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Grooming a brand new technology of expertise savvy scientists at NMMP2022 Summer time College in Transcriptomics


Lenka Belicova, Valeria Ghezzi.

The place Science meets Know-how – NMMP2022 Summer time College in Transcriptomics

igure 1: Students, speakers, and organizers pose for a group picture.
Determine 1: College students, audio system, and organizers pose for a gaggle image.

In Sweden, the place the solar doesn’t go down in the summertime, the science stays awake!

“57 college students, 20 universities and analysis institutes, 24 nationalities and 1 widespread curiosity: studying extra about omics approaches.”: tweeted Professor Silvia Remeseiro, which along with Professor Claudio Cantù and Professor Andreas Moor co-organized the primary ever NMMP2022 Summer time College in Transcriptomics throughout Growth and Most cancers in a tremendous location of Sandvik Gård.

One of many intriguing options of the Summer time College was a comparatively low ratio between college students and lecturers. Ten top-notch scientists coming from throughout Europe and past helped college students dive right into a broad vary of fascinating matters from latest applied sciences in single cell transcriptomics to 3D group of chromatin.

Science limitless

The four-day program of the Summer time College was filled with thrilling lectures by keynote and invited audio system, insightful “meet the speaker” periods offering a glimpse on the lifetime of scientists, and alternatives to debate college students’ tasks and questions which can be driving them. The Summer time College succeeded in bringing collectively scientists at totally different profession phases from number of fields inspiring each other.

Determine 2: Image of the close by lake taken by Dr. Pierfrancesco Pagella, one of many individuals.

College students had the possibility to take heed to superb lectures given by keynote audio system Prof. Sten Linnarsson, Prof. Johan Elf and Prof. Susan Mango, in addition to those given by the invited audio system: Dr. Yonatan Stelzer, Prof. Anna Alemany, Dr. Shamit Soneji, Prof. Martin Mikl, Prof. Guillaume Andrey, Prof. Magda Bienko and Dr. George Hausmann.

Learn extra about in regards to the audio system and organisers within the “Meet the audio system” paragraph afterward this web page!

Blurring the traces between dry and moist

Many organic questions require computational approaches to be explored in depth. Experimentalists need to discover a widespread language with bioinformaticians and computational scientists and vice versa, which isn’t all the time a straightforward job. The organizers understand it nicely and designed this system with the hope to generate ample alternatives for “moist” and “dry” scientists to change concepts and focus on construct a bridge between these two domains. Certainly, in accordance with the ballot (Fig. 3), the individuals had various experiences from “dry” and “moist” lab, and nearly a fifth was open to transition.

Determine 3: Ballot displaying share of individuals coming from dry, moist or combined labs. Generated with menti.com throughout the Summer time College.

One of many methods to discover a widespread language is to attempt to clarify our tasks to researchers exterior of our speedy area of interest. The scholars tried this throughout a brand new poster session format: the “Non-poster” poster session. For 2 and a half hours, the scholars divided into small teams offered their posters and offered suggestions to one another. The enjoyable half: the tasks have been as totally different because it will get. The scholars left the poster session energized, impressed and prepared to attempt new approaches to their issues. The one criticism they’d: “We have been having fun with it an excessive amount of! Two hours and a half weren’t sufficient!”. We’re positive organizers will take a be aware for the subsequent version of the Summer time College.

Determine 4: Members, across the pool of Sandvik Gård, discussing their impressions after the “Non-poster” poster session.
Image taken by Professor Claudio Cantù.

A dive into information

The science on the Summer time College was on the prime of innovation. For instance, college students acquired to listen to a few new, recent from the press, scRNA-seq expertise VASAsequencing by Prof. Anna Alemany. Many college students offered their tasks on growing the expertise of the longer term we’re wanting ahead to placing in follow in the future.
Maybe probably the most immersive experiences of the way forward for transcriptomics information evaluation was offered by Dr. Shamit Soneji and his group that developed CellexalVR software program. Utilizing digital actuality, college students have been capable of actually dive into single-cell information and visualize the info with a complete new perspective!

Determine 5: Dr. Shamit Soneji (on the fitting) explaining how CellexalVR works with the assistance of Oscar Legetth (on the left), software program engineer in his analysis group.
Image taken by Dr. Pierfrancesco Pagella.

Know-how has its place in organic analysis

One may argue that latest fancy technological developments push us paradoxically additional away from answering organic questions. Lately, this matter ignited a vivid debate on the Node platform and Twitter. The Summer time College was an ideal place to proceed discussing this matter because it united biologists experimentalists on one hand and expertise followers on the opposite. Prof. Magda Bienko, avid fan of technological advances and pioneer in understanding the 3D group of chromatin, added an fascinating angle to the controversy. We should always give sufficient time for the expertise to be developed totally, so all its caveats are addressed earlier than we use it to reply a organic query. If we do it too early, we threat overinterpretation of the outcomes, confusion and distrust in expertise. Know-how has an awesome promise to assist us perceive the world round us, however we must always not rush the method and belief that it’ll ship as soon as optimized correctly.

Consequently, we witnessed a few “conversions” of pure experimentalists prepared to provide a brand new expertise a attempt: “Earlier than the Summer time College, I noticed expertise as one thing that brings me away from the lab work, shedding contact with the magic of seeing biology unfolding in entrance of your eyes. However I noticed that expertise is only a fantastic imply to get a deeper perception into organic mechanisms. Now I can’t wait to return and put my arms on considered one of these superb instruments I discovered about right here!” said one of many early-career-stage college students.

Such realizations don’t come as a shock given the keynote and invited audio system are leaders within the leveraging technological advances to achieve insights into biology and elicited nice enthusiasm in all the
college students current on the Summer time College with their talks.

Meet the audio system

Determine 6: Organizers, keynote and invited audio system with Universities and Institutes of origin. Image created with Inkscape by Valeria Ghezzi.
  • Prof. Sten Linnarsson’s work is shaping the transcriptomics discipline and remodeling our view of the multitude of cells sort that emerge throughout animal growth. Along with his group, he crafted new methods to establish secret messages hidden inside transcriptomics datasets.
  • The work of Prof. Johan Elf is bringing the gene regulation discipline into a brand new dimension, as it’s producing quantitative bodily fashions and organic observations that, when merged, allow to determinate the true habits of molecules.
  • The contributions of Prof. Susan Mango and her group are unimaginable: from figuring out grasp regulators that form cell destiny, to the compelling and nearly counteracting notion that variable environmental circumstances play a non-negligible function on developmental trajectories. She is remodeling C. elegans right into a star of developmental biology.
  • Dr. Yonatan Stelzer’s group is implementing and growing cutting-edge genome- and epigenomeediting instruments along with subtle epigenetic and gene expression reporters on embryonic stem cells and growing mice.
  • Prof. Anna Alemany‘s coaching and scientific manufacturing place her work among the many rising stars within the discipline of single-cell transcription, and the way this can be utilized to know cell-fate dedication. She contributed to growing a brand new scRNA-seq expertise – VASAseq – that provides excessive throughput
    full gene physique read-out with single cell decision.
  • Dr. Shamit Soneji’s group is growing analytical pipelines in a brand new dimension: they just lately developed Digital Actuality instruments to navigate and analyse most subtle datasets. Amongst these instruments, CellexalVR is a platform for visualization and evaluation of single-cell gene expression information.
  • Prof. Martin Mikl works on producing new methods to establish, in a high-throughput and standardized method, the foundations that govern mRNA perform and localization.
  • Prof. Guillaume Andrey is an rising chief within the discipline of the 3D genome, he focuses on the ideological and conceptual innovation of how the genome might be regulated in 3D along with the DNA sequence.
  • Prof. Magda Bienko developed GPseq: a brand new inventive method that enables mapping the radial group of the human genome, revealing new patterns of genomic and epigenomic options, gene expression, and exercise compartmentalization.
  • Dr. George Hausmann has an enviable scientific expertise and writing dexterity: your complete Division of Molecular Life Science in Zurich competes together with his time for assist or session on manuscript design, writing and perfectionism.


  • Prof. Claudio Cantù’s Lab, at Linköping College, is concentrated on discovering the mechanisms of genome regulation that drive specialization throughout embryonic growth utilizing subtle instruments, from mouse genetics to high-throughput state-of-the-art biochemical approaches. The group is concentrated on the so-called ‘Wnt signalling pathway’, a molecular cascade necessary for nearly all elements of growth, and whose deregulation causes human malformations and several other types of aggressive cancers.
  • Prof. Silvia Remeseiro works as a Wallenberg Molecular Drugs Fellow in Umeå College. Her group is especially targeted on how the reprogramming of regulatory areas and topological modifications in 3D chromatin group decide gene dysregulation in glioblastoma, and the way this subsequently contributes to malignancy, heterogeneity and invasiveness.
  • Prof. Andreas Moor works on the Division of Biosystems Science and Engineer, at ETH Zurich, specializing in exploring the way in which through which single cells collaborate inside tissues to realize their widespread features. His group makes use of quantitative approaches to review mobile and subcellular heterogeneity whereas preserving details about the spatial tissue context.

Future is in good arms

The Summer time College was a dream come true for the organizers Claudio Cantù, Silvia Remeseiro and Andreas Moor, lastly happening after the delay brought on by the pandemic. Their hope was to offer related experiences, that formed their scientific considering after they have been trainees, to a subsequent technology.

In all probability, even their wild creativeness was exceeded by the success of this version of the Summer time College: 56 college students from throughout Europe and one, Vasikar Murugapoopathy, from McGill College in Canada, because of a journey grant provided by Antibodies on-line GmbH.

Determine 7: Nations the place the individuals are based mostly, with the variety of individuals said in every flag. Image created with Inkscape by Valeria Ghezzi.

Top quality of scholar talks, their engagement and drive to debate science until late hours impressed the tutors.

When Prof. Susan Mango was requested to explain the Summer time College in a single phrase, she answered: “My phrase would have been STUDENTS. They have been nice – very interactive, good questions. A very good lot”.

Prof. Anna Alemany later revealed: “It was actually motivating, from the speaker standpoint, to debate the totally different elements of science throughout lunch, espresso breaks, and walks across the lake. The motivation was contagious, I’m positive this group of individuals will obtain something they need!”.

It appears to be like like the way forward for life science and molecular medication is in good arms.

Determine 8: Hanzhao Zhang (on the left) and Alek Gordon Erickson (on the fitting) speaking over Alek’s poster at 11.15 pm.
Image taken by Prof. Claudio Cantù.

We could meet subsequent 12 months?

The Summer time College was generously supported by a collaborative grant of The Nationwide molecular Drugs Fellows Program (NMMP) in Sweden awarded to the organizers Claudio Cantù and Silvia Remeseiro.

Each are a part of NMMP community: 100 group leaders recruited to the Wallenberg Facilities of Molecular Drugs, which is co-funded by SciLifeLab and Knut and Alice Wallenberg Basis.

BioNordika and Antibodies on-line GmbH have been the one two, rigorously chosen extra sponsors.

Dr. Stefan Pellenz, completed scientist and at the moment product supervisor at Antibodies on-line GmbH,
shared his insights on profile the epigenome with CUT&RUN and CUT&Tag strategies.

We hope the Summer time College was not a one-time expertise and organizers will be capable of get help for the subsequent version.

With a tremendous venue, new connections created, pleasure shared about the way forward for science, participant loved the Summer time College a lot that they unanimously voted for the subsequent version!

Wish to be a part of the longer term? Be a part of the subsequent version on NMMP2022 Summer time College in Transcriptomics!

Get in contact with us:

Claudio Cantù

Silvia Resemeiro

Andreas Moor

Wallenberg Centre For Molecular Drugs (Linköping)

Knut och Alice Wallenbergs Stiftelse

Nationwide Molecular Drugs Programme



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