arXiv:2606. 31394v1 Announce Type: cross Abstract: Artificial intelligence is transforming our capability to solve biological challenges.
By Jisung Park, Seohyeon Kang, Daeun Yoo, Eunsu Lee, Seoin Cho, Wooyeop Choi, Ian Choi, James R. Evan, Daesoo Kim, Sonia Gandhi, Minee L. Choi
arXiv:2604. 22700v2 Announce Type: replace Abstract: Modeling and predicting neurodegenerative disease progression from medical images remains a major challenge in medical AI, with significant implications for early diagnosis, disease monitoring, and treatment planning.
By Nivetha Jayakumar, Swakshar Deb, Bahram Jafrasteh, Qingyu Zhao, Miaomiao Zhang
SpaFactor is a lightweight framework that predicts spatial gene expression from hematoxylin and eosin images by fusing central spot visuals with multiscale neighborhood context. It uses a residual MLP to map tissue microenvironment to low‑dimensional latent gene programs, which are decoded into coordinated multi‑gene predictions. Across five public cohorts, SpaFactor outperforms existing methods, especially for spatially variable genes, and better recovers biologically organized spatial patterns.
By Shiting Ruan, Xitong Ling, Qiming He, Ziyou Yan, Huaitian Yuan, Tian Guan, Ying Xiao, Xu Guan, Yonghong He
arXiv:2606. 03018v1 Announce Type: cross Abstract: Modeling interactions among multimodal, high-dimensional data is intrinsically challenging due to ultra-high dimensionality and complex dependence structure with high level noise.
By Hongju Park, Zhenyao Ye, Shuo Chen
arXiv:2506. 11152v4 Announce Type: replace-cross Abstract: Single-cell transcriptomics and proteomics have become a great source for data-driven insights into biology, enabling the use of advanced deep learning methods to understand cellular heterogeneity and gene expression at the single-cell level.
By Hiren Madhu, Jo\~ao Felipe Rocha, Tinglin Huang, Siddharth Viswanath, Smita Krishnaswamy, Rex Ying
arXiv:2608. 14924v1 Announce Type: cross Abstract: Spatial transcriptomics (ST) links tissue morphology with molecular programs, motivating multimodal pretraining methods that align histology images with gene expression.
By Azim Dehghani Amirabad, Junchao Zhu, Pushpak Pati, Walid Abdelmoula, Tommaso Mansi, Rui Liao