Candace S. Y. Chan

HSeeker identifies and scores H-DNA-forming sequences using a three-part algorithm, providing genomic coordinates and stability scores for further analysis.

The paper evaluates weight-locking techniques to prevent fine-tuning of genomic foundation models, finding that naive attacks fail but informed attacks can partially bypass the lock.

This study shows that passenger mutations can significantly impact cancer development by accumulating in tumor suppressor genes, leading to reduced expression and poorer prognosis.

The paper maps G-quadruplexes across the human genome and haplotypes, showing their enrichment in repetitive regions and association with genomic instability and PRDM9 binding.

The paper identifies ribosomal DNA arrays as the most H-DNA rich element in the human genome using the T2T assembly, showing 42.65-fold enrichment compared to chance.

The paper analyzes inverted repeats across 118,065 genomes to study their distribution, frequency, and functional roles in genomic instability and evolution.

kmerDB provides a database of genomic and proteomic sequence information, including kmers, quasi-primes, and primes, for 45,785 genomes and 22,386 proteomes.

This paper introduces frequentmers, a metagenomic feature for early disease detection, and applies it to identify liver cirrhosis with high accuracy using stool samples.

The paper integrates single-cell RNA and ATAC-seq data from mouse and human hypothalamus to identify sex-specific genes and obesity-associated regulatory elements.