RETROFIT deconvolves cell-type mixtures in spatial transcriptomics without requiring references, outperforming existing methods and matching reference-based approaches when references are imperfect.

Nature Communications · Jul 24, 2026Peer-reviewedBioinformatics

Epidermal Cell Dynamics Regulates Rice Lamina Joint Morphogenesis and Leaf Angle Formation through OsZHD1 and OsZHD2 Regulation

Yiru Xu, Heng Zhou, Xiaojiang Wu, Wuyu Cui, Shouling Xu, Xi He, Dan Xiang, Ming Zhou, Xiuqin Rao, Lilan Hong

This study identifies OsZHD1 and OsZHD2 as regulators of epidermal cell dynamics that influence lamina joint morphology and leaf angle in rice.

Advanced Science · Dec 3, 2025Peer-reviewedPlant Biology

Interspecies regulatory landscapes and elements revealed by novel joint systematic integration of human and mouse blood cell epigenomes

Guanjue Xiang, Xi He, Belinda M. Giardine, Kathryn J. Isaac, Dylan J. Taylor, Rajiv C. McCoy, Camden S. Jansen, Cheryl A. Keller, Alexander Q. Wixom, April Cockburn, Amber Miller, Qian Qi, Yanghua He, Yichao Li, Jens Lichtenberg, , Ross C. Hardison

This study identifies conserved and species-specific cis-regulatory elements in human and mouse blood cells using integrative epigenomic analysis and clustering.

Genome Research · Jul 1, 2024Peer-reviewedGenomics