Yinqi Bai

LucaVirus predicts viral evolution and function using a unified nucleotide-protein language model, achieving state-of-the-art results in key virology tasks.

The paper identifies a bear-specific coding exon in TMEM41B linked to cold adaptation through comparative genomics and functional analysis.

CellBin processes spatial omics data to create cell-level matrices, outperforming existing methods across multiple platforms and omics types.

The paper creates a single-cell atlas of amniote brains to study cell type diversification and identifies species-specific gene expression patterns and novel cell subtypes.

This paper introduces SNPBag, a foundation model for analyzing human genome variation, achieving state-of-the-art accuracy in genotype imputation and efficient ancestry inference.

The paper uses single cell transcriptomes to study how regulatory networks change during the development of Kranz anatomy in C4 grasses.

The paper fills a gap in 3D spatial transcriptomics by providing data from E9.5 and E11.5 mouse embryos, enabling detailed analysis of organogenesis with a new open-access database.

This paper introduces BIA, an intelligent agent using LLMs to automate bioinformatics tasks, demonstrating its effectiveness with scRNA-seq data and outlining strategies for improvement.

The paper constructs a 3D spatiotemporal multi-omics atlas of Drosophila development, revealing gene regulatory networks and cell type dynamics across embryogenesis to metamorphosis.

The paper creates a high-resolution spatial transcriptomic atlas of the mouse brain using snRNA-seq and Stereo-seq, identifying new cell clusters, region-specific genes, and transcription factor regulons.

CellBin processes high-resolution spatial transcriptomics data to generate accurate single-cell gene expression profiles, improving accuracy and efficiency in mouse brain tissue analysis.

Spateo provides a framework for spatiotemporal modeling of single-cell spatial transcriptomics data to study cell-cell interactions and organ development in 3D space.