Interpretable Drug Response Prediction through Molecule Structure-aware and Knowledge-Guided Visible Neural Network

Authors: Xie, Jiancong, Zhang, Zhe, Li, Youyou, Rao, Jiahua, Yang, Yuedong

Source: 2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) Bioinformatics and Biomedicine (BIBM), 2024 IEEE International Conference on. :1263-1268 Dec, 2024

Relation: 2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

Incorporating Retrieval-based Causal Learning with Information Bottlenecks for Interpretable Graph Neural Networks

Authors: Rao, Jiahua, Xie, Jiancong, Lin, Hanjing, Zheng, Shuangjia, Wang, Zhen, Yang, Yuedong

Subject Terms: Computer Science - Machine Learning

Access URL: http://arxiv.org/abs/2402.04710

An interpretable survival model for diffuse large B-cell lymphoma patients using a biologically informed visible neural network

Authors: Tan, Jie, Xie, Jiancong, Huang, Jiarong, Deng, Weizhen, Chai, Hua, Yang, Yuedong

Source: In Computational and Structural Biotechnology Journal December 2024 24:523-532

Predicting disease-gene associations through self-supervised mutual infomax graph convolution network

Authors: Xie, Jiancong, Rao, Jiahua, Xie, Junjie, Zhao, Huiying, Yang, Yuedong

Source: In Computers in Biology and Medicine March 2024 170

SHH/GLI2-TGF-β1 feedback loop between cancer cells and tumor-associated macrophages maintains epithelial-mesenchymal transition and endoplasmic reticulum homeostasis in cholangiocarcinoma

Authors: Chen, Zuxiao, Li, Haiyan, Li, Zongyan, Chen, Shaoyi, Huang, Xiaoming, Zheng, Zheyu, Qian, Xiangjun, Zhang, Lei, Long, Guojie, Xie, Jiancong, Wang, Qian, Pan, Weidong, Zhang, Dawei

Source: In Pharmacological Research January 2023 187

Selective functionalization of hindered meta-C–H bond of o-alkylaryl ketones promoted by automation and deep learning

Authors: Qiu, Jia, Xie, Jiancong, Su, Shimin, Gao, Yadong, Meng, Han, Yang, Yuedong, Liao, Kuangbiao

Source: In Chem 8 December 2022 8(12):3275-3287

The m 7 G Reader NCBP2 Promotes Pancreatic Cancer Progression by Upregulating MAPK/ERK Signaling.

Authors: Xie, Jiancong¹ (AUTHOR) xiejc6@mail2.sysu.edu.cn, Mo, Taiwei^2,3 (AUTHOR) lirb6@mail2.sysu.edu.cn, Li, Ruibing^3,4,5 (AUTHOR) lianggzh8@mail2.sysu.edu.cn, Zhang, Hao¹ (AUTHOR) zhangh677@mail.sysu.edu.cn, Liang, Guanzhan^3,4,5 (AUTHOR) chenj396@mail2.sysu.edu.cn, Ma, Tao¹ (AUTHOR) matao7@mail2.sysu.edu.cn, Chen, Jing^3,4,5 (AUTHOR) xiehlin3@mail2.sysu.edu.cn, Xie, Hanlin^3,4,5 (AUTHOR) wenxf6@mail.sysu.edu.cn, Wen, Xiaofeng^3,4,5 (AUTHOR) hutuo3@mail.sysu.edu.cn, Hu, Tuo^3,4,5 (AUTHOR), Xian, Zhenyu^3,4,5 (AUTHOR) xianzhy@mail2.sysu.edu.cn, Pan, Weidong¹ (AUTHOR) xianzhy@mail2.sysu.edu.cn

Source: Cancers. Nov2023, Vol. 15 Issue 22, p5454. 19p.

Subject Terms: *PANCREATIC tumors, *ONCOGENES, *ANIMAL experimentation, *CELLULAR signal transduction, *GENE expression, *GENES, *CELL proliferation, *RESEARCH funding, *MITOGEN-activated protein kinases, *CELL lines, *CARRIER proteins, *MICE

RAM Grid Middleware for Autonomic Cooperative Caching

Authors: Chu, Rui, Xie, Jiancong, Xiao, Nong, Lu, Xicheng

Source: Sixth International Conference on Grid and Cooperative Computing (GCC 2007) Grid and Cooperative Computing, 2007. GCC 2007. Sixth International Conference on. :791-798 Aug, 2007

Relation: 2007 Sixth International Conference on Grid and Cooperative Computing

Cross‐Modal Graph Contrastive Learning with Cellular Images.

Authors: Zheng, Shuangjia¹, shuangjia.zheng@sjtu.edu.cn, Rao, Jiahua², Zhang, Jixian³, Zhou, Lianyu⁴, Xie, Jiancong², Cohen, Ethan⁵, Lu, Wei³, Li, Chengtao³, Yang, Yuedong², yangyd25@mail.sysu.edu.cn

Source: Advanced Science; 8/27/2024, Vol. 11 Issue 32, p1-11, 11p

A variational expectation-maximization framework for balanced multi-scale learning of protein and drug interactions.

Authors: Rao, Jiahua, Xie, Jiancong, Yuan, Qianmu, Liu, Deqin, Wang, Zhen, Lu, Yutong, Zheng, Shuangjia, Yang, Yuedong

Source: Nature Communications; 5/25/2024, Vol. 15 Issue 1, p1-12, 12p

Self-Supervised Contrastive Molecular Representation Learning with a Chemical Synthesis Knowledge Graph.

Authors: Xie, Jiancong, Wang, Yi, Rao, Jiahua, Zheng, Shuangjia, Yang, Yuedong

Source: Journal of Chemical Information & Modeling; 3/25/2024, Vol. 64 Issue 6, p1945-1954, 10p

From intuition to AI: evolution of small molecule representations in drug discovery.

Authors: McGibbon, Miles¹, Shave, Steven¹, Dong, Jie², Gao, Yumiao¹, Houston, Douglas R¹, Xie, Jiancong³, Yang, Yuedong³, Schwaller, Philippe⁴, Blay, Vincent¹, v1vblay@ed.ac.uk

Source: Briefings in Bioinformatics; Jan2024, Vol. 25 Issue 1, p1-13, 13p

Circ_0020256 induces fibroblast activation to drive cholangiocarcinoma development via recruitment of EIF4A3 protein to stabilize KLF4 mRNA.

Authors: Li, Zongyan, Chen, Zuxiao, Li, Shiying, Qian, Xiangjun, Zhang, Lei, Long, Guojie, Xie, Jiancong, Huang, Xiaoming, Zheng, Zheyu, Pan, Weidong, Li, Haiyan, Zhang, Dawei

Source: Cell Death Discovery; 5/13/2023, Vol. 9 Issue 1, p1-14, 14p

Fast and accurate protein function prediction from sequence through pretrained language model and homology-based label diffusion.

Authors: Yuan, Qianmu¹, Xie, Junjie¹, Xie, Jiancong¹, Zhao, Huiying², yangyd25@mail.sysu.edu.cn, Yang, Yuedong¹, yangyd25@mail.sysu.edu.cn

Source: Briefings in Bioinformatics; May2023, Vol. 24 Issue 3, p1-11, 11p