arXiv AI By Weny S. M Sitinjak, Humasak Tommy Argo Simanjuntak

Reconstructing the Developmental Trajectory of Adipocytes in Human Adipose Tissue Using Single-Cell RNA Sequencing

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arXiv:2606. 27657v1 Announce Type: cross Abstract: Obesity is a global health crisis associated with metabolic disorders such as type 2 diabetes and cardiovascular disease.

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arXiv Machine Learning
Jun 5

HEIST: A Graph Foundation Model for Spatial Transcriptomics and Proteomics Data

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
Hugging Face Trending Papers
Aug 6

BioM-JEPA: joint-embedding prediction of graph-connected gene blocks in single cells

Single-cell transcriptomes are sparse observations of coordinated biological programmes, yet most self-supervised models learn by reconstructing individual genes. Here we present BioM-JEPA, a joint-embedding predictive architecture that instead predicts aggregate representations of graph-connected gene blocks defined by protein-association and corpus-derived coexpression evidence.

arXiv Machine Learning
Jul 23

Predictive single cell foundation model for gene regulation and aging with privacy-preserving tabular learning

arXiv:2607. 19400v1 Announce Type: new Abstract: Pre-trained foundation models (FMs) have begun transforming single-cell genomics, but scaling them raises privacy concerns.

By Jiayuan Ding, Jianhui Lin, Ziyang Miao, Nils Mechtel, Shiyu Jiang, Yixin Wang, Zhaoyu Fang, Jorge D. Martin-Rufino, Chen Weng, Reuben Saunders, Weize Xu, Jonathan S. Weissman, Min Li, Jiliang Tang, Wei Ouyang, Yuancheng Ryan Lu, Xiaojie Qiu