CFP: 24th International Workshop on Data Mining in Bioinformatics (with SIGKDD'25)
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BIOKDD 2025
(Held in Conjunction with SIGKDD 2025)

August 6, 2025
Toronto, Canada
http://biokdd.org/biokdd25/


INTRODUCTION
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The goal of the BIOKDD 2025 is to encourage KDD researchers to solve the numerous problems and challenges in Bioinformatics using Data Mining technologies. Based on the organizers’ expertise and communities for this year’s BIOKDD workshop, we will feature the theme “Generative AI in Biomolecular Designs”. This theme encourages using large language models to design and optimize proteins or other biomolecules such as compounds, natural products, and RNAs with generative AI techniques. We also welcome broader research applying data mining to address biomedical problems. The key goal is to accelerate the convergence between Data Mining and Bioinformatics communities to expedite discoveries in basic biology, medicine and healthcare.


PUBLICATION OPTION
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As a tradition of BIOKDD, accepted original submissions will be invited to publish in BIOKDD Special Issue on IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB).


TOPICS OF INTEREST
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• Protein foundational models
• AI-driven therapeutics development
• Large language models for bioinformatics and computational biology
• Generative AI for bioinformatics and computational biology
• Semantic web, biomedical ontologies and ontology-driven data integration methods
• Biological network visualization
• Information visualization and visual analytics for biomedical data
• Development of deep learning methods for biological and clinical data
• Novel methods and frameworks for mining and integrating big biological data
• Discovering biological networks and pathways underlying biological processes and diseases
• Analysis, discovery of biomarkers and mutations, and disease risk assessment
• Comparative genomics
• Metagenome analysis using sequencing data
• RNA-seq and microarray-based gene expression analysis
• Genome-wide analysis of non-coding RNAs
• Genome-wide regulatory motif discovery
• Structural bioinformatics
• Automated annotation of genes and proteins
• Discovery of structural variations from next-generation sequencing (NGS) data
• Correlating NGS with proteomics data analysis
• Discovery of genotype-phenotype associations
• Building predictive models for complex phenotypes
• Functional annotation of genes and proteins
• Cheminformatics
• Special biological data management techniques
• Privacy and security issues in mining genomic databases
• Predictive modeling for personalized treatment
• Text mining for biomedical literature and clinical notes
• Information retrieval for healthcare and biomedical applications
• Biomedical signal analysis and processing
• Intelligent medical data management
• Collaboration technologies for biomedicine
• Social networks for biomedicine
• Bioimage analysis, single-cell analysis


IMPORTANT DATES
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Submission Due: May 08, 2025
Notification Date: June 8, 2025
Workshop Date: August 6, 2025


SUBMISSION GUIDELINES
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We solicit submission of papers in the following three categories:

• Regular Track: original papers without duplicate submission. Papers should be at most 10 pages in length, and using ACM Proceedings Format (https://www.acm.org/publications/proceedings-template) is recommended.

• Abstract Track: 1-page limit, for introducing preliminary research outcomes, with emphasis on research effectiveness on real-world datasets.

• Late-Breaking Research: submission of a published manuscript (at least in arXiv) along with additional supplemental/unpublished data, to highlight the work's impact.

All papers will be peer-reviewed. If accepted, at least one author should attend the workshop to present their work. The papers should be in PDF format and submitted via Microsoft CMT: https://cmt3.research.microsoft.com/BIOKDD2025


ORGANIZERS
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Program Co-Chairs:
• Da Yan (Indiana University Bloomington)
• Truong-Son Hy (The University of Alabama at Birmingham)

General Chair:
• Jake Chen (The University of Alabama at Birmingham)
• Mohammed J. Zaki (Rensselaer Polytechnic Institute)


CONTACT
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Please email all questions about submissions to yanda@iu.edu