Allegra Via

According to our database1, Allegra Via authored at least 38 papers between 2003 and 2023.

Collaborative distances:



In proceedings 
PhD thesis 




A metadata analysis for machine-actionable Software Management Plans.
Proceedings of the 14th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4HCLS 2023), 2023

A metadata schema for machine-actionable Software Management Plans.
Proceedings of the 3rd Workshop on Metadata and Research (objects) Management for Linked Open Science, 2023

A framework to assess the quality and impact of bioinformatics training across ELIXIR.
PLoS Comput. Biol., 2020

Ten simple rules for making training materials FAIR.
PLoS Comput. Biol., 2020

A new pan-European Train-the-Trainer programme for bioinformatics: pilot results on feasibility, utility and sustainability of learning.
Briefings Bioinform., 2019

Lesson Development for Open Source Software Best Practices Adoption.
Proceedings of the 14th IEEE International Conference on e-Science, 2018

Four simple recommendations to encourage best practices in research software.
F1000Research, 2017

The FAIRification of Data and the Potential of FAIR Resources Demonstrated, in Practice, at the Rome Bring Your Own Data Workshop.
Proceedings of the 10th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4LS 2017), 2017

Tools and data services registry: a community effort to document bioinformatics resources.
Nucleic Acids Res., 2016

The GOBLET training portal: a global repository of bioinformatics training materials, courses and trainers.
Bioinform., 2015

TiPs: a database of therapeutic targets in pathogens and associated tools.
Bioinform., 2013

iAnn: an event sharing platform for the life sciences.
Bioinform., 2013

Best practices in bioinformatics training for life scientists.
Briefings Bioinform., 2013

ELM - the database of eukaryotic linear motifs.
Nucleic Acids Res., 2012

Bioinformatics Training Network (BTN): a community resource for bioinformatics trainers.
Briefings Bioinform., 2012

Ten Simple Rules for Developing a Short Bioinformatics Training Course.
PLoS Comput. Biol., 2011

Phospho3D 2.0: an enhanced database of three-dimensional structures of phosphorylation sites.
Nucleic Acids Res., 2011

Phospho.ELM: a database of phosphorylation sites - update 2011.
Nucleic Acids Res., 2011

Identification of the Schistosoma mansoni Molecular Target for the Antimalarial Drug Artemether.
J. Chem. Inf. Model., 2011

ELM: the status of the 2010 eukaryotic linear motif resource.
Nucleic Acids Res., 2010

Bioinformatics training: a review of challenges, actions and support requirements.
Briefings Bioinform., 2010

A structure filter for the Eukaryotic Linear Motif Resource.
BMC Bioinform., 2009

Phospho.ELM: a database of phosphorylation sites - update 2008.
Nucleic Acids Res., 2008

FunClust: a web server for the identification of structural motifs in a set of non-homologous protein structures.
BMC Bioinform., 2008

Phospho3D: a database of three-dimensional structures of protein phosphorylation sites.
Nucleic Acids Res., 2007

3dLOGO: a web server for the identification, analysis and use of conserved protein substructures.
Nucleic Acids Res., 2007

SH3-Hunter: discovery of SH3 domain interaction sites in proteins.
Nucleic Acids Res., 2007

False occurrences of functional motifs in protein sequences highlight evolutionary constraints.
BMC Bioinform., 2007

Local comparison of protein structures highlights cases of convergent evolution in analogous functional sites.
BMC Bioinform., 2007

A novel structure-based encoding for machine-learning applied to the inference of SH3 domain specificity.
Bioinform., 2006

pdbFun: mass selection and fast comparison of annotated PDB residues.
Nucleic Acids Res., 2005

A neural strategy for the inference of SH3 domain-peptide interaction specificity.
BMC Bioinform., 2005

Query3d: a new method for high-throughput analysis of functional residues in protein structures.
BMC Bioinform., 2005

Seq2Struct: a resource for establishing sequence-structure links.
Bioinform., 2005

A structural study for the optimisation of functional motifs encoded in protein sequences.
BMC Bioinform., 2004

Phospho.ELM: A database of experimentally verified phosphorylation sites in eukaryotic proteins.
BMC Bioinform., 2004

ELM server: a new resource for investigating short functional sites in modular eukaryotic proteins.
Nucleic Acids Res., 2003