Weekly Brief, 9 October 2023

This week's highlights

Assessing the performance and impact of research infrastructures An annotated bibliography

This document collates, in the form of an annotated bibliography, a wide range of published works that are relevant to assessing the performance and impact of research infrastructures. This is the first public-facing version of an otherwise internal document, never meant to be exhaustive, yet very likely to be useful to others outside of ELIXIR.

Find out more

Recording for the impact webinar is now available

Last week, ELIXIR held an impact webinar focusing on increase capacity in impact evaluation across a set of national ELIXIR Nodes. If you are interested in the topic but couldnt join the webinar, the presentation slides and recording are now available online!

Watch the recording

Recommended reads

MiOS, an integrated imaging and computational strategy to model gene folding with nucleosome resolution

An ELIXIR-EXCELERATE paper

The linear sequence of DNA provides invaluable information about genes and their regulatory elements along chromosomes. However, to fully understand gene function and regulation, we need to dissect how genes physically fold in the three-dimensional nuclear space. With Modeling immuno-OligoSTORM, the authors explore intercellular variability, transcriptional-dependent gene conformation, and folding of housekeeping and pluripotency-related genes in human pluripotent and differentiated cells, thereby obtaining the highest degree of data integration achieved so far to our knowledge.

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Proteomic Characterization of SAS Cell-Derived Extracellular Vesicles in Relation to Both BPA and Neutron Irradiation Doses

An ELIXIR Implementation Study

Boron neutron capture therapy (BNCT) is a selective radiotherapy based on nuclear reaction that occurs when 10B atoms accumulated in cancer cells are irradiated by thermal neutrons, triggering a nuclear fission response leading to cell death. Proteomics investigation can be useful to study BNCT effect and identify potential biomarkers. In this study, the reserachers performed proteomic analysis with nanoLC-MS/MS on extracellular vesicles isolated from SAS cultures treated or not with 10B-boronophenylalanine and different doses of neutron irradiation, to study the cellular response related to both boron administration and neutrons action.

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Updates from Nodes

Artificial intelligence helps researchers find suitable drugs based on patients genetic data and cancer cell samples

The iCAN-PEDI study, investigating drug treatments and drug responses in children with cancer, is a part of the large-scale iCAN Flagship project of Academy of Finland. The study combines genetic and epigenetic information on the patients cancer with data on the drug testing of patient derived cancer cells. The project aims to deliver findings that may affect treatment approaches back to the doctors to help them construct more individualised treatment approaches.

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Exploring the World of Systems Biology Modeling: An Interview with the Instructors of the de.NBI Training Course

The 'Tools for Systems Biology Modeling and Data Exchange' de.NBI training course is set to guide participants through an immersive journey into the world of computational modeling and data exchange. In this interview, the instructors explain the curriculum of the upcoming de.NBI training course Tools for Systems biology modeling and data exchange.

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Updates from Communities

hCNV Community welcomes new co-leads

The hCNV Community welcomes two new co-leads to join Michael Baudis. Krzysztof Poterlowicz from the U.K. Node and Antonio Rausell from the French Node.

Krzysztof is currently working on projects that involve the development of hCNV tools and the creation of Galaxy Training Network tutorials centred on hCNV analysis and integration. Antonio has been extensively involved in the development of bioinformatics strategies for the assessment of human CNVs in clinical settings and working on Federated Learning settings enabling multiple institutions to collaboratively train machine-learning models without sharing their local CNV datasets.

The Community members also want to thank the outgoing hCNV co-leads Christophe Broud and David Salgado for the expertise, skills and enthusiasm that they have brought to the hCNV Community.

Upcoming ELIXIR events & webinars

ELIXIR Training Courses & Webinars

The ELIXIR TeSS portal has a variety of interesting events and courses organised by the ELIXIR Nodes. For more, visit TeSS portal

BioSB course: Algorithms for Genomics
9-13 October 2023 | Delft, the Netherlands

ELIXIR Events and Conferences

Metabolomics Joint Community and Industry F2F/hybrid meeting
16-18 October 2023 | Heidelberg, Germany

Single Cell Omics Community F2F/hybrid meeting
18-20 October 2023 | Hinxton, UK

BioHackathon Europe 2023
30 October - 3 November 2023 | Barcelona, Spain

3D BioInfo Community meeting
15-17 November 2023 | Hybrid - Prague, Czech Republic

Federated human data (FHD) Community meeting
16-17 November 2023 | Hybrid - Barcelona, Spain

ELIXIR hCNV Community F2F/hybrid meeting
30 November-1 December 2023 | Hybrid - Hinxton, UK

Job vacancies

All vacancies are also published on the ELIXIR website (also including those from industry). If you need our help communicating your new open positions, you can submit a job advertisement and it will automatically appear on our newsletters. Go to our vacancy page to submit a job
 

Senior research associate in Health Data Science and Human Genetics

University of Geneva

Research associate in Health Data Science and Human Genetics

University of Geneva

Bioinformatician / Research Software Engineer (m/f/d) "Databases for molecular pathogen data"

Leibniz Institute DSMZ

Data Steward

Luxembourg National Data Service

Senior Data Steward

Luxembourg National Data Service