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

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 By harmonizing venom research and addressing the limitations of outdated or nonstandardized methods, VenomsBase aims to revolutionize the field, while being continuously improved and refined by venom experts.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.

Authors

Institutions

Publication Details

Journal
Integrative Organismal Biology
Published
2025-01-01
DOI
https://doi.org/10.1093/iob/obaf026
Primary Topic
Venomous Animal Envenomation and Studies
Type
article
Field-Weighted Citation Impact
0.00

Funders

Controls
|||
ALL TIME
JAN
FEB
MAR
APR
MAY
JUN
JUL
AUG
SEP
OCT
article

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

Marymegan Daly, Shaadi Mehr, Ernesto Sánchez, Stephen P. Mackessy et al.
Integrative Organismal Biology
Venomous Animal Envenomation and Studies
article

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

Marymegan Daly, Shaadi Mehr, Ernesto Sánchez, Stephen P. Mackessy, Kim N. Kirchhoff, Mandë Holford, Jason Macrander, Todd A. Castoe, Giulia Zancolli, Maria Vittoria Modica, Florence Jungo, Ivan Koludarov
article en

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.

Integrative Organismal BiologyVol. 7(1)
The Graduate Center, CUNY (US), SIB Swiss Institute of Bioinformatics (CH), American Museum of Natural History (US), Florida Southern College (US), City University of New York (US), Texas A&M University – Kingsville (US), The University of Texas at Arlington (US), Stazione Zoologica Anton Dohrn (IT), Hunter College (US), The Ohio State University (US), Technical University of Munich (DE), University of Northern Colorado (US), University of Lausanne (CH)
National Science Foundation, National Institutes of Health
Industry, innovation and infrastructure
Openalex Percentile: Top 83%
Venomous Animal Envenomation and Studies
AI Navigator

Ask Laika to Summarize, Analyze, and Connect papers live on the map.

Summarize Papers & Methodologies

Extract key findings, datasets, and comparative methods across publications.

Benchmark Rankings & Visual Analytics

Rank top research institutions, authors, funders, topics, and journals by Field-Weighted Citation Impact (FWCI) and paper volume with instant charts.

Connect Distant Disciplines

Bridge topological clusters on the map to find hidden collaborative intersections.