Kathleen Marchal D

The paper improves antibody sequence design by combining a general inverse folding model with an antibody-specific language model, achieving better amino acid recovery and sequence diversity.

This paper introduces HaploDetox, a method for de novo bacterial haplotype reconstruction using a Conditional Random Field approach on de Bruijn graphs, achieving improved SNP phasing accuracy.

This paper introduces SEQUOIA, a transformer model that predicts cancer transcriptomes from histology images, achieving high accuracy in predicting gene expression and recurrence risk in breast cancer.

The paper benchmarks 13 HLA genotyping tools on three datasets to identify the most accurate methods and provides consensus predictions for TCGA samples.

The paper introduces the Cancer LncRNA Census (CLC), a curated resource of lncRNAs with causative roles in cancer, and shows their genomic and evolutionary features.

ActivePathways integrates multivariate omics data to identify enriched pathways, revealing cancer driver genes and prognostic pathways in breast cancer.

The paper analyzes non-coding mutations across 2,583 cancer genomes to identify genes and pathways affected, finding clusters of interacting proteins and insights into cancer mechanisms.