Halo improves whole-cell segmentation in spatial transcriptomics by integrating nuclear morphology and RNA transcript distribution, outperforming existing methods across diverse tissues.

Briefings in Bioinformatics · Sep 1, 2026Peer-reviewedBioinformatics

Membrane Curvature Activates Src kinase and Promotes Metastatic Cancer Cell Survival

Wei Zhang, He You, Xinzhi Zou, Chih‐Hao Lu, Xingyuan Zhang, Anna Amine, Zeinab Jahed, Michael Z. Lin, Bianxiao Cui

This study identifies membrane curvature as a mechanism for Src kinase activation in detached cancer cells, showing that disrupting this process inhibits metastatic survival.

bioRxiv · Mar 4, 2026 · PreprintCell Biology

Vispro improves imaging analysis for Visium spatial transcriptomics

Huifang Ma, Xingyuan Zhang, Yilong Qu, Anru R. Zhang, Zhicheng Ji

Vispro improves imaging analysis for Visium spatial transcriptomics by automating image processing tasks and enhancing downstream analysis performance.

Genome biology · Jun 18, 2025Peer-reviewedBioinformatics

TRIP13 protects pancreatic cancer cells against intrinsic and therapy-induced DNA replication stress

Jay Ramanlal Anand, Gaith N. Droby, Sayali Joseph, Urvi Patel, Xingyuan Zhang, Jeffrey A. Klomp, Channing J. Der, Jeremy E. Purvis, Samuel C Wolff, Jessica L. Bowser, Cyrus Vaziri

This study identifies TRIP13 as a key factor protecting KRAS-mutant pancreatic cancer cells from DNA replication stress and therapy-induced damage.

NAR Cancer · Jan 15, 2025Peer-reviewedCancer Biology