Please spread: recommending tweets for retweeting with implicit feedback. - Sheng Wang 012; Xiaobo Zhou; Ziqi Wang 002; Ming Zhang 004 (DUBMMSM, 2012)

Supervised Topic Model with Consideration of User and Item. - Sheng Wang 012; Fangtao Li; Ming Zhang 004 (AAAI (Late-Breaking Developments), 2013)

Measuring Strength of Ties in Social Network. - Dakui Sheng; Tao Sun; Sheng Wang 012; Ziqi Wang 002; Ming Zhang 004 (APWeb, 2013)

SUIT: A Supervised User-Item Based Topic Model for Sentiment Analysis. - Fangtao Li; Sheng Wang 012; Shenghua Liu; Ming Zhang 004 (AAAI, 2014)

SideEffectPTM: an unsupervised topic model to mine adverse drug reactions from health forums. - Sheng Wang 012; Yanen Li; Duncan C. Ferguson; Chengxiang Zhai (BCB, 2014)

PaReCat: Patient Record Subcategorization for Precision Traditional Chinese Medicine. - Edward W. Huang; Sheng Wang 012; Runshun Zhang; Baoyan Liu; Xuezhong Zhou; ChengXiang Zhai (BCB, 2016)

A conditional probabilistic model for joint analysis of symptoms, diseases, and herbs in traditional Chinese medicine patient records. - Sheng Wang 012; Edward W. Huang; Runshun Zhang; Xiaoping Zhang; Baoyan Liu; Xuezhong Zhou; ChengXiang Zhai (BIBM, 2016)

Early identification of adverse drug reactions from search log data. - Ryen W. White; Sheng Wang 012; Apurv Pant; Rave Harpaz; Pushpraj Shukla; Walter Sun; William DuMouchel; Eric Horvitz (J. Biomed. Informatics, 2016)

Framing Electronic Medical Records as Polylingual Documents in Query Expansion. - Edward W. Huang; Sheng Wang 012; Doris J. Lee; Runshun Zhang; Baoyan Liu; Xuezhong Zhou; ChengXiang Zhai (AMIA, 2017)

HEMnet: Integration of Electronic Medical Records with Molecular Interaction Networks and Domain Knowledge for Survival Analysis. - Edward W. Huang; Sheng Wang 012; Bingxue Li; Ran Zhang 008; Baoyan Liu; Runshun Zhang; Jie Liu; Xuezhong Zhou; Hongsheng Lin; ChengXiang Zhai (BCB, 2017)

VisAGE: Integrating external knowledge into electronic medical record visualization. - Edward W. Huang; Sheng Wang 012; ChengXiang Zhai (PSB, 2018)

GRep: Gene Set Representation via Gaussian Embedding. - Sheng Wang 012; Emily R. Flynn; Russ B. Altman (RECOMB, 2019)

DisenHAN: Disentangled Heterogeneous Graph Attention Network for Recommendation. - Yifan Wang 014; Suyao Tang; Yuntong Lei; Weiping Song; Sheng Wang 012; Ming Zhang 004 (CIKM, 2020)

Gaussian embedding for large-scale gene set analysis. - Sheng Wang 012; Emily R. Flynn; Russ B. Altman (Nat. Mach. Intell., 2020)

HYPON: embedding biomedical ontology with entity sets. - Zhuoyan Li; Sheng Wang 012 (BCB, 2021)

Graphine: A Dataset for Graph-aware Terminology Definition Generation. - Zequn Liu; Shukai Wang; Yiyang Gu; Ruiyi Zhang; Ming Zhang 004; Sheng Wang 012 (EMNLP (1), 2021)

Auto-Encoding Knowledge Graph for Unsupervised Medical Report Generation. - Fenglin Liu; Chenyu You; Xian Wu 001; Shen Ge; Sheng Wang 012; Xu Sun 001 (NeurIPS, 2021)

Disease gene prediction with privileged information and heteroscedastic dropout. - Juan Shu; Yu Li 006; Sheng Wang 012; Bowei Xi; Jianzhu Ma (Bioinform., 2021)

GraphPrompt: Biomedical Entity Normalization Using Graph-based Prompt Templates. - Jiayou Zhang; Zhirui Wang; Shizhuo Zhang; Megh Manoj Bhalerao; Yucong Liu; Dawei Zhu; Sheng Wang 012 (CoRR, 2021)

DisenCite: Graph-Based Disentangled Representation Learning for Context-Specific Citation Generation. - Yifan Wang 014; Yiping Song; Shuai Li; Chaoran Cheng; Wei Ju 001; Ming Zhang 004; Sheng Wang 012 (AAAI, 2022)

Textomics: A Dataset for Genomics Data Summary Generation. - Mu-Chun Wang; Zixuan Liu 001; Sheng Wang 012 (ACL (1), 2022)

Deep Graph Mutual Learning for Cross-domain Recommendation. - Yifan Wang 014; Yongkang Li; Shuai Li; Weiping Song; Jiangke Fan; Shan Gao; Ling Ma; Bing Cheng; Xunliang Cai; Sheng Wang 012; Ming Zhang 004 (DASFAA (2), 2022)

MetaFill: Text Infilling for Meta-Path Generation on Heterogeneous Information Networks. - Zequn Liu; Kefei Duan; Junwei Yang; Hanwen Xu; Ming Zhang 004; Sheng Wang 012 (EMNLP, 2022)

HE-SNE: Heterogeneous Event Sequence-based Streaming Network Embedding for Dynamic Behaviors. - Yifan Wang 014; Jianhao Shen; Yiping Song; Sheng Wang 012; Ming Zhang 004 (IJCNN, 2022)

Graph-in-Graph Network for Automatic Gene Ontology Description Generation. - Fenglin Liu; Bang Yang; Chenyu You; Xian Wu 001; Shen Ge; Adelaide Woicik; Sheng Wang 012 (KDD, 2022)

Brain-Aware Replacements for Supervised Contrastive Learning in Detection of Alzheimer's Disease. - Mehmet Saygin Seyfioglu; Zixuan Liu 001; Pranav Kamath; Sadjyot Gangolli; Sheng Wang 012; Thomas J. Grabowski; Linda G. Shapiro (MICCAI (1), 2022)

Pathway2Text: Dataset and Method for Biomedical Pathway Description Generation. - Junwei Yang; Zequn Liu; Ming Zhang 004; Sheng Wang 012 (NAACL-HLT (Findings), 2022)

Seed-Guided Topic Discovery with Out-of-Vocabulary Seeds. - Yu Zhang 044; Yu Meng 001; Xuan Wang 008; Sheng Wang 012; Jiawei Han 001 (NAACL-HLT, 2022)

ProTranslator: Zero-Shot Protein Function Prediction Using Textual Description. - Hanwen Xu; Sheng Wang 012 (RECOMB, 2022)

scPretrain: multi-task self-supervised learning for cell-type classification. - Ruiyi Zhang; Yunan Luo; Jianzhu Ma; Ming Zhang 004; Sheng Wang 012 (Bioinform., 2022)

GraphPrompt: Graph-Based Prompt Templates for Biomedical Synonym Prediction. - Hanwen Xu; Jiayou Zhang; Zhirui Wang; Shizhuo Zhang; Megh Bhalerao; Yucong Liu; Dawei Zhu; Sheng Wang 012 (AAAI, 2023)

SST: Semantic and Structural Transformers for Hierarchy-aware Language Models in E-commerce. - Karan Samel; Houyu Zhang; Jun Ma 029; Haoming Jiang; Qing Ping; Sheng Wang 012; Yi Xu 011; Belinda Zeng; Trishul Chilimbi (IEEE Big Data, 2023)

ForeSeer: Product Aspect Forecasting Using Temporal Graph Embedding. - Zixuan Liu 001; Gaurush Hiranandani; Kun Qian 018; Edward W. Huang; Yi Xu 011; Belinda Zeng; Karthik Subbian; Sheng Wang 012 (CIKM, 2023)

Graph-Aware Language Model Pre-Training on a Large Graph Corpus Can Help Multiple Graph Applications. - Han Xie; Da Zheng; Jun Ma 029; Houyu Zhang; Vassilis N. Ioannidis; Xiang Song 003; Qing Ping; Sheng Wang 012; Carl Yang 001; Yi Xu 011; Belinda Zeng; Trishul Chilimbi (KDD, 2023)

Supervised biological network alignment with graph neural networks. - Kerr Ding; Sheng Wang 012; Yunan Luo (Bioinform., 2023)

Gemini: memory-efficient integration of hundreds of gene networks with high-order pooling. - Addie Woicik; Mingxin Zhang 008; Hanwen Xu; Sara Mostafavi; Sheng Wang 012 (Bioinform., 2023)

ChiMera: Learning with noisy labels by contrasting mixed-up augmentations. - Zixuan Liu 001; Xin Zhang; Junjun He; Dan Fu; Dimitris Samaras; Robby Tan; Xiao Wang 013; Sheng Wang 012 (CoRR, 2023)

POPDx: an automated framework for patient phenotyping across 392 246 individuals in the UK Biobank study. - Lu Yang; Sheng Wang 012; Russ B. Altman (J. Am. Medical Informatics Assoc., 2023)

Extrapolating heterogeneous time-series gene expression data using Sagittarius. - Addie Woicik; Mingxin Zhang 008; Janelle Chan; Jianzhu Ma; Sheng Wang 012 (Nat. Mac. Intell., 2023)

H2D: Hierarchical Heterogeneous Graph Learning Framework for Drug-Drug Interaction Prediction. - Ran Zhang 008; Xuezhi Wang 004; Sheng Wang 012; Kunpeng Liu 001; Yuanchun Zhou; Pengfei Wang 008 (CIKM, 2024)

A Comprehensive Survey of Scientific Large Language Models and Their Applications in Scientific Discovery. - Yu Zhang 044; Xiusi Chen; Bowen Jin; Sheng Wang 012; Shuiwang Ji; Wei Wang 010; Jiawei Han 001 (EMNLP, 2024)

MMICL: Empowering Vision-language Model with Multi-Modal In-Context Learning. - Haozhe Zhao; Zefan Cai; Shuzheng Si; Xiaojian Ma 001; Kaikai An; Liang Chen 024; Zixuan Liu 001; Sheng Wang 012; Wenjuan Han; Baobao Chang (ICLR, 2024)

Enhancing Hi-C contact matrices for loop detection with Capricorn: a multiview diffusion model. - Tangqi Fang; Yifeng Liu 004; Addie Woicik; Minsi Lu; Anupama Jha; Xiao Wang 013; Gang Li 034; Borislav H. Hristov; Zixuan Liu 001; Hanwen Xu; William S. Noble; Sheng Wang 012 (Bioinform., 2024)

T-Rex: Text-assisted Retrosynthesis Prediction. - Yifeng Liu 004; Hanwen Xu; Tangqi Fang; Haocheng Xi; Zixuan Liu 001; Sheng Zhang 012; Hoifung Poon; Sheng Wang 012 (CoRR, 2024)

Training Small Multimodal Models to Bridge Biomedical Competency Gap: A Case Study in Radiology Imaging. - Juan Manuel Zambrano Chaves; Shih-Cheng Huang; Yanbo Xu; Hanwen Xu; Naoto Usuyama; Sheng Zhang 012; Fei Wang 060; Yujia Xie; Mahmoud Khademi; Ziyi Yang; Hany Hassan Awadalla; Julia Gong; et al. (CoRR, 2024)

BiomedParse: a biomedical foundation model for image parsing of everything everywhere all at once. - Theodore Zhao; Yu Gu 017; Jianwei Yang; Naoto Usuyama; Ho Hin Lee; Tristan Naumann; Jianfeng Gao 001; Angela Crabtree; Jacob Abel; Christine Moung; Brian Piening; Carlo Bifulco; et al. (CoRR, 2024)

Panacea: A foundation model for clinical trial search, summarization, design, and recruitment. - Jiacheng Lin; Hanwen Xu; Zifeng Wang 008; Sheng Wang 012; Jimeng Sun 001 (CoRR, 2024)

OCTCube: A 3D foundation model for optical coherence tomography that improves cross-dataset, cross-disease, cross-device and cross-modality analysis. - Zixuan Liu 001; Hanwen Xu; Addie Woicik; Linda G. Shapiro; Marian Blazes; Yue Wu; Cecilia S. Lee; Aaron Y. Lee; Sheng Wang 012 (CoRR, 2024)

Unleashing the Power of LLMs as Multi-Modal Encoders for Text and Graph-Structured Data. - Jiacheng Lin; Kun Qian 018; Haoyu Han; Nurendra Choudhary; Tianxin Wei; Zhongruo Wang; Sahika Genc; Edward W. Huang; Sheng Wang 012; Karthik Subbian; Danai Koutra; Jimeng Sun 001 (CoRR, 2024)

FM-TS: Flow Matching for Time Series Generation. - Yang Hu; Xiao Wang 012; Lirong Wu; Huatian Zhang 001; Stan Z. Li; Sheng Wang 012; Tianlong Chen 001 (CoRR, 2024)

A bioactivity foundation model using pairwise meta-learning. - Bin Feng; Zequn Liu; Nan-Lan Huang; Zhiping Xiao 001; Haomiao Zhang; Srbuhi Mirzoyan; Hanwen Xu; Jiaran Hao; Yinghui Xu; Ming Zhang 004; Sheng Wang 012 (Nat. Mac. Intell., 2024)

Poisoning medical knowledge using large language models. - Junwei Yang; Hanwen Xu; Srbuhi Mirzoyan; Tong Chen; Zixuan Liu 001; Zequn Liu; Wei Ju 001; Luchen Liu; Zhiping Xiao 001; Ming Zhang 004; Sheng Wang 012 (Nat. Mac. Intell., 2024)

Data for "CryoNeRF: neural radiance field for homogeneous and heterogeneous cryo-EM reconstruction". - Huaizhi Qu; Xiao Wang 013; Yuanyuan Zhang; Sheng Wang 012; William S. Noble; Tianlong Chen 001 (Zenodo, 2025)

Data for "CryoNeRF: neural radiance field for homogeneous and heterogeneous cryo-EM reconstruction". - Huaizhi Qu; Xiao Wang 013; Yuanyuan Zhang; Sheng Wang 012; William S. Noble; Tianlong Chen 001 (Zenodo, 2025)

GrInAdapt: Scaling Retinal Vessel Structural Map Segmentation Through Grounding, Integrating and Adapting Multi-device, Multi-site, and Multi-modal Fundus Domains. - Zixuan Liu 001; Aaron Honjaya; Yuekai Xu; Yi Zhang; Hefu Pan; Xin Wang 113; Linda G. Shapiro; Sheng Wang 012; Ruikang K. Wang (CoRR, 2025)