Chunyu Ma

The paper introduces MetagenomicKG, a knowledge graph integrating metagenomic data with biomedical knowledge to enable hypothesis generation and pathogen prediction.

YACHT provides a statistical test to determine microbial presence/absence in metagenomic samples, accounting for sequence divergence and incomplete sequencing depth.

This paper introduces fmh-funprofiler, a fast and lightweight metagenomic functional profiler using FracMinHash sketches, showing improved purity and speed compared to alignment-based methods.

ARAX is a graph-based reasoning tool that integrates knowledge across sources to answer translational biomedical questions.

KGML-xDTD predicts drug-disease treatments and explains mechanisms via knowledge graph paths, achieving state-of-the-art results in drug repurposing and MOA recapitulation.

RTX-KG2 integrates 70 biomedical knowledge sources into a standards-compliant knowledge graph with a Biolink schema, providing downloadable and queryable versions via API.

This study maps the transcriptional landscape of human embryonic skeletogenesis at single-cell resolution, identifying distinct skeletal stem/progenitor cells and their lineage hierarchy.

The paper uses single-cell RNA sequencing to trace the emergence of hematopoietic stem cells in human embryos, identifying key gene expression patterns and cell populations involved in their development.