6 papers · 1 filter
Tracing model-generated DNA with position-independent watermarking
Kimon Antonios Provatas1, Christos Galanopoulos, Ilias Georgakopoulos-Soares
Genomic language models can write synthetic DNA that carries no record of its origin. A generation-time watermark could provide a provenance signal, if a verifier can detect it usi…
bioETH-Beacon: A Confidential On-Chain Genomic Beacon with Encrypted Counts, Filters, and Bounded Noise over a Fully Homomorphic EVM
Christos Galanopoulos, Kimon Antonios Provatas, Ilias Georgakopoulos-Soares
The Global Alliance for Genomics and Health (GA4GH) Beacon protocol lets researchers ask whether a genomic variant has been observed in a participating cohort and receive aggregate…
bioETH-PRS: Confidential Polygenic Risk Scoring without a Trusted Evaluator via Fully Homomorphic Encryption on a Programmable Blockchain
Kimon Antonios Provatas, Christos Galanopoulos, Ilias Georgakopoulos-Soares
Polygenic risk scores (PRSs) aggregate genetic effect estimates to predict disease susceptibility, yet clinical deployment often exposes raw genotype data to third-party compute in…
BEDCrypt: Privacy-preserving interval analytics with homomorphic encryption
Kimon Antonios Provatas, Ilias Georgakopoulos-Soares
Motivation. Genomic data and derived interval datasets can carry sensitive information, and the analysis itself can reveal an analyst's intent. As genomic workloads are increasingl…
Investigating DNA words and their distributions across the tree of life
Charalampos Koilakos, Kimonas Provatas, Michail Patsakis +2
The frequency distributions of DNA k-mers are shaped by fundamental biological processes and offer a window into genome structure and evolution. Inspired by analogies to natural la…
MAFcounter: An efficient tool for counting the occurrences of k-mers in MAF files
Michail Patsakis, Kimonas Provatas, Ioannis Mouratidis +1
Motivation: With the rapid expansion of large-scale biological datasets, DNA and protein sequence alignments have become essential for comparative genomics and proteomics. These al…