EMBL-EBI Training website: one year on

A profile picture of Anna Swan is shown


Author
: Anna Swan, Scientific Training Officer, e-learning at EMBL-EBI.

 


In February 2021, we launched the new EMBL-EBI Training website. Read more about that in our previous blog post.

Since then we’ve had over 600,000 visitors from around the world using the site to discover our live courses and learn from our on-demand training.

What does EMBL-EBI Training’s site offer?

  • Listings and registration pages for all of our live training, including face-to-face courses and webinars
  • Access to on-demand training, such as self-paced online tutorials and recorded webinars that are available anytime, anywhere
  • A simple search box on the homepage to help you search for training on a topic of interest
  • Support for trainers in using our materials and expanding their training skills
A screen shot of the EMBL-EBI training homepage
The homepage allows users to search and browse for training of interest.

What’s new since we launched in 2021?

After releasing the new site, we continued with further development. In line with EMBL’s mission to provide the world with #OpenData, we now provide sets of course materials from live courses, open to everyone, not just those that attended. You can find these in the on-demand section of the website.

Course materials can be in a variety of formats: lecture recordings, slides and practical instructions.

A screen shot of EMBL-EBI training, on-demand listings
Sets of course materials are now listed in our on-demand section – available for you to access anytime.

The materials are presented with overviews and learning objectives for each session of the course and are searchable to help you find the specific materials that are of use to you.

Not only that, all sets of course materials are labelled CC-BY, so you can use them for your own learning, or to train others. We encourage you to use our training far and wide.

As we continue to run live courses, the materials will be updated with the latest science and analysis methods to help you stay up to date.

A screenshot of the EMBL-EBI course website for bioinformatics for immunologists and its course materials
There are a range of topics covered by our course materials, including bioinformatics for immunologists.

What’s new for 2022?

With the site now a place many people come to find and complete learning, our next focus is on the community around bioinformatics training and learning.

If you are someone who teaches about EMBL-EBI resources, we’re keen to hear from you! Complete our short survey to join our community focus group.

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10 tips on how to make your virtual conference sponsorship a success!

For the past year, due to the COVID-19 pandemic, virtual sponsorship has become the norm rather than the exception at scientific conferences. With most events taking place exclusively virtually, companies are seeking alternative ways to stay connected to their users and potential customers. One way is supporting a scientific conference as a virtual sponsor and companies have increasingly been taking advantage of the benefits these packages offer. Undeniably, sponsoring a virtual conference is an entirely different experience from sponsorship at in-person meetings. Therefore, based on a year of experience, we have put together a list of tips and tricks to help you make the best out of your virtual sponsorship.

1. Define your goals and set priorities

Sponsorship goals may vary from company to company. While one company may aim for wider brand recognition, others may look for ways to generate leads or introduce a new product. Taking this step back to reflect on your goals will help you choose the best package for your needs and define your overall approach to achieve these goals.

2. Find out more about the virtual event platform

There are various virtual conference programs in use throughout the event industry. Inquire in advance about the software features that are relevant to your goals and do not shy away from asking the organisers about what worked previously and what didn’t. We pursue open communication with our sponsors and are happy to clarify all details in advance.

3. Choose your sponsorship package

Now that you have set your goals and know more about the virtual event platform, it is time to select the most suitable sponsorship package – it can either be a set package or one specifically tailored to your needs. Get in touch with the organisers to discuss the options.

4. Get ready for the event

Depending on the package you book and the opportunities the virtual conference platform offers, prepare all the necessary materials and content. For instance, if your goal is to generate more leads, prepare a sign-up form on your webpage and link your virtual booth to it. Keep in mind the deadlines so as not to miss any networking opportunities with the attendees.

5. Be creative

Understanding the format and the needs of the virtual audience is essential for your success. We now know that more interpersonal interaction and networking is something that many participants wish for at virtual events. You could address this need by offering quizzes or games at your booth with the chance to win prizes such as attractive merchandise products, discounts, or vouchers. Many of our participants are interested in career opportunities, so this is also a good way to engage them.

6. Highlight your sponsorship

Your participation at the virtual conference is not only a possibility to reach out to attendees but also the opportunity to create digital marketing content for your own audience. You can highlight your sponsorship and your support of the scientific community in your social media, newsletters, and website posts. Make sure to use the event hashtag in your post and don’t hesitate to ask us to provide you with the event visual.

7. Be curious, get involved

Take an active part in the conference, visit talks and posters to understand the participants’ research-associated needs and problems. This way you will be able to offer suitable solutions by your company.

8. Use networking opportunities

Your participation at networking activities can be the first step in engaging virtual participants. This is important to gain visibility and could encourage more visits to your booth. Make use of as many conference platform features as possible for better networking, e.g. fill out your profile, write about your interests and put in relevant keywords for better searchability. If you are interested in meeting specific people, request a virtual meeting with them via the platform. Once you’ve made a new acquaintance, do not forget to send them your virtual business card.

9. Request analytics

After the conference, do not hesitate to ask the organisers to provide you with some post-event analytics. For data privacy reasons, no personal details can be shared, but you can still get some anonymised statistics about the traffic at your booth or talk views. This will help you evaluate the success of your campaigns during the conference and will show if you need to make any tweaks for future events.

10. Give feedback to the organisers

For us, virtual conferences are a new domain so we rely heavily on the attendees’ and sponsors’ feedback to help us improve our services and their experience. We are eager to receive your feedback so please do not hesitate to pass this on to us. You can do this by either filling in the feedback surveys circulated at the end of the conference, or communicating it directly to our sponsorship and conference officers. We carefully look into the feedback provided by our sponsors and see which suggestions can be implemented in the future.

In times of restricted face-to-face interaction, it is important to stay in touch with the scientific community. Engaging relevant audiences in the scope of a virtual sponsorship is one way to keep their interest and stay abreast of any research developments. Do you feel ready to give it a go? Get in touch with us or check our sponsorship brochure to find out more about the sponsorship opportunities at our upcoming conferences.

 

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How to get your abstract selected for a short talk

by Nicola Vegiopoulos, EMBL Alumna, marketing expert and pianist

So, you’ve registered for a conference – be it virtual or onsite – and you reeeeeally want to present your work? It’s got everything going for it – it’s a hot topic and you have some great results to show. There’s just one little problem – you haven’t made a name for yourself in the field yet, so of course you haven’t been invited as a speaker. Never fear! There are some short talk speaking slots available. But how are you going to make sure that the abstract you submit is selected for a short talk?

Follow these steps to give yourself an edge over the others, and increase the chances of your abstract being selected to present your work.

  1. Get to the point – quickly

Generally you will have a word limit for your abstract. Don’t waste valuable words making your abstract flowery – enter straight into the subject, your problem or research question. Scientific organisers have to read a lot of abstracts, so make sure you put the most important information at the beginning.

  1. Make sure you answer 4 important questions

– What problem are you addressing and why is it important?
– What methods are you using to research the problem?
– What data have you been able to produce or process?
– What (preliminary) findings will you be able to discuss?

  1. Make it clear why your work is important

Be sure to clearly emphasise the approach and importance of your findings and theorisation. Make a concise statement that outlines the purpose, context, approach and significance of your work.

  1. Clarity, clarity, clarity!

Make sure you give strong conclusions and clear outcomes. Don’t leave anything open to misinterpretation, and make it clear if the work is finished, or at least nearly finished.

  1. Make it relevant to the research field

Outline how your research has made steps forward in the field, and what impact it will have.

  1. Make it relevant to the conference topic

Take a look at the conference programme and relate your work to areas of interest covered at the conference, as well as session titles. Have an idea of which session your short talk could fit into.

  1. Avoid dull titles

Make sure the title is catchy and informative – it will be the first thing that anyone reading your abstract will see, and will also be the topic of your short talk should you be successful in your goal.

  1. Find the balance

It’s not the easiest thing to do, but try to bring across enthusiasm for the topic across whilst remaining professional. This is one of the hardest things to do, so take your time with it and don’t try to do it at the last minute.

  1. Get feedback before submitting

Ask others to read and review your abstract before submitting, for example your colleagues or PI. They can provide you with valuable feedback which you should take on board!

  1. Follow the guidelines

It sounds like a no-brainer, but it’s amazing how many people contact us to ask if they can submit their work after the deadline. Late submissions won’t get considered for a short talk, and there is a chance that they will not be accepted at all. In addition, stick to the word limit, and make sure you include all authors and co-authors in the correct format.

So, to sum it up, aim for precision, linearity of thought, and succinctness, and you‘re in with a good chance of getting selected for a short talk at your next conference.

Original video by EMBL Photolab and EMBL Events, EMBL Heidelberg

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Metagenomics and Ribosome Profiling Smartly Explained

The science behind molecular biology is advancing fast and scientists are eager to create and share new content. But the more content is being created, the harder it is to reach the desired audience. Therefore, the scientific community has had to come up with new attractive formats to help spread valuable scientific content.

One format that is currently popular is explainer videos, which combine both, audio and visual elements to untangle a topic. It has been proved that when one sense is activated we keep part of the information, but with the activation of multiple senses we can process and store far more.

We have therefore created explainer videos as part of our e-learning series.

“It was a great experience working on this project for our virtual courses. We are very fortunate to have Daniel Krüger, a former PhD student creating the graphics for these videos. This immensely improved the communication between the scientific advisers and the graphic designer because they speak the same language,” said EMBL Training Lab Manager Yvonne Yeboah, who came up with the idea of creating the explainer videos and led their production.

The first explainer video we are introducing deals with metagenomics, the genomic analysis of microbes by direct extraction and cloning of DNA, that allows studying communities of organisms directly in their natural environment.

“Our metagenomics course encompasses many different in silico and experimental approaches to understand and gain insights into microbial communities. Therefore, we thought that the visualisation of a video would provide students with an attractive overview that helps to connect and integrate all the aspects covered in the course,” explained José Eduardo González-Pastor, who organised the EMBO Practical Course: Microbial Metagenomics: A 360° Approach and acted as scientific advisor for the videos.

The second explainer video deals with the topic of ribosome profiling, a method that allows researchers to quantitatively analyse translation genome-wide and with high resolution. The video gives a comprehensive overview on how this technique works, what ribosome protected fragments (RPFs) are and what information we can obtain from them.

“Ribosome profiling is still an emerging technology. Therefore, it is great to have a concise summary that explains the method to students. I will certainly use the video for lectures and on my website,” said Sebastian Leidel and Jan Medenbach, both organisers of the EMBO Practical Course: Measuring Translational Dynamics by Ribosome Profiling and scientific advisors for the video.

Visit EMBL’s YouTube channel to find more exciting scientific content.

 

 

 

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Best Poster Awards — Chromatin and Epigenetics

The 10th edition of the EMBL Conference: Chromatin and Epigentics took place virtually this year. We welcomed more than 800 participants, from which 3 were selected best poster award winners prior to the meeting and who gave a short talk on the last day of the conference. Get a glimpse of their research.

Sequence-dependent surface condensation of pioneer transcription factor on DNA

Sina Wittmann, Max Planck Institute for Molecular Cell Biology and Genetics, Germany
Presenter: Sina Wittmann, Max Planck Institute for Molecular Cell Biology and Genetics, Germany

Abstract: Biomolecular condensates are dense assemblies of proteins that are dynamic and provide distinct biochemical compartments without being surrounded by a membrane. Some, such as P granules and stress granules, behave as droplets, have many millions of molecules, and are well described by a classic phase separation picture. Others, such as transcriptional condensates are thought to form on surfaces such as DNA, are small and contain thousands of molecules. However, the correct physical description of small condensates on DNA surfaces is still under discussion. Here we investigate this question using the pioneer transcription factor Klf4. We show that Klf4 can phase separate on its own at concentrations that are above physiological, but that at lower concentrations, Klf4 only forms condensates on DNA. Analysis using optical tweezers shows that these Klf4 condensates form on DNA by a switch-like transition from a thin adsorbed layer to a thick condensed layer that is well described as a prewetting transition on a heterogeneous substrate. Condensate formation of Klf4 on DNA is thus a form of surface condensation mediated by and limited to the DNA surface. Furthermore, we are investigating how Klf4 condensation is regulated by the property of the surface such as through DNA methylation. We speculate that the prewetting transition orchestrated by pioneer transcription factors underlies the formation of transcriptional condensates in cells and provides robustness to transcription regulation.

View poster.

Single-cell profiling of histone post-translational modifications and transcription in mouse and zebrafish differentiation systems

Presenter: Kim de Luca,  Hubrecht Institute, The Netherlands
Presenter: Kim de Luca,  Hubrecht Institute, The Netherlands

Abstract: During organism development and cellular differentiation, gene expression is carefully regulated at many levels. To that end, various epigenetic mechanisms translate cell-intrinsic and -extrinsic cues into activation and repression of the relevant parts of the genome. One of the most studied and versatile forms of epigenetic regulation is the post-translational modification (PTM) of the histone proteins around which DNA is wrapped. Histone PTMs affect the surrounding DNA by forming a binding platform for a range of effector proteins, as well as by directly modulating the biophysical properties of the chromatin. Hence, histone PTMs play a crucial role in priming, establishing, and maintaining transcriptional output and cell state. Many techniques used to study histone PTMs require thousands to millions of cells, and consequently mask the heterogeneity inherent to complex biological systems. To understand the nuanced relationship between chromatin context and transcription, single-cell and multi-modal approaches are necessary. We have previously developed a method to simultaneously measure transcriptional output and DNA-protein contacts by single-cell sequencing (scDam&T). This multi-modal method is particularly suitable for studying systems containing many transient cellular states. Here, we apply scDam&T to measure chromatin modifications by expressing the E. coli DNA adenine methyltransferase (Dam) fused to a domain that specifically recognizes a histone PTM. First, we validate this approach in population and single-cell samples by comparing the resulting data to orthogonal state-of-the-art techniques. Next, using mouse embryoid bodies as an in vitro differentiation system, we apply our method to deconvolve the lineage-specific regulation of Polycomb chromatin. Finally, we study the role of H3K9me3-marked heterochromatin in the developing zebrafish embryo.

Poster not available due to unpublished data, however, you can watch a short talk presentation here.

 

Presenter: Moushumi Das, University of Bern, Switzerland
Presenter: Moushumi Das, University of Bern, Switzerland

Poster and abstract not available due to unpublished data.

 

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