Zseeker

Jan 2025 · 1 min read

Overview

Zseeker is an open-source Python tool designed for optimized detection of Z-DNA forming sequences in large genomic datasets. Z-DNA is an alternative left-handed DNA structure implicated in gene regulation, genome instability, and various biological processes.

Features

  • High Performance: Optimized algorithms enable analysis of entire genomes
  • Accuracy: Improved detection accuracy compared to previous methods
  • Scalability: Designed to handle large-scale genomic datasets
  • Easy to Use: Simple Python interface with clear documentation
  • Open Source: Freely available for academic and commercial use

Technical Details

Zseeker implements advanced algorithms for identifying sequences capable of forming Z-DNA structures based on sequence composition and thermodynamic properties. The tool is optimized for both speed and accuracy, making it suitable for genome-wide analyses.

Use Cases

  • Genome-wide Z-DNA mapping
  • Regulatory element identification
  • Genome stability studies
  • Comparative genomics of non-B DNA structures
  • Disease-associated variant analysis

Publications

Wang, G., Mouratidis, I., Provatas, K., et al. (2025). ZSeeker: an optimized algorithm for Z-DNA detection in genomic sequences. Briefings in Bioinformatics, 26(3).

Bioinformatics Python Z-DNA Non-B DNA
Ioannis Mouratidis
Authors
Ioannis Mouratidis (he/him)
Research Engineer
Research engineer focused on AI safety, alignment, and AIxBio security. I study how capabilities and values emerge during model training and build scalable interventions to align frontier models, drawing on deep expertise in biosecurity and biological foundation models. 38 publications (12 first or senior author) and 3 patents in large-scale data analysis and ML for biology; co-founded an AI-driven cancer-diagnostics startup and authored grants securing $4M+ in competitive funding.