, COBREXA, MaBoSS, PhysiCell and PhysiBoSS) Develop a practical appreciation of using workflow managers and containerised PerMedCoE modelling tools to execute biomedical workflows It will also include poster sessions where participants can present their work and plenty of time for interaction between participants and between participants and trainers. This course will take place at the Hotel Montanyà in Seva, less than an hour away from Barcelona. Visit the PerMedCoE summer school website for more information.

25 June - 30 June 2023

Imaging-based spatial-omics

Alvaro Crevenna, Emerald Perlas, Sinem Saka

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview Course overview The aim of the course is to provide participants a comprehensive introduction to the various methods of spatial omics and in particular those of multiplex immunofluorescence and spatial transcriptomics We want to provide a general overview of the methods and assist researchers choose the... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview Course overview The aim of the course is to provide participants a comprehensive introduction to the various methods of spatial-omics and in particular those of multiplex immunofluorescence and spatial transcriptomics. We want to provide a general overview of the methods and assist researchers choose the right method for their needs. With hands-on practicals, the course will teach participants how to carry out open-source imaging-based methods for cost-effective spatial transcriptomics and multiplex immunofluorescence. The course will cover all experimental stages, including custom reagent preparation, sample preparation and data acquisition (with various microscopy modalities) as well as image processing and data analysis. Audience This course is open to PhD students, postdocs and staff. We seek...

27 June - 30 June 2023

New approaches and concepts in microbiology

Pascale Cossart, Sophie Helaine, KC Huang, Michael Laub, Nassos Typas

This symposium will cover a broad range of topics in microbiology including antibiotic related research bacterial communities and microbiome cell biology regulation signalling pathogenesis and evolution Emphasis will be placed on novel approaches and technologies from systems based to single cell that drive each field or have the potential to revolutionise future research in microbiology... OverviewSpeakersProgrammePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Please see EMBL’s COVID-19 safety recommendations if attending the on-site event. Symposium overview This symposium will cover a broad range of topics in microbiology, featuring diverse research on bacterial physiology, bacterial communities and microbiomes, bacterial–host and –phage interactions, and bacteria in their natural ecological contexts. Emphasis will be placed on novel approaches and technologies (from systems-based to single-cell) that drive each field or have the potential to revolutionise future research in microbiology. This meeting is the sixth of its kind, part of a successful series which started in 2013 and held biannually since, becoming a must-attend event for scientists working with...

28 June 2023

Developing community resources for bioimage analysis training

Bioimage analysis is becoming an established field in bioinformatics however consolidated curricula and reusable training material are still hard to come by This webinar will showcase the development of an open website for hosting bioimage analysis training materials where everyone can use and contribute to the material... Bioimage analysis is becoming an established field in bioinformatics, however consolidated curricula and reusable training material are still hard to come by. This webinar will showcase the development of an open website for hosting bioimage analysis training materials, where everyone can use and contribute to the material. 

3 July - 7 July 2023

Proteomics bioinformatics

Shereen Pethania

This course provides hands on training in the basics of mass spectrometry MS and proteomics bioinformatics Participants will receive training on how to use search engines and post processing software quantitative approaches MS data repositories the use of public databases for protein analysis annotation of subsequent protein lists and incorporation of information from molecular interaction and pathway databases This course is organised in association with the Vlaams Instituut voor Biotechnologie VIB In person course The course fee is inclusive of four nights of accommodation and catering including dinner We plan to deliver this course in person onsite at our training suite at EMBL EBI Hinxton Please be aware that we are continually evaluating the ongoing pandemic situation and as such may need to change the format of courses at short notice Your safety is paramount to us you can read our COVID guidance policy for more information All information is correct at time of publishing Please also note that there are delays in the issuing of visas from the UK Government We encourage you to check if you need a visa and apply in plenty of time before travelling Current waiting times are more than six weeks For more information please visit the UK Government website... This course provides hands-on training in the basics of mass spectrometry (MS) and proteomics bioinformatics. Participants will receive training on how to use search engines and post-processing software, quantitative approaches, MS data repositories, the use of public databases for protein analysis, annotation of subsequent protein lists, and incorporation of information from molecular interaction and pathway databases. This course is organised in association with the Vlaams Instituut voor Biotechnologie (VIB). In-person course The course fee is inclusive of four nights of accommodation and catering, including dinner. We plan to deliver this course in-person onsite at our training suite at EMBL-EBI, Hinxton. Please be aware that we are continually evaluating the ongoing pandemic situation and, as such, may need to change the format of courses at short notice. Your safety is paramount to...

3 July - 4 July 2023

Development and morphogenesis: Symposium in honour of Maria Leptin

Fiona Watt

You are cordially invited to this symposium in honour of Professor Maria Leptin current President of the European Research Council and past Director of EMBO 2010 2021... If you are not redirected, please visit the event website.

5 July 2023

A guide to sequence analysis resources in Job Dispatcher

The Job Dispatcher team at EMBL EBI provides access to various bioinformatics sequence analysis tools and biological datasets This webinar will introduce different tool categories and explain how to find access and use these tools for your sequence analysis It will cover the latest features and user documentation of the sequence analysis tools and also demonstrate how to access these tools programmatically... The Job Dispatcher team at EMBL-EBI provides access to various bioinformatics sequence analysis tools and biological datasets. This webinar will introduce different tool categories and explain how to find, access, and use these tools for your sequence analysis. It will cover the latest features and user documentation of the sequence analysis tools  and  also demonstrate how to access these tools programmatically.  

10 July - 14 July 2023

Cancer genomics and transcriptomics

Sophie Spencer

This course will focus on the analysis of data from genomic studies of cancer It will also highlight the application of transcriptomic analysis and single cell technologies in cancer Talks and interactive sessions will give an insight into the bioinformatic concepts required to analyse such data whilst practical sessions will enable the participants to apply statistical methods to the analysis of cancer genomics data under the guidance of the trainers In person course We plan to deliver this course in an in person manner onsite at our training suite at EMBL EBI Hinxton Please be aware that we are continually evaluating the ongoing pandemic situation and as such may need to change the format of courses at short notice Your safety is paramount to us you can read our COVID guidance policy for more information All information is correct at time of publishing... This course will focus on the analysis of data from genomic studies of cancer. It will also highlight the application of transcriptomic analysis and single-cell technologies in cancer. Talks and interactive sessions will give an insight into the bioinformatic concepts required to analyse such data, whilst practical sessions will enable the participants to apply statistical methods to the analysis of cancer genomics data under the guidance of the trainers. In-person course We plan to deliver this course in an in-person manner onsite at our training suite at EMBL-EBI, Hinxton.  Please be aware that we are continually evaluating the ongoing pandemic situation and, as such, may need to change the format of courses at short notice. Your safety is paramount to us; you can read our COVID guidance policy for more information. All information is correct at time of publishing.

10 July - 14 July 2023

Fluorescence imaging beyond intensity

Luis Alvarez, Manuel Gunkel, Birgit Koch, Andrea Mülter

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This course is organised in cooperation with Leica Microsystems Course overview As fluorescence lifetime based readouts become more accessible this course aims to provide a broad understanding of how the lifetime based information can be leveraged to solve biological questions This application... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This course is organised in cooperation with Leica Microsystems. Course overview As fluorescence lifetime-based readouts become more accessible, this course aims to provide a broad understanding of how the lifetime-based information can be leveraged to solve biological questions. This application-centred course will provide insights into how this additional dimension of fluorescence information can help unveil functional and mechanistic information. Audience This course is aimed at PhD students and Post Docs with experience in fluorescence microscopy. It will enable them to better apply confocal fluorescence microscopy and in particular lifetime-based readouts to their cutting-edge research, disseminate their gained expertise to colleagues at their home institution and, eventually, to develop imaging...

11 July - 14 July 2023

Predicting evolution

Justin Crocker, Gautam Dey, Joshua Payne, Patricia Wittkopp

The conference will explore the evolution of biological systems at different levels from genes and molecules to organism development and ecology... OverviewSpeakersProgrammePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Conference overview Advances in genome sequencing and gene editing tools are providing unprecedented insights into biological mechanisms and evolutionary processes. In parallel, computational and theoretical approaches are providing new insights into our understanding of these new data. A goal for this conference is to unite people across theoretical and experimental backgrounds into a coherent focus on “predicting evolution”. The conference will explore the evolution of biological systems at different levels: from genes and molecules to organism development and ecology. As such, we have invited leaders in their respective fields across various scales of evolution: molecular, network, microbial, developmental, and community....

16 July - 21 July 2023

Drosophila genetics and genomics

Justin Crocker, Kate O'Connor-Giles, Ella Preger-Ben Noon, Andreas Prokop

The course combines interactive theoretical discussions that have been successfully used to train generations of Drosophila researchers for nearly 30 years combined with cutting edge experimental approaches taught by experts in the field... OverviewSpeakersPreliminary onsite programmePreliminary virtual programmePractical informationSponsorsMedia kit Overview Please see EMBL’s COVID-19 safety policy for testing and other requirements to attend this on-site course. Course overview The fruit fly Drosophila has played a leading role in the discovery and dissection of basic biological processes, uncovering general principles of development, evolution and disease. Almost a century of research has generated a powerful genetic toolbox that provides a unique arsenal of methods that can tackle almost any biological question. This, combined with exciting new technologies developed in recent years have changed the way Drosophila research is conducted, enabling biologists to address questions that were impossible to study before. The course has three main objectives: – First, to educate and inspire the next generation of scientists, by...

18 July - 21 July 2023

Theory and concepts in biology

Alexander Aulehla, Jordi Garcia-Ojalvo, Robert Phillips. Kirsty Wan

OverviewSpeakersPreliminary programmePractical informationSponsorsAboutMedia kit Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Symposium overview Recent progress in biology has led to an explosion of factual knowledge about the living world over a huge range of scales in space and time Yet many questions about how to make sense of this... OverviewSpeakersPreliminary programmePractical informationSponsorsAboutMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Symposium overview Recent progress in biology has led to an explosion of factual knowledge about the living world over a huge range of scales in space and time. Yet, many questions about how to make sense of this data remain across the entire diversity of the living world from the smallest bacterium to the ecosystems of the Serengeti. This meeting aims to bring together a diverse collection of researchers interested in finding ways to parlay this ever-increasing factual knowledge into a corresponding array of conceptual knowledge. The goal of this symposium is to assemble an interdisciplinary community and to provide a platform to discuss perspectives on the role of theory in biology, and importantly also vice...

24 July - 4 August 2023

Plasticity in developing systems: time, space, and environment

Alexander Aulehla, Aissam Ikmi, Nicoletta Petridou, Alessandra Reversi

OverviewSpeakersPreliminary ProgrammePractical informationSponsorsMedia kit Overview Course Overview Studying organisms in their original context and environment is one of the current grand challenges in the life sciences and a central goal of modern Developmental Biology The interactions between organisms and their chemical physical and biotic environments have important consequences... OverviewSpeakersPreliminary ProgrammePractical informationSponsorsMedia kit Overview Course Overview Studying organisms in their original context and environment is one of the current grand challenges in the life sciences and a central goal of modern Developmental Biology. The interactions between organisms, and their chemical, physical and biotic environments have important consequences at the level of form, physiology and behaviour. To gain an understanding and uncover mechanistic links between these interconnected and dynamic processes, novel, interdisciplinary approaches and cutting-edge technologies are needed. The aim of this course is to expose and introduce graduate students and postdoctoral fellows to fundamental questions and challenges related to the study of how the dynamic interplay between organisms and their changing environment impacts developmental processes and...

6 September - 10 September 2023

Protein synthesis and translational control

Alfredo Castello, Fátima Gebauer, Matthias Hentze, Jerry Pelletier,Christian Spahn

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Conference overview Mechanisms that shape cellular proteomes are critical for life This conference focuses on the process of protein synthesis from the molecular and structural understanding of the translational... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Conference overview Mechanisms that shape cellular proteomes are critical for life. This conference focuses on the process of protein synthesis, from the molecular and structural understanding of the translational machinery to its regulation, its implications in cell and organismal biology, and its alteration in disease. The regulation of mRNA translation is critical to maintain cell homeostasis and mediates cellular responses to environmental, physiological, and pathological cues. Given the central importance of protein synthesis, it is unsurprising that dysregulation or defects in mRNA translation are widely linked to disease, including cancer, neurological or metabolic disorders, and viral infection. In recent...

10 September - 15 September 2023

Advanced methods in bioimage analysis

Ignacio Arganda-Carreras, Anna Klemm, Perrine Paul-Gilloteaux, Christian Tischer

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This course will take place at EMBL Heidelberg Course overview Bioimage analysis has become a keystone of biological research the deluge of data produced by increasingly advanced microscopes calls for experts able to guide life scientists in the methods and software to be used to produce... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This course will take place at EMBL Heidelberg. Course overview Bioimage analysis has become a keystone of biological research: the deluge of data produced by increasingly advanced microscopes calls for experts able to guide life scientists in the methods and software to be used to produce quantitative knowledge from this data. Due to the complexity of the data, without such expert guidance, it is very likely that image analysis algorithms may be applied incorrectly, possibly even producing erroneous results. Moreover, the diversity of imaging modalities, analysis algorithms and software solutions is growing so rapidly that even experts are overwhelmed.  This advanced course concentrates on teaching cutting-edge concepts and tools for quantitative image analysis and will seek to upgrade the...

12 September - 15 September 2023

Developmental metabolism: flows of energy, matter, and information

Alexander Aulehla, Heidi Lempradl, Jonathan Rodenfels

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Please see EMBL s COVID 19 safety recommendations if attending the on site event Overview The fundamental question of the role of metabolism in development has seen a revival in interest This is fueled by recent work... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Please see EMBL’s COVID-19 safety recommendations if attending the on-site event. Overview The fundamental question of the role of metabolism in development has seen a revival in interest. This is fueled by recent work, shedding new light onto previously unrecognised roles of metabolism. This work revealed the intricate relationship between energy flux, spatial and temporal control of metabolites, the environment and embryogenesis. This emerging view is stimulating research designed to answer fundamental questions including: How does the cellular machinery process information linked to the flow of energy and matter? How does metabolic activity impact and constrain the emergence of form and function? What...

13 September 2023

Digital twins for drug repurposing by integrating mathematical modelling and machine learning: bridging the gap between in silico and real-world data

Joaquín Dopazo

The rapid development of computational approaches has revolutionised the field of drug discovery and repurposing Here I will show a practical application of digital twins built by the synergistic combination of mathematical modelling of the cell and machine learning techniques to identify potential drug candidates for repurposing and subsequently validate their efficacy using real world data After discussing the inherent challenges associated with traditional drug discovery methods and the need for alternative approaches I will introduce the concept of digital twins virtual replicas of real biological systems which leverage mathematical models to capture the intricacies of cellular behaviour and response to drugs By integrating machine learning algorithms these digital twins can be trained on vast datasets to predict drug effectiveness and identify promising candidates for repurposing Moreover I will emphasise the importance of validating these predictions with real world data obtained from biomedical databases to ensure reliability and efficacy The presentation aims to showcase the power of integrating mathematical modelling digital twins and machine learning for drug repurposing paving the way for accelerated and cost effective drug discovery processes About the speaker Dr Joaqu n Dopazo is the director of the Computational Medicine Platform of Fundaci n Progreso y Salud He holds a degree in Chemistry and a PhD in Biological Sciences He has previously worked in public centres like the CIPF Valencia CNIO Madrid and companies like GlaxoWellcome SA Tres Cantos His field of work is personalised medicine with an approach that includes systems biology mathematical modelling and artificial intelligence areas in which he has published more than 350 articles... The rapid development of computational approaches has revolutionised the field of drug discovery and repurposing. Here I will show a practical application of digital twins built by the synergistic combination of mathematical modelling of the cell and machine learning techniques to identify potential drug candidates for repurposing and subsequently validate their efficacy using real-world data. After discussing the inherent challenges associated with traditional drug discovery methods and the need for alternative approaches I will introduce the concept of digital twins, virtual replicas of real biological systems, which leverage mathematical models to capture the intricacies of cellular behaviour and response to drugs. By integrating machine learning algorithms, these digital twins can be trained on vast datasets to predict drug effectiveness and identify promising candidates for...

17 September - 22 September 2023

Genome engineering: CRISPR/Cas from cells to mice

Neil Humphreys, Kristof Kersse, Birgit Koch, Elisabeth Zielonka

OverviewSpeakersPreliminary ProgrammePractical InformationSponsorsMedia kit Overview Course overview This course will provide training in genome editing and cell engineering in mammalian cells and mouse embryos using the highly efficient CRISPR Cas9 system Participants will learn design of CRISPR targets using bioinformatics tools generation of gene knock outs knock ins and target... OverviewSpeakersPreliminary ProgrammePractical InformationSponsorsMedia kit Overview Course overview This course will provide training in genome editing and cell engineering in mammalian cells and mouse embryos using the highly efficient CRISPR/Cas9 system. Participants will learn design of CRISPR targets using bioinformatics tools, generation of gene knock-outs/knock-ins, and target validation using the most current technologies. The course will be split into two groups (mammalian cells OR mice) based on participants’ expertise. Please note that all participants are expected to engage in all sessions. Participants should plan for approximately 1 hour extra per day for self paced learning modules. Audience This course is aimed at researchers who are familiar with basic molecular and cell biology techniques and who want to learn how to create an engineered mammalian cell...

18 September - 22 September 2023

Single cell RNA-seq analysis using Python

Juanita Riveros

This course covers the analysis of single cell RNA sequencing scRNA seq data using Python and command line tools Participants will be guided through droplet based scRNA seq analysis pipelines from raw reads to cell clusters You will explore and interpret single cell RNA seq data using Python as well as the Single Cell Expression Atlas Finally you will put their knowledge into practice through a group challenge on the last day Please note that you will not analyse your own data as part of the course There will however be ample opportunity to discuss your research and ideas with other course participants and trainers Virtual course Participants will learn via a mix of pre recorded lectures live presentations and trainer Q A sessions Practical experience will be developed through group activities and trainer led computational exercises Live sessions will be delivered using Zoom with additional support and asynchronous communication via Slack Pre recorded material may be provided before the course starts that participants will need to watch read or work through to gain the most out of the actual training event In the week before the course there will be a brief induction session Computational practicals will run on EMBL EBI s virtual training infrastructure meaning you will not require access to a powerful computer or install complex software on your own machines Participants will need to be available between the hours of 09 00 17 30 BST each day of the course Trainers will be available to assist answer questions and provide further explanations during these times This course is currently under construction and so details are subject to change Please note that we will operate this course virtually Hybrid options are not currently available We reserve the right to change the format of this course or cancel it due to the ongoing coronavirus pandemic... This course covers the analysis of single cell RNA sequencing (scRNA-seq) data using Python and command line tools. Participants will be guided through droplet-based scRNA-seq analysis pipelines from raw reads to cell clusters. You will explore and interpret single-cell RNA seq data using Python as well as the Single Cell Expression Atlas. Finally, you will put their knowledge into practice through a group challenge on the last day. Please note that you will not analyse your own data as part of the course. There will, however, be ample opportunity to discuss your research and ideas with other course participants and trainers. Virtual course Participants will learn via a mix of pre-recorded lectures, live presentations, and trainer Q&A sessions. Practical experience will be developed through group activities and trainer-led computational exercises. Live sessions will be delivered...

19 September - 22 September 2023

CCPBioSim workshop: structural bioinformatics resources and tools for molecular dynamics simulations

Jane Reynolds

This introductory workshop will provide hands on training on protein and structural bioinformatics resources in the context of molecular dynamics biomolecular modelling and simulations The workshop is sponsored by the Collaborative Computational Project for Biomolecular Simulation CCPBioSim Participants will gain knowledge and skills for searching selecting and assessing publicly available protein biodata for use in downstream methods relating to biomolecular modelling and molecular dynamics simulations The workshop will begin with an introduction to basic concepts in genomics and associated resources then to protein resources their uses and limitations and validation of both experimentally and predicted protein structures Finally the workshop will cover variant effect prediction and offer participants hands on group projects to bring together the previous days training with highly experienced mentors During this time participants will work with simulated datasets to answer small research questions then present findings thereafter Participants will also get the chance to network with one another trainers and workshop organisers... This introductory workshop will provide hands-on training on protein and structural bioinformatics resources in the context of molecular dynamics, biomolecular modelling, and simulations. The workshop is sponsored by the Collaborative Computational Project for Biomolecular Simulation (CCPBioSim). Participants will gain knowledge and skills for searching, selecting, and assessing publicly available protein biodata for use in downstream methods relating to biomolecular modelling and molecular dynamics simulations. The workshop will begin with an introduction to basic concepts in genomics and associated resources, then to protein resources, their uses and limitations, and validation of both experimentally and predicted protein structures.  Finally, the workshop will cover variant effect prediction and offer participants hands-on group projects to bring together the previous days’...

20 September - 23 September 2023

The human microbiome

Manimozhiyan Arumugam, Ami Bhatt, Peer Bork, Nicola Segata

Human microbiota the collection of microbes living in and on our body have a significant impact on human health and well being They have been associated with numerous diseases yet we have barely understood their role in the context of life style and genetics Various initiatives are underway around the world to survey the human microbiota at several body sites characterise them understand their interactions with the human hosts elucidate their role in diseases and design possible therapeutic or dietary interventions There is a new wave of studies mining the human microbiota for bioactive compounds such as antibiotics and for characterising specific microbial strains This conference will provide plentiful opportunities for researchers to learn about and to connect to important developments in studying the human microbiota... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Symposium overview Human microbiota – the collection of microbes living in and on our body – have a significant impact on human health and well-being. They have been associated with numerous diseases, yet we are still far from understanding their role in the context of lifestyle and genetics. Various initiatives are underway around the world to survey the human microbiota at several body sites, characterise them, understand their interactions with the human hosts, elucidate their role in diseases, and design possible therapeutic or dietary interventions. There is a new wave of studies mining the human microbiota for health-relevant bioactive compounds, for characterising specific microbial strains and for cataloguing...

2 October - 6 October 2023

Structural bioinformatics

Sophie Spencer

This course provides a guide to the commonly used methods and tools in structural bioinformatics to analyse and interpret experimentally determined and AI predicted macromolecular structure data Structural biology determining the three dimensional shapes of biomacromolecules and their complexes can tell us a lot about how these molecules function and the roles they play within a cell Data derived from structure determination experiments and Artificial Intelligence AI assisted structure prediction enables life science researchers to address a wide variety of questions This course explores bioinformatics data resources and tools for the investigation analysis and interpretation of both experimentally determined and predicted biomacromolecular structures It will focus on how best to analyse and interpret available structural data to gain useful information given specific research contexts The course content will also cover predicting function and exploring interactions with other macromolecules Successful participants may be sent materials prior to the course These might include pre recorded talks and required reading or online training that will be essential to fully engage with the course... This course provides a guide to the commonly used methods and tools in structural bioinformatics to analyse and interpret experimentally determined and AI-predicted macromolecular structure data. Structural biology, determining the three-dimensional shapes of biomacromolecules and their complexes, can tell us a lot about how these molecules function and the roles they play within a cell. Data derived from structure determination experiments and Artificial Intelligence (AI)-assisted structure prediction enables life-science researchers to address a wide variety of questions.   This course explores bioinformatics data resources and tools for the investigation, analysis, and interpretation of both experimentally determined and predicted biomacromolecular structures. It will focus on how best to analyse and interpret available structural data to gain useful information given...

2 October - 4 October 2023

Signaling through Chromatin: from molecules to ecosystems

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4 October - 7 October 2023

Seeing is believing: imaging the molecular processes of life

Jan Ellenberg, Jennifer Lippincott-Schwartz, Satyajit Mayor, Atsushi Miyawaki

The symposium will bring together the leading developers of imaging methods with cutting edge applications that illustrate how imaging can answer biological questions We will emphasize methods that can capture the dynamics of life spanning the whole range from molecular resolution to imaging of whole organisms From its beginning in 2011 Seeing is Believing has embraced novel imaging technologies that open new windows for biological discovery including single molecule and super resolution light sheet and correlative light electron microscopy... OverviewSpeakersPreliminary programmePractical informationSponsorsAboutMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Symposium overview The molecular processes of life are naturally dynamic in space and time from the atomic to the organismal level. The rapid development of imaging methods across the full scale of biological organisation is revolutionising our ability to visualise the inner workings of macromolecular complexes, organelles, cells, tissues, organs and whole organisms. Being able to see biological processes unfold in real time allows us to understand the mechanisms of life as well as disease.The symposium will bring together the leading developers of imaging methods with cutting-edge applications that illustrate how imaging can answer biological questions. We will emphasize methods that can capture the dynamics of...

9 October - 13 October 2023

Metagenomics bioinformatics at MGnify

Meredith Willmott

Overview Learn about the tools processes and analysis approaches used by MGnify in the field of genome resolved metagenomics This course will cover the use of publicly available resources to manage share analyse and interpret metagenomics data focussing primarily on the assembly based approaches used in MGnify analysis The delivered content will involve participants learning via live lectures and presentations followed by live Q As with the trainers Practical experience will be developed in group activities and in computational exercises run using containerised tools on our training infrastructure... Overview Learn about the tools, processes, and analysis approaches used by MGnify in the field of genome-resolved metagenomics. This course will cover the use of publicly available resources to manage, share, analyse, and interpret metagenomics data, focussing primarily on the assembly-based approaches used in MGnify analysis. The delivered content will involve participants learning via live lectures and presentations, followed by live Q&As with the trainers. Practical experience will be developed in group activities and in computational exercises run using containerised tools on our training infrastructure.

9 October - 13 October 2023

Liquid biopsies

Anders Ståhlberg, Karin Sundfeldt

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview Please see EMBL s COVID 19 safety policy for testing and other requirements to attend this on site course Course Overview There is an increasing interest and need to analyse biomarkers in liquid biopsies including basic research and clinical applications Liquid biopsies have several advantages... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview Please see EMBL’s COVID-19 safety policy for testing and other requirements to attend this on-site course. Course Overview There is an increasing interest and need to analyse biomarkers in liquid biopsies, including basic research and clinical applications. Liquid biopsies have several advantages including being minimally invasive, allowing repeated sampling and sampling is often clinical routine. This course will provide an overview of the several techniques to detect and analyse liquid biopsy-based analytes such as circulating tumour cells, cell-free tumor-DNA (ctDNA), miRNA, extracellular vesicles, mRNA, carbohydrates and proteins. Participants will be introduced to all aspects ranging from proper sampling through analyte analysis and final data analysis. Experimentally, we will demonstrate...

11 October - 14 October 2023

The non-coding genome

Marc Bühler, Anna Eulálio, Joshua Mendell, Gisela Storz, Igor Ulitsky

This symposium will explore the diverse dynamic and multifaceted roles of RNA across a spectrum of cellular processes It will provide an interdisciplinary discussion of the roles of non coding RNAs in both prokaryotes and eukaryotes with the aim of enhancing our understanding of gene regulation and function... OverviewSpeakersPreliminary programmePractical informationSponsorsAboutMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Symposium overview Over the past two decades, advances in transcriptomic methods have led to the discovery of a very rich and diverse set of RNA transcripts, short and long, that serve as regulators rather than templates for protein production. Many of these transcribed elements are encoded in noncoding regions of the genome with other regulatory and structural DNA elements of known and unknown functions. While the catalogs of such elements are very rich, and an ever-increasing number are implicated in almost every known biological process, there are still many key open questions. Often these important problems are tackled and discussed within different sub-communities, including the mature fields of microRNAs...

18 October - 21 October 2023

Organoids: modelling organ development and disease in 3D culture

Meritxell Huch, Karl R. Koehler, Madeline Lancaster, Esther Schnapp

OverviewSpeakersPreliminary programmePractical informatonSponsorsAboutMedia kit Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Symposium overview The ability to grow human tissues from stem cells in 3D culture has the potential to revolutionise the drug discovery process and regenerative medicine Building on a long tradition of cell and... OverviewSpeakersPreliminary programmePractical informatonSponsorsAboutMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Symposium overview The ability to grow human tissues from stem cells in 3D culture has the potential to revolutionise the drug discovery process and regenerative medicine. Building on a long tradition of cell and developmental biology knowledge, organoids resembling a variety of human tissues have been generated. This conference will bring together the leading researchers in this field to establish a new research community and reveal parallels between various tissue models. The aim of this meeting is to bring together researchers from different fields to enhance our understanding of how organoids can be formed and maintained, how they can be used to study disease and how we might eventually use them to regenerate...

22 October - 27 October 2023

FISHing for RNAs: classical to single molecule approaches

Monica Ballarino, Imre Gaspar, Emerald Perlas, Elisabeth Zielonka

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview Course overview Over the past decades it became evident that the specific amount and localisation of an RNA transcript are important to understand the biological function of its non coding gene Whereby state of the art in situ hybridisation ISH technologies are key to visualise these RNAs in a given... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview Course overview Over the past decades, it became evident that the specific amount and localisation of an RNA transcript are important to understand the biological function of its (non-) coding gene. Whereby state-of-the-art in situ hybridisation (ISH) technologies are key to visualise these RNAs in a given tissue or cell. This course will teach participants to apply three powerful RNA visualisation techniques, all in histological tissue samples: conventional in situ hybridisation (ISH), hybridisation chain reaction ISH (HCR-ISH), and the cutting edge single molecule fluorescent ISH (smFISH). In addition, essential tissues embedding protocols adapted to facilitate visual interrogation of RNA transcripts will also be covered. Benefit from our excellent trainer to participant ratio for personalised training...

23 October - 27 October 2023

Systems biology: from large datasets to biological insight

Jane Reynolds

This course covers the use of computational tools to extract biological insight from omics datasets The content will explore a range of approaches ranging from network inference and data integration to machine learning and logic modelling that can be used to extract biological insights from varied data types Together these techniques will provide participants with a useful toolkit for designing new strategies to extract relevant information and understanding from large scale biological data The motivation for running this course is a result of advances in computer science and high performance computing that have led to groundbreaking developments in systems biology model inference With the comparable increase of publicly available large scale biological data the challenge now lies in interpreting them in a biologically valuable manner Likewise machine learning approaches are making a significant impact in our analysis of large omics datasets and the extraction of useful biological knowledge Additional information Please note that we will operate this course face to face at EMBL EBI in Hinxton Hybrid options are not currently available We reserve the right to change the format of this course or cancel it due to the ongoing coronavirus pandemic... This course covers the use of computational tools to extract biological insight from omics datasets. The content will explore a range of approaches – ranging from network inference and data integration to machine learning and logic modelling – that can be used to extract biological insights from varied data types. Together these techniques will provide participants with a useful toolkit for designing new strategies to extract relevant information and understanding from large-scale biological data. The motivation for running this course is a result of advances in computer science and high-performance computing that have led to groundbreaking developments in systems biology model inference. With the comparable increase of publicly-available, large-scale biological data, the challenge now lies in interpreting them in a biologically valuable manner. Likewise, machine learning approaches are...

25 October - 27 October 2023

Proteomics in cell biology and disease mechanisms

Yu-Ju Chen, Ileana Cristea, Albert Heck, Matthias Mann

... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Conference overview Even after a few decades of great accomplishments, the field of proteomics remains to develop further, fueled by continued technological and computational advances in high-throughput methods and multi-omics big data integration. The ‘Proteomics in cell biology and disease mechanisms’ conference will provide attendees with a program that provides the current “state-of-affairs” in proteomics including a future perspective. It will be held at a pioneering hot spot for proteomics in Europe, in association with EMBL, in Heidelberg Germany. This year’s programme will focus on the latest technological advances with a focus on medical and clinical applications of proteomics, and fundamental...

6 November - 9 November 2023

Preparation of genomics libraries for an emerging next-gen sequencing platform

Vladimir Benes, Bjorn Textor

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview Course overview This course will focus on the latest state of the art sequencing platform technology and novel library preparation protocols We will start with experimental design focusing on the hands on library preparation including best practices standards and potential pitfalls concluding with... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview Course overview This course will focus on the latest state-of-the-art sequencing platform technology and novel library preparation protocols. We will start with experimental design, focusing on the hands-on library preparation (including best practices, standards, and potential pitfalls), concluding with sequencing of libraries, bioinformatic evaluation & best practice. For this purpose we will use, for the first time ever in the settings of the practical course, the cutting-edge sequencing platform AVITI (https://www.elementbiosciences.com/products/aviti), which was developed by Element Biosciences and is currently entering the next-gen sequencing (NGS) field. An evaluation of the technology in conjunction with the newly developed library preparation reagents by New England Biolabs (NEB) will be...

6 November - 10 November 2023

Solution scattering from biological macromolecules

OverviewSpeakersPreliminary virtual programmePreliminary on site programmePractical informationSponsors Overview Registration is not yet open for this event If you are interested in receiving more information please register your interest Course overview This course consists of two parts a virtual module and an on site module The series of online lectures will take place from 6 10... OverviewSpeakersPreliminary virtual programmePreliminary on-site programmePractical informationSponsors Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview This course consists of two parts: a virtual module and an on-site module. The series of online lectures will take place from 6 – 10 November 2023. In addition to this, a small number of selected students that have completed the virtual module will be offered to take part in the practical component of this course that will take place in Hamburg from 27 November – 1 December 2023. We encourage advanced PhD students, postdocs and junior researchers to apply. The virtual module lectures will cover the basics of SAXS/SANS, instrumentation, data collection, modelling techniques and complementary use with other methods. The students are also...

7 November - 9 November 2023

Managing a bioinformatics core facility

Juanita Riveros

This knowledge exchange workshop is an opportunity for managers of bioinformatics core facilities to learn from EMBL EBI s service teams and from each other These facilities play an essential role in enabling research in the molecular life sciences The landscape is constantly evolving as new research tools emerge as experiments become increasingly data intensive and as their clients experimental researchers become more exposed to the power of data driven biology This course will allow participants to share experiences discuss challenges and solutions that they face and plan ways to cope with the ever changing demands raised by the molecular life science field It will include sessions to learn from bioinformatics service providers hear how others have tackled common problems and work together to design core services resource them and measure their impact A limited number or travel bursaries are available Please see the Additional information tab for conditions... This knowledge exchange workshop is an opportunity for managers of bioinformatics core facilities to learn from EMBL-EBI’s service teams, and from each other. These facilities play an essential role in enabling research in the molecular life sciences. The landscape is constantly evolving as new research tools emerge, as experiments become increasingly data intensive, and as their clients – experimental researchers – become more exposed to the power of data-driven biology. This course will allow participants to share experiences, discuss challenges and solutions that they face, and plan ways to cope with the ever changing demands raised by the molecular life science field. It will include sessions to learn from bioinformatics service providers, hear how others have tackled common problems, and work together to design core services, resource them, and measure their impact. A limited number...

8 November - 11 November 2023

The mobile genome: genetic and physiological impacts of transposable elements

Déborah Bourc’his, Julius Brennecke, Jose L. Garcia-Perez, Susan Wessler

This conference is assembling world leading experts from diverse fields including genomics epigenetics structural biology developmental biology immunology cancer biology and neurobiology to discuss the broad impacts of TEs on organismal biology... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Please see EMBL’s COVID-19 safety recommendations if attending the on-site event. Conference overview This conference assembles world-leading experts from diverse fields including genomics, epigenetics, structural biology, developmental biology, immunology, cancer biology, and neurobiology to discuss the broad impacts of transposable elements (TEs) on organismal biology. The meeting provides a venue for cross-disciplinary discussions, with the goal of catalysing inter-disciplinary collaborations to address emerging questions in these scientific fields. Although often disparaged as “junk” DNA, it is now undeniable that TE activity has significantly shaped the structure and function of all genomes, ranging...

13 November - 17 November 2023

Hands-on flow cytometry: learning by doing!

Daniel Diana Ordonez, Steffen Schmitt

Flow Cytometry is one of the most powerful single cell analysis methods used throughout the life sciences and medicine By utilising Flow Cytometry we can identify and quantify specific cell populations from heterogeneous samples analyse the cell cycle or proliferation state or simply detect the expression of fluorescent reporters In line with the suggestions from our course in 2019 we will significantly enhance the number of analysis sessions together with our partners from FlowJo We will cover the theory of Flow Cytometry and corroborate this information intensively with the practical issues of the most frequent assays as part of our practical course curriculum... OverviewSpeakers and trainersPreliminary programmePractical informationSponsorsMedia kit Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview Flow cytometry is a highly effective method for analysing individual cells that has become widely used in the fields of life sciences and medicine. By utilising flow cytometry, researchers can accurately identify and measure specific cell populations within complex mixtures, as well as assess cell cycle progression, proliferation status, and expression of fluorescent markers. Our course aims to provide a comprehensive understanding of the underlying principles of flow cytometry, while also emphasising practical considerations related to the most frequently used assays. Through a combination of theoretical instruction and hands-on training, students...

15 November - 17 November 2023

Cancer genomics

Isidro Cortes Ciriano, Christina Curtis, Nuria Lopez-Bigas, Young Seok Ju

This meeting will provide an opportunity to learn about and keep up to date with the rapidly progressing area of cancer genomics We aim to bring together scientists from across several disciplines connected with cancer research for a unique opportunity to interact and stimulate further integration of these efforts... OverviewSpeakersProgrammePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Conference overview This meeting will provide an opportunity to learn about and keep up to date with the rapidly progressing area of cancer genomics. We aim to bring together scientists from across several disciplines connected with cancer research, for a unique opportunity to interact and stimulate further integration of these efforts. Highlights include talks from our keynotes Rebecca Fitzgerald (University of Cambridge, UK), Jan Korbel (EMBL Heidelberg, Germany), and 20 other great speakers. Session topics Mutation and clonal selection Cancer evolution Cancer genome medicine Emerging technologies in cancer genomics Genomic instability and mutational processes Cancer ecosystems and micro-environment What past participants...

20 November - 22 November 2023

25th EMBL PhD Symposium

2023 EMBL PhD Symposium Organising Committee

Join us for the 25th Anniversary of the annual EMBL PhD Symposium Since its conception in 1999 the EMBL PhD Symposium has evolved into a highly respected scientific meeting connecting young researchers and high profile scientists alike... If you are not redirected automatically, please go to PhD Symposium website.

20 November - 24 November 2023

Genome bioinformatics: from short- to long-read sequencing

Sophie Spencer

A guide to the technology analysis workflows tools and resources for next generation sequencing data analysis This course will provide insights and training into how biological knowledge can be derived from genomics experiments and explain different approaches in analysing such data The main focus will be on introducing sequence informatics re sequencing and variant calling during the analysis of higher eukaryotes with an emphasis on human genetic research Throughout the week more advanced topics will introduce the creation of pipelines automation and the scaling up of analysis experiments Practical sessions will be run on datasets prepared by the trainers not on personal research data Participants will learn how to process these training datasets and to apply appropriate statistical methods in their analyses... A guide to the technology, analysis workflows, tools, and resources for next generation sequencing data analysis. This course will provide insights and training into how biological knowledge can be derived from genomics experiments and explain different approaches in analysing such data. The main focus will be on introducing sequence informatics, re-sequencing, and variant calling during the analysis of higher-eukaryotes, with an emphasis on human genetic research. Throughout the week, more advanced topics will introduce the creation of pipelines, automation, and the scaling-up of analysis experiments. Practical sessions will be run on datasets prepared by the trainers, not on personal research data. Participants will learn how to process these training datasets and to apply appropriate statistical methods in their analyses.

28 November - 1 December 2023

Subcortical sensory circuits: visual, auditory, somatosensory, and beyond

Hiroki Asari, Martha Bickford, Carl Petersen, Santiago Rompani

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Conference overview Subcortical sensory circuits play a fundamental role in the perception of the outside world However they are often thought of as relay stations that passively transmit sensory information to... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Conference overview Subcortical sensory circuits play a fundamental role in the perception of the outside world. However, they are often thought of as relay stations that passively transmit sensory information to the cortex or simple effectors of behavioral reflexes. Recent studies, however, suggest that subcortical pathways also perform sophisticated computations, such as integrating peripheral information among many sensory pathways and the animal’s internal states. This meeting will gather leading researchers in the field to discuss different subcortical circuits involving various sensory modalities and revisit their increasingly complex and interconnected contributions to perception, behavior, and cognition....

4 December - 8 December 2023

Fundamentals of widefield and confocal microscopy and imaging

Heiko Gaethje, Aliaksandr Halavatyi, Stefan Marawske, Jens Marquardt

OverviewSponsors Overview Registration is not yet open for this event If you are interested in receiving more information please register your interest Course overview Light microscopy is the most widely used form of microscopy for life science research The correct handling of the microscope and optimising image quality e g contrast resolution as well as experimental design... OverviewSponsors Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview Light microscopy is the most widely used form of microscopy for life science research. The correct handling of the microscope and optimising image quality (e.g. contrast, resolution) as well as experimental design according to different applications are crucial to obtain the best results. This course will provide the participants with an overview about the basics of microscopy (light and optics, contrast techniques and imaging). The confocal part will include multicolor, 3D and time lapse imaging as well as spectral imaging, photobleaching (FRAP, FLIP, FLAP) and photoactivation techniques. Basic image analysis tools including measurement functions, colocalisation and spectral unmixing as well as 3D/4D image processing...

6 December - 9 December 2023

Computational structural biology

Jan Kosinski, Rommie Amaro, Christine Orengo, Sameer Velankar

OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Conference overview The field of computational structural biology is undergoing a revolution AlphaFold a program based on Artificial Intelligence AI has transformed the structural modeling of proteins and protein... OverviewSpeakersPreliminary programmePractical informationSponsorsMedia kit Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Conference overview The field of computational structural biology is undergoing a revolution. AlphaFold, a program based on Artificial Intelligence (AI), has transformed the structural modeling of proteins and protein complexes by reaching accuracy similar to experimental structures. Over 200 million structural models have already been released in AlphaFold Database. Following AlphaFold, other protein modeling programs proliferated from researchers worldwide. AI has started advancing RNA modeling too. The wealth of protein models has sparked an explosion of new tools for structural analysis and structure-based function assignment. Scientists from other fields, such as system biology, incorporate AI-based structure...

22 January - 26 January 2024

Exploratory analysis of biological data: data carpentry

Renato Alves, Lisanna Paladin, Fotis E. Psomopoulos, Christian Schudoma

This hands on workshop teaches researchers the fundamental data skills they need to conduct their work and provides high quality domain specific training covering the full lifecycle of data driven research... Overview Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview The missing step between data collection and research progress is a lack of training for researchers in crucial skills for effectively managing and analysing large amounts of data. This hands-on workshop teaches researchers the fundamental data skills they need to conduct their work and provides high-quality, domain-specific training covering the full lifecycle of data-driven research. The domain-specific approach allows participants to tailor the data, content, and tools to reflect the specific data and analysis needs of different areas. Audience The course is aimed at graduate students and other researchers in the life sciences who would like to learn good practices in data management and analysis. The course is ideally suited...

29 January - 31 January 2024

Cryo-EM in academia and industry

Edward Avenell, Chun-wa Chung, Simone Mattei, Christoph Mueller, Chiara Rapisarda

OverviewSpeakersPreliminary programmePractical informationSponsors Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Conference overview The second edition of this workshop aims to bring the academic and industrial cryo EM communities together to evaluate how the use of cryo EM has developed 10 years on from the cryo EM resolution... OverviewSpeakersPreliminary programmePractical informationSponsors Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Conference overview The second edition of this workshop aims to bring the academic and industrial cryo-EM communities together to evaluate how the use of cryo-EM has developed 10 years on from the “cryo-EM resolution revolution” and build upon the successful first edition held at EMBL in 2019. Showcasing high-quality research in academia and industry relevant and exemplary for both cryo-EM communities, the meeting will provide updates on recent and ongoing methodological developments. A particular focus will be the integration of cryo-ET and cryo-EM with complementary imaging techniques, e.g. imaging across scales as well as other ‘omics’ technologies such as proteomics, genomics, and metabolomics. The integration of cryo-EM...

4 February - 9 February 2024

Analysis and integration of transcriptome and proteome data

Vladimir Benes, Raffaele Calogero, Jeroen Krijgsveld, Lennard Martens

OverviewSponsors Overview Registration is not yet open for this event If you are interested in receiving more information please register your interest Course overview Systems biology is a still expanding field of research aiming to understand at the molecular level how cells tissues and organisms operate in their biological context Among the key technologies driving this forward... OverviewSponsors Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview Systems biology is a still expanding field of research aiming to understand at the molecular level how cells, tissues and organisms operate in their biological context. Among the key technologies driving this forward are next-generation sequencing and proteomics, as they provide powerful means to determine global expression levels of genes and proteins. Both fields have matured to a degree that they have now become accessible to researchers in many areas of biology. During this course, participants will gain theoretical insight in the structure of sequencing and proteomic data, and they will receive training in data analysis for the annotation, quantification, and statistical analysis of gene and protein expression using...

12 February - 16 February 2024

Introduction to RNA-seq and functional interpretation

Jane Reynolds

Overview Gain an introduction to the technology data analysis tools and resources used in RNA sequencing and transcriptomics The content will provide a broad overview of the subject area and introduce participants to basic analysis of transcriptomics data using the command line It will also highlight key public data repositories and methodologies that can be used to start the biological interpretation of expression data Topics will be delivered using a mixture of lectures practical exercises and open discussions Computational work during the course will use small example data sets and there will be no opportunity to analyse personal data Virtual course Participants will learn via a mix of pre recorded lectures live presentations and trainer Q A sessions Practical experience will be developed through group activities and trainer led computational exercises Live sessions will be delivered using Zoom with additional support and asynchronous communication via Slack Pre recorded material may be provided before the course starts that participants will need to watch read or work through to gain the most out of the actual training event In the week before the course there will be a brief induction session Computational practicals will run on EMBL EBI s virtual training infrastructure meaning participants will not require access to a powerful computer or install complex software on their own machines Participants will need to be available between the hours of 09 00 16 00 hrs GMT each day of the course Trainers will be available to assist answer questions and provide further explanations during these times This course is currently under development please check back again soon for further details... Overview Gain an introduction to the technology, data analysis, tools, and resources used in RNA sequencing and transcriptomics. The content will provide a broad overview of the subject area, and introduce participants to basic analysis of transcriptomics data using the command line. It will also highlight key public data repositories and methodologies that can be used to start the biological interpretation of expression data. Topics will be delivered using a mixture of lectures, practical exercises, and open discussions. Computational work during the course will use small, example data-sets; and there will be no opportunity to analyse personal data.   Virtual course Participants will learn via a mix of pre-recorded lectures, live presentations, and trainer Q&A sessions. Practical experience will be developed through group activities and trainer-led computational exercises. Live...

19 February - 23 February 2024

Exploring gene and environmental exposure interactions to understand human health and disease

Sophie Spencer

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

20 February - 23 February 2024

The new cardiobiology

Pilar Alcaide, Johannes Backs, Tina Haase, Enzo Porrello

OverviewSponsors Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Please see EMBL s COVID 19 safety recommendations if attending the on site event Registration is not yet open for this event If you are interested in receiving more information please register your interest Conference overview The cardiovascular system is a multicellular... OverviewSponsors Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Please see EMBL’s COVID-19 safety recommendations if attending the on-site event. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Conference overview The cardiovascular system is a multicellular and disseminated organ consisting of the heart, a network of vessels and circulating blood, thereby forming an intricately interdependent system, whose dysfunction is the leading cause of human mortality. Despite translational progress with impactful new interventional and pharmacological therapies, cardiovascular dysfunction continues to plague mankind. The current therapeutic approaches are either organ-centric or tackle the consequences of end-stage cardiovascular disease (CVD). New basic research...

4 March - 8 March 2024

Introduction to multiomics data integration and visualisation

Meredith Willmott

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

11 March - 15 March 2024

Mathematics of life: modelling molecular mechanisms

Jane Reynolds

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

12 March - 15 March 2024

AI and biology

Mohammed AlQuraishi, Wolfgang Huber, Anna Kreshuk, Emma Lundberg, Oliver Stegle

The aim of this symposium is to catalyse synergistic interactions between AI researchers in different subfields of biology by exploring shared theoretical approaches cross domain experiments and data integration as well as shared topics in dissemination of tools and collaboration with colleagues in experimental labs... OverviewSpeakersSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview Artificial intelligence (AI) is transforming virtually all areas of science, and the life sciences are no exception. AI-based methods are pushing the limits of what is possible in experiment design, data analysis, and modelling. The aim of this symposium is to catalyse synergistic interactions between AI researchers in different subfields of biology by exploring shared theoretical approaches, cross-domain experiments and data integration, as well as shared topics in dissemination of tools and collaboration with colleagues in experimental labs.  Furthermore, we will look into the future and discuss how the...

18 March - 22 March 2024

Protein quality control for downstream processes

Karine Lapouge, Kim Remans

OverviewSponsors Overview Registration is not yet open for this event If you are interested in receiving more information please register your interest Course overview Purified proteins are used in various types of scientific experiments and fields For example in structural biology insights into the functional mechanisms can be obtained by elucidating the 3D molecular structure of... OverviewSponsors Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview Purified proteins are used in various types of scientific experiments and fields. For example, in structural biology insights into the functional mechanisms can be obtained by elucidating the 3D molecular structure of proteins and protein complexes using technologies such as X-ray crystallography, cryo-EM and NMR. In biochemistry and biophysics, interactions with other proteins, nucleic acids and small molecules can be studied by determining affinities and specificities. Proteins can function as antigens to generate specific antibodies or as reagents in cell biology experiments. Furthermore, recombinant proteins can be used as tool molecules in genomics, chemical biology and microscopy assays. In order for these...

18 March - 23 March 2024

Livestock genomics

Sophie Spencer

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

19 March - 22 March 2024

Biological oscillators – rhythms and synchronisation across scales

OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Registration is not yet open for this event If you are interested in receiving more information please register your interest What past participants say about the Symposium As a first time attendant at EMBL conference on Biological oscillations I found the... OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. What past participants say about the Symposium “As a first-time attendant at EMBL conference on Biological oscillations, I found the event exceptionally excellent! As an interdisciplinary researcher I learned about so many diverse topics, and I was even offered a possible postdoc position!” – Hamed Yeganegi, Chair of Zoology, TUM Munich and GSN, LMU Munich, Germany “It was an exciting conference where new research, unexpected results, and profound analysis were presented. In addition, very bold hypotheses were discussed. As a result, I have new ideas for further research and possible collaborations.” – Nancy...

3 April - 5 April 2024

Exploring human genetic variation

Juanita Riveros

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

8 April - 12 April 2024

Data-driven approaches to understanding dementia

Meredith Willmott

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

8 April - 12 April 2024

scATAC-seq: Attacking open chromatin in single cells

Vladimir Benes, Ulrike Litzenburger, Judith Zaugg

ATAC Seq stands for Assay of Transposase Accessible Chromatin and is a widespread method to profile open chromatin on a genome scale The goal of this introductory course is to teach the entire workflow of a single cell and bulk ATAC Seq experiment including library preparation sequencing data processing and downstream analysis by addressing a real biological question that will be answered at the end of the course... OverviewSponsors Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview ATAC-Seq stands for Assay of Transposase Accessible Chromatin and is a widespread method to profile open chromatin on a genome-scale. The goal of this introductory course is to teach the entire workflow of a single-cell and bulk ATAC-Seq experiment including library preparation, sequencing, data processing, and downstream analysis by addressing a real biological question that will be answered at the end of the course. We will start with the experimental single-cell and bulk ATAC-Seq protocol, highlighting the critical steps, potential pitfalls, and the most up-to-date tweaks to improve the quality of the results. After sequencing the samples we will go through the basic quality control and preprocessing steps using...

9 April - 12 April 2024

Diversity of plants: from genomes to metabolism

Barbara Ann Halkier, Sarah E. O’Connor, Detlef Weigel

OverviewSpeakersSponsorsAbout Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Please see EMBL s COVID 19 safety recommendations if attending the on site event Registration is not yet open for this event If you are interested in receiving more information please register your interest Symposium overview This inaugural EMBO EMBL... OverviewSpeakersSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Please see EMBL’s COVID-19 safety recommendations if attending the on-site event. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview This inaugural EMBO | EMBL Symposium aims to showcase the future of plant biology. Going beyond the limited number of model plants that plant biologists have historically focused on (e.g. Arabidopsis, corn, rice), it is nowadays possible to use comparative approaches to uncover the mechanistic basis and the evolutionary drive for the enormous phenotypic variation among the 400,000 species of plants on Earth. Europe has a large and thriving community of plant biologists, with particular expertise in plant diversity at the...

15 April - 18 April 2024

The mechanics of life: from development to disease

Prisca Liberali, Nicoletta Petridou, Amy Shyer, Andela Saric, Xavier Trepat

OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Registration is not yet open for this event If you are interested in receiving more information please register your interest Symposium overview Environmental mechanics impact the behaviour of cells which in turn modify their surroundings These bi directional cell... OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview Environmental mechanics impact the behaviour of cells, which in turn modify their surroundings. These bi-directional cell-tissue interactions have important consequences for gene expression, cell fate and function and give rise to transient and permanent tissue modifications. These processes are key for immunity and homeostasis, but also play a role in pathological processes as they are critical for fibrosis, inflammation and cancer metastasis. This symposium will focus on the interplay of cells with their environment and will bring together clinicians, cell biologists and material scientists interested in mechanobiology at...

22 April - 26 April 2024

Microscopy data analysis: machine learning and the BioImage Archive

Jane Reynolds

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

22 April - 26 April 2024

Fundamentals of widefield and confocal microscopy and imaging

Heiko Gaethje, Jens Marquard

This course will provide the participants with an overview of the basics of microscopy light and optics contrast techniques and imaging... OverviewSponsors Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview Light microscopy is the most widely used form of microscopy for life science research. The correct handling of the microscope and optimising image quality (e.g. contrast, resolution) as well as experimental design according to different applications are crucial to obtain the best results. This course will provide the participants with an overview of the basics of microscopy (light and optics, contrast techniques and imaging). The confocal part will include multicolour, 3D, and time-lapse imaging as well as spectral imaging, photobleaching (FRAP, FLIP, FLAP) and photoactivation techniques. Basic image analysis tools including measurement functions, colocalisation, and spectral unmixing as well as 3D/4D image processing...

23 April - 26 April 2024

Organismal physiology

Gerard Karsenty, Irene Miguel-Aliaga, Asya Rolls, Miguel Soares

This symposium aims to provide a high visibility platform to scientists from multiple disciplines who use molecular genetic tools to probe inter organ communication signals that maintain homeostasis It will also directly address a fundamental and long term goal of the study of physiology how can recent developments in whole organism physiology pave the way to novel adapted and efficient therapies for multiple degenerative diseases... OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview “Like a machine, any organism, even the simplest, is a functional unit, coherent and integrated. We are far from having elucidated, in complex organisms, the entire structure of these functional units”. A major outcome of research using model organisms has been to address this central question of biology that was stated so clearly and candidly by J. Monod in 1969. Genetic studies in model organism have first revealed that we are far from knowing all the functions fulfilled by various organs in vertebrates or invertebrates. In doing so, this body of work has nonetheless led to unprecedented progress in our understanding of how...

6 May - 8 May 2024

Building networks: engineering in vascular biology

Maria Bernabeu, Claudio Franco, Stephan Huveneers, Milica Radisic

In this meeting we intend to bring together vascular biologists and bioengineers from across the world to build research synergies to tackle long standing questions in the field of vascular biology... OverviewSponsors Overview This conference will take place at EMBL Barcelona. Conference overview Blood vessels are essential for the formation and maintenance of larger tissues and organs. The vascular system regulates exchange of oxygen, nutrients and immune cells – the dysfunction of which can cause severe pathologies. Mouse models, genetics and histology of human samples, coupled with recent advances in imaging, single-cell approaches and computational modelling, have provided significant knowledge to the field of vascular biology. Yet, in vivo models are highly complex and often need to be combined with simpler in vitro studies to get mechanistic and molecular insights. Growth of in vitro blood vessels presents numerous research challenges due to their complex 3D geometry, and a strong coupling between biology and mechanics. Recent advances in microfluidic and 3D bioprinting...

8 May - 10 May 2024

Bioinformatics resources for protein biology

Sophie Spencer

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

12 May - 17 May 2024

Advanced fluorescence imaging techniques

This practical course will cover advanced light microscopy techniques and participants will learn how to derive qualitative and quantitative insights on molecular mechanisms in cells and developing organisms Invited guest researchers together with experts from the EMBL and microscopy professionals will foster an intense information flow with a balance of lectures and practical workshops The focus of the course will be on the use of fluorescence microscopy to obtain information about protein localisation dynamics and functions at different spatial scales... OverviewSponsors Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview This practical course will cover advanced light microscopy techniques and participants will learn how to derive qualitative and quantitative insights on molecular mechanisms in cells and developing organisms. Invited guest researchers together with microscopy experts from EMBL will foster an intense information flow with a balance of lectures and practical workshops. The focus of the course will be on the use of fluorescence microscopy to obtain information about localisation and functions of proteins and other bio-molecules at different spatial scales. Audience This course is directed towards researchers in the life sciences with access to light microscopy equipment, who have an immediate need to apply the techniques...

13 May - 17 May 2024

Introduction to metabolomics analysis

Meredith Willmott

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

14 May - 17 May 2024

Cellular mechanisms driven by phase separation

This conference will bring together scientists from soft matter polymer physics molecular biology structural biology and cell and developmental biology to study condensates in biology and disease... OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview Phase separation is emerging as a common biophysical basis underlying many important cellular functions. This conference will bring together scientists from soft matter, polymer physics, molecular biology, structural biology, and cell and developmental biology to study condensates in biology and disease. Goals are to increase the awareness how important phase separation is for our understanding of many biological processes to explore the large repertoire of new tools generated by other disciplines that are ripe to be applied to complex problems related to phase separation to close the gap in transdisciplinary training to...

3 June - 7 June 2024

Systems biology: from large datasets to biological insight

Juanita Riveros

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

5 June - 8 June 2024

Microtubules: from atoms to complex systems

Carsten Janke, Thomas Müller-Reichert, Shinsuke Niwa, Kassandra Ori-Mckenney

In recent years interdisciplinary approaches embracing cell biology genetics molecular biology biochemistry biophysics structural biology and mathematical modelling have made a tremendous impact on the microtubule field... OverviewSpeakersSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview The microtubule cytoskeleton is essential for a wide variety of cellular functions, such as chromosome segregation, directed vesicle and organelle transport, cell motility and cell polarity. Impaired microtubule function can lead to human diseases including cancer and neurodegenerative disorders, where microtubules serve as important therapeutic targets. In recent years, interdisciplinary approaches embracing cell biology, genetics, molecular biology, biochemistry, biophysics, structural biology and mathematical modelling have made a tremendous impact on microtubule research. The progressive diversification of the...

11 June - 13 June 2024

Bioinformatics for principal investigators

Jane Reynolds

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

17 June - 21 June 2024

Summer school in bioinformatics

Sophie Spencer

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

18 June - 21 June 2024

Innate immunity in host-pathogen interactions

Gordon Brown, Michaela Gack, Felix Randow, Dominique Soldati-Favre, Cyril Zipfel

OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Registration is not yet open for this event If you are interested in receiving more information please register your interest Symposium overview This symposium provides a discussion platform for all scientists interested in the biology of infection Cell biologists... OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview This symposium provides a discussion platform for all scientists interested in the biology of infection. Cell biologists, microbiologists and immunologists will discuss in joint sessions recent progress in our understanding of host-pathogen interactions. Talks will focus on common processes, rather than particular infectious agents or host cell types, and the strategies of all major types of pathogens in their interaction with plants and animals will be covered. A better understanding of infectious diseases will come from the simultaneous analysis of microbial and host variables, which may open new avenues for treatment and...

24 June - 28 June 2024

Cancer genomics and transcriptomics

Meredith Willmott

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

1 July - 5 July 2024

Bioinformatics for immunologists

Jane Reynolds

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

15 July - 19 July 2024

Proteomics bioinformatics

Sophie Spencer

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

19 August - 26 August 2024

Advances in cryo-electron microscopy and 3D image processing

Julia Mahamid, Sebastian Eustermann, Simone Mattei, Lori Passmore, Henning Stahlberg

This course provides the theoretical and practical foundations of advanced cryoEM techniques from sample preparation to data collection to image processing... OverviewSponsors Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview Cryo-electron microscopy (cryoEM) has become the method of choice for determining atomic-level structures of large and flexible macromolecular assemblies that are notoriously difficult to study by other techniques. In addition, it has unique capabilities for obtaining structural information in situ, within complex (cellular) environments, and to deal with biologically heterogeneous samples. With the advent of the cryoEM “resolution revolution”, the method has undergone a tremendous growth in user base. Yet, the underlying methods are complex and under constant development. Therefore, in depth advanced training is essential to ensure future generations can adapt emerging technologies to expand into new areas of biological...

24 August - 27 August 2024

Transcription and chromatin

Shelley Berger, Eileen Furlong, Luca Giorgetti, Jürg Müller

The meeting brings together leading experts covering all aspects of transcription including cis regulatory function long range regulation 3 dimensional looping the basal transcriptional machinery RNA polymerase regulation and function nucleosome positioning chromatin modifications chromatin remodelling and epigenetic inheritance of transcriptional silencing... OverviewSponsors Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Conference overview The EMBL Transcription and Chromatin meeting has a long-standing tradition in shaping the field of transcriptional regulation. The meeting brings together leading experts covering all aspects of transcription including cis-regulatory function, long range regulation, 3-dimensional looping, the basal transcriptional machinery, RNA polymerase regulation and function, nucleosome positioning, chromatin modifications, chromatin remodelling, and epigenetic inheritance of transcriptional silencing. The meeting contains many talks selected from the abstracts that are interspersed with invited speakers, discussing the latest breakthroughs...

1 September - 10 September 2024

Current methods in cell biology

Niccolò Banterle, Beth Cimini, Simone Koehler

The course aims to expose researchers with different backgrounds to the diverse cutting edge methods developed for cell biology to showcase how integrated approaches can address the current big questions in cell biology... OverviewSponsors Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Course overview The aim of the “Current methods in Cell Biology” course is to teach participants to use modern cell biology to answer outstanding questions at the frontiers of cell biology. Following the long-standing tradition of the course, the entire faculty of the Cell Biology and Biophysics Unit of EMBL will teach the course. The expertise of the EMBL faculty will be complemented by external experts. The course will thus teach participants a comprehensive palette of the latest techniques. The hands-on experience gained in the course will provide the participants the knowledge on how to combine different state-of the art tools to obtain the orthogonal information necessary to disentangle key biological questions in the...

9 September - 12 September 2024

Chemical biology 2024

Yimon Aye, Bryan Dickinson, Maja Köhn

OverviewSponsors Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Registration is not yet open for this event If you are interested in receiving more information please register your interest Conference overview The conference sets the stage for the dissemination and exchange of new developments in diverse hot fields within chemical... OverviewSponsors Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Conference overview The conference sets the stage for the dissemination and exchange of new developments in diverse, hot fields within chemical biology. It is the largest and longest standing conference in the field, being a platform for inspiration, collaboration and networking for researchers in academia and industry. We aim to provide the possibility for every chemical biologist to meet and discuss with peers on topics ranging from tool development to biological applications, from computational drug design to synthetic chemistry. Session topics Drug and target discovery Genetically-encoded biosensors Structure-function relations in chemical...

17 September - 20 September 2024

Reconstructing the human past: using ancient and modern genomics

Johannes Krause, Ida Moltke, Maanasa Raghavan, Pontus Skoglund

Combining genome wide data from ancient and modern populations opens new windows into the past Population scale sequencing projects investigating past and present human diversity have already provided us with extraordinary insights into patterns of human variation and mobility through time and space This meeting will involve scientists from population genetics bioinformatics microbiology anthropology archaeology and history and will strengthen future interactions in this young research field that is already changing the way we think about our past and will shape how we study genetic variation in the future... OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview Combining genome-wide data from ancient and modern populations opens new windows into the past. Population-scale sequencing projects investigating past and present human diversity have provided us with extraordinary insights into patterns of human variation and mobility through time and space. The integration of archaeological evidence and historical records with genomic data elucidates aspects of human history and the cultural evolution of past societies. Additionally, genome-wide data from archaic human remains, such as Neandertals and Denisovans, enable investigations of human evolution in action and provide direct...

23 September - 27 September 2024

Single-cell RNA-seq analysis with Python

Jane Reynolds

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

23 September - 27 September 2024

Metagenomics bioinformatics at MGnify

Meredith Willmott

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

30 September - 3 October 2024

Defining and defeating metastasis

Eduard Batlle, Johanna Joyce, Daniel Klimmeck, Joan Massagué, Samra Turajlic

This symposium will bring together researchers from diverse fields to enhance our understanding of the dissemination and metastatic colonisation of tumour cells It will provide a unique opportunity for interdisciplinary exchange on current approaches and future collaborations on metastasis and its therapeutic challenges... OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview This symposium will bring together researchers from diverse fields to enhance our understanding of the dissemination and metastatic colonisation of tumour cells. It will provide a unique opportunity for interdisciplinary exchange on current approaches and future collaborations on metastasis and its therapeutic challenges. What past participants say about the Symposium “The ‘Defining and Defeating Metastasis’ Symposium was probably the best conference I have attended during my PhD. Engaging speakers, new science, and plenty of opportunity to network and socialise – all a stone’s throw from the...

8 October - 11 October 2024

Molecular mechanisms in evolution and ecology

Gilles Fischer, Jordi van Gestel, Kimberley Kline, Sara Mitri, Antonis Rokas

This conference series has become known for exploring yeasts as models to study questions of general relevance to evolution and ecology Experts will speak on a range of topics including evolution theory ecology genetics cell biology genomics systems biology metabolic modelling and engineering... OverviewSponsors Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Conference overview This conference series has become known for exploring yeasts as models to study questions of general relevance to evolution and ecology. Experts will speak on a range of topics, including evolution theory, ecology, genetics, cell biology, genomics, systems biology, metabolic modelling, and engineering. What past participants say about the conference “An incredibly interesting and well-organised event, not only from the scientific side but also on the technical part. As expected from other editions of the meeting, the science was amazing and very variegated. Kudos for the organisation and for the unusually high number of young...

15 October - 18 October 2024

The complex life of RNA

This symposium brings together leaders in the RNA field post docs and students with the aim of disseminating and discussing the most recent findings of information added to mRNAs The programme will include among others sessions on transcription RNA processing and modification mRNA export and localisation mRNA surveillance and decay translation and the control of mRNA expression by microRNAs... OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview Before the genetic information stored in DNA can be used to direct cell growth and metabolism, it has to be transferred into RNA. Messenger RNAs (mRNAs) that code for proteins and noncoding RNAs are key components in the transmission of genetic information in all life forms – from viruses to complex mammalian organisms. Exciting recent findings now reveal a new layer of information added to RNAs in the form of chemical marks (the epitranscriptome) that play a critical role in gene expression control. Following the great success of the 2022 edition of this long-standing symposium, we are looking forward to returning in 2024,...

29 October - 31 October 2024

Managing a bioinformatics core facility

Jane Reynolds

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

4 November - 8 November 2024

Structural bioinformatics

Juanita Riveros

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

5 November - 8 November 2024

DNA replication: from basic biology to disease

Anja Groth, Thanos Halazonetis, Helle Ulrich

OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg with the option to attend virtually Registration is not yet open for this event If you are interested in receiving more information please register your interest Symposium overview There has been tremendous progress in the past few years regarding our understanding of DNA replication in eukaryotes... OverviewSponsorsAbout Overview This conference will take place at EMBL Heidelberg, with the option to attend virtually. Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Symposium overview There has been tremendous progress in the past few years regarding our understanding of DNA replication in eukaryotes, both yeast and mammals. Many important questions in the field are poised to be answered within the next decade. These include understanding DNA replication at the biochemical and three-dimensional protein structure levels. In addition, studies using high throughput technologies at the cellular and organismal levels are poised to answer how accurate replication of the genome is ensured by controlling origin firing in space and time. Several human diseases, including cancer, have already been linked to DNA...

14 November - 15 November 2024

The next generation in infection biology

Maria Bernabeu, Jan Kosinski, Eva Kowalinski, John Lees, Lizette de Paula, Nassos Typas

Infectious diseases are among the most prevalent causes of human illness and death in the world Pathogens infect humans and all life forms on Earth being able to cross species barriers thereby adversely impacting human and planetary health Fundamental research in Infection Biology is urgently needed to find therapies for longstanding and emerging infectious diseases... OverviewSponsors Overview Registration is not yet open for this event. If you are interested in receiving more information please register your interest. Conference overview Infectious diseases are among the most prevalent causes of human illness and death in the world. Pathogens infect humans and all life forms on Earth, being able to cross species barriers, thereby adversely impacting human and planetary health. Fundamental research in Infection Biology is urgently needed to find therapies for longstanding and emerging infectious diseases.   The EMBL Conference ‘The Next Generation in Infection Biology’ is a platform for late-stage postdoctoral scientists in the field of infection biology to present their work and connect with the leading European institutions in infection biology. The speakers will be chosen for their track record of research accomplishments and...

18 November - 22 November 2024

Genome bioinformatics: from short- to long-read sequencing

Meredith Willmott

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.

18 November - 22 November 2024

Plant genomes: from data to discovery

Sophie Spencer

This course is currently under development please check back again soon for further details... This course is currently under development, please check back again soon for further details.