Evidence map›Paper›PMID 41089558›Full record

ArticleBioinformatics advances2025

Competencies for bioinformatics core facility scientists: extension of the ISCB competency framework for bioinformatics.

Marta Lloret-Llinares, Patricia Carvajal-López, Tim Downing, Madelaine Gogol, Shannan Ho Sui, Lara Nonell, Lisanna Paladin, Adam James Reid, Gina-Maria Pomann, Cath Brooksbank

Abstract read
In one paragraph

Article in Bioinformatics advances, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors.

Marta Lloret-LlinaresEMBL's European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.
Patricia Carvajal-LópezEMBL's European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.
Tim DowningPirbright Institute, Woking, GU24 0NF, United Kingdom.ORCID https://orcid.org/0000-0002-8385-6730
Madelaine GogolStowers Institute, Kansas City, MO 64110, United States.
Shannan Ho SuiHarvard T.H. Chan School of Public Health, Boston, MA 02115, United States.
Lara NonellVall d'Hebron Institute of Oncology, Barcelona, 08035, Spain.
Lisanna PaladinEuropean Molecular Biology Laboratory, Heidelberg, 69117, Germany.
Adam James ReidGurdon Institute, University of Cambridge, Cambridge, CB2 1QN, United Kingdom.
Gina-Maria PomannDuke University Department of Biostatistics and Bioinformatics, Clinical Translational Science Institute Biostatistics Epidemiology and Research Design Methods Core, Durham, NC 27705, United States.
Cath BrooksbankEMBL's European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.ORCID https://orcid.org/0000-0001-9395-7001

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Motivation: The competency framework of the International Society of Computational Biology (ISCB) provides a benchmark for capturing the knowledge, skills, and attitudes required by bioinformatics professionals. Whilst it provides a minimum standard for various bioinformatics roles, it does not capture how competency requirements change as bioinformatics professionals progress from junior to senior, and from primarily technical to managerial positions. Bioinformatics core facility professionals are crucial for data-driven bioscience, yet lack a defined career structure, leaving a career-development vacuum. The ISCB education and BioInfoCore communities worked together to define a new subset of competency requirements to support core facility teams to recruit, develop, and retain their staff. Results: Drawing on the experience of the ISCB's BioInfoCore community, and building on the work of others, we extend the competencies required by staff in bioinformatics core facilities operations and management, defining six competency requirements (in addition to 13 defined in the ISCB Competency Framework) that are especially relevant to core facility professionals: N: identify and support users' needs, O: manage projects, P: manage team members, Q: engage with users and other collaborators, R: provide training in bioinformatics, and S: lead the bioinformatics core facility. We map these to a framework for career progression. Availability and implementation: The framework is reproduced in full in this paper and is available as a CSV file on Zenodo (DOI: 10.5281/zenodo.16630540). It will soon be made available on the Competency Hub at https://competency.ebi.ac.uk/. Data and figures are available on GitHub at https://github.com/downingtim/Competencies.

Identifiers

PMID41089558
PMCPMC12517332

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.