Evidence map›Paper›PMID 40661153›Full record

ArticleIntegrative organismal biology (Oxford, England)2025

A Vision for VenomsBase: An Integrated Knowledgebase for the Study of Venoms and Their Applications.

T A Castoe, M Daly, F Jungo, K N Kirchhoff, I Koludarov, S Mackessy, J Macrander, S Mehr, M V Modica, E E Sanchez and 2 more

Abstract read
In one paragraph

Article in Integrative organismal biology (Oxford, England), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Quantitative analysis of growth and diversification in venom data using database metrics.Database : the journal of biological databases and curation · 2026
    Article
  3. Review
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

12 authors.

T A CastoeDepartment of Biology, University of Texas at Arlington, Arlington, TX 76019, USA.ORCID https://orcid.org/0000-0002-5912-1574
M DalyDepartment of Evolution, Ecology, and Organismal Biology, The Ohio State University, Columbus, OH 43210, USA.ORCID https://orcid.org/0000-0001-6182-0369
F JungoSIB Swiss Institute of Bioinformatics, Swiss-Prot Group, 1211 Geneva , Switzerland.ORCID https://orcid.org/0000-0002-7456-8390
K N KirchhoffDepartment of Chemistry, Hunter College, City University of New York, New York, NY 10065, USA.ORCID https://orcid.org/0000-0002-0004-1529
I KoludarovTUM (Technical University of Munich), School of Computation, Information and Technology (CIT), Faculty of Informatics, Chair of Bioinformatics & Computational Biology - i12, Boltzmannstr. 3, 85748 Garching/Munich, Germany.
S MackessyDepartment of Biological Sciences, University of Northern Colorado, Greeley, CO 80639, USA.ORCID https://orcid.org/0000-0003-4515-2545
J MacranderBiology Department, Florida Southern College, Lakeland, FL 33801, USA.ORCID https://orcid.org/0000-0002-1509-4332
S MehrDepartment of Chemistry, Hunter College, City University of New York, New York, NY 10065, USA.
M V ModicaStazione Zoologica Anton Dohrn, Department of Biology and Evolution of Marine Organisms, Roma 80121, Italy.ORCID https://orcid.org/0000-0003-2532-6763
E E SanchezDepartment of Chemistry, National Natural Toxins Research Center, Kingsville, TX 78363, USA.ORCID https://orcid.org/0000-0001-5222-8873
G ZancolliDepartment of Ecology and Evolution, University of Lausanne, Lausanne 1015, Switzerland.ORCID https://orcid.org/0000-0003-3060-2507
M HolfordDepartment of Chemistry, Hunter College, City University of New York, New York, NY 10065, USA.ORCID https://orcid.org/0000-0001-9476-2687

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Venoms are complex bioactive mixtures that have independently evolved across diverse animal lineages, including snails, insects, sea anemones, spiders, scorpions, and snakes. Despite the growing interest in venom research, data is fragmented across disparate databases which lack standardization and interoperability. A vision for the proposed VenomsBase platform presented here seeks to address these challenges by using the best practices approach in creating a centralized, open-access platform adhering to FAIR principles (Findable, Accessible, Interoperable, and Reproducible). VenomsBase will unify venom datasets, standardize terminology, and enable comparative analyses across species, facilitating novel toxin discovery and functional annotation. Key features of VenomsBase include user-friendly data submission modules with built-in validation, advanced cross-species analysis tools, and integration of multidisciplinary datasets spanning genomics, transcriptomics, proteomics, functional assays, and ecological metadata. A modular, cloud-based design will ensure scalability, while heuristic scoring systems will guide users toward high-confidence data entries. To promote accessibility, the envisioned VenomsBase will provide tutorials, regular training sessions, case studies, and feedback loops, supporting researchers at all levels. By harmonizing venom research and addressing the limitations of outdated or nonstandardized methods, VenomsBase aims to revolutionize the field, while being continuously improved and refined by venom experts. This initiative will unlock venoms' potential to make groundbreaking discoveries, address global health challenges, and foster collaboration and innovation across the scientific community.

Identifiers

PMID40661153
PMCPMC12259279

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LicenceCC BY
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Registered trials

None linked

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.