New Core Data Resources and Deposition Databases
ELIXIR adds 6 Core Data Resources and 2 Deposition Databases, reaching 37 and 17 total. These trusted tools support long-term life science research in Europe.
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Showing 6-10 of 25 news
CNR launches a public selection for a permanent Director Technologist position at IBIOM (Bari)
CNR seeks a full-time Director Technologist for IBIOM Bari. Focus on PNRR project management and research infrastructure. Apply online by 22 Jan 2026, 6 PM CET.
ELIXIR-IT participation in the selected ELIXIR Europe Open Science projects
ELIXIR Europe funds 8 projects for FAIR data and Open Science. ELIXIR-IT leads efforts in food microbiome, biodiversity LLMs and structural annotations.
ELIXIR position paper on securing open biodata resources for European competitiveness
ELIXIR urges European policymakers to invest in open biodata, a strategic resource for competitiveness, innovation, and AI development, by strengthening infrastructure and skills in Europe.
PON IR – Call for Expression of Interest for Enterprises – Project “BEST – Bridging ELIXIR-IT Services to industrial sTakeholders”
Italy's CNR seeks companies for the BEST project, bridging ELIXIR-IT research with industry through Open Science collaboration. Deadline: June 20, 2025.
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Recent publications
Ab initio detection of multiple epitranscriptomic modifications from ONT direct RNA sequencing data
Non-canonical nucleotides are widespread chemical modifications in eukaryotic genomes and transcriptomes, especially within the epitranscriptome. Traditional enrichment-based sequencing methods cannot detect them at single-molecule resolution, a limitation overcome by nanopore sequencing. Researchers from the University of Bari (Italy) present a transformer-based model for the ab initio detection of multiple RNA modifications, along with two tools, NanoListener and NanoSpeech, to create training datasets and develop modification-aware basecallers. Their approach enables the simultaneous identification of up to nine ribonucleotide variants.
Embedding-Based Alignments Capture Structural and Sequence Domains of Distantly Related Multifunctional Human Proteins
Protein embeddings encode sequence information using protein language models. The Embedding-Based Alignment (EBA) method enables pairwise embedding comparison and remote homolog detection. In this paper we show that, when applied to a set of multifunctional human proteins, EBA identifies remote homologs sharing structural and functional features, validated on the Swiss-Prot database.
CREDO: a friendly Customizable, REproducible, DOcker file generator for bioinformatics applications
CREDO, a Customizable, REproducible, DOcker file generator for bioinformatics applications, has been developed as a tool to moderate reproducibility issues by building and distributing docker containers with embedded bioinformatics tools. CREDO simplifies the process of generating Docker images, facilitating reproducibility and efficient research in bioinformatics.
An automated pipeline integrating AlphaFold 2 and MODELLER for protein structure prediction
In this work, it is evaluated the possibility of improving AlphaFold2’s three-dimensional predictions by developing a new pipeline (AlphaMod) that integrates AlphaFold2 with MODELLER, a traditional homology modeling program. For this study, MARCONI100 at HPC@CINECA was used, which was made available through an ELIXIR project.