Wei Zhang

39 papers A* 4A 5Journal 26Unranked 4
YearRankTypeTitle / Venue / Authors
2026 J jnl
EpGAT: integrating epigenetics and 3D genome structure to predict alternative splicing and polyadenylation.
Briefings Bioinform.
Sudipto Baul, Naima Ahmed Fahmi, Guangyu Wang, Hao Zheng, Ahmed Louri, Jeongsik Yong, Wei Zhang
2026 J jnl
X-intNMF: a cross- and intra-omics regularized NMF framework for multi-omics integration.
Bioinform.
Tien-Thanh Bui, Rui Xie, Wei Zhang
2025 — conf
Biological Pathway Guided Gene Selection Through Collaborative Reinforcement Learning.
KDD (2)
Ehtesamul Azim, Dongjie Wang, Tae Hyun Hwang, Yanjie Fu, Wei Zhang
2025 J jnl
Biological Pathway Guided Gene Selection Through Collaborative Reinforcement Learning.
CoRR
Ehtesamul Azim, Dongjie Wang, Tae Hyun Hwang, Yanjie Fu, Wei Zhang
2025 J jnl
IPScan: Detecting novel intronic PolyAdenylation events with RNA-seq data.
PLoS Comput. Biol.
Naima Ahmed Fahmi, Sze Cheng, Jeovani Overstreet, Qianqian Song, Jeongsik Yong, Wei Zhang
2025 J jnl
Measuring Computational Universality of Fully Homomorphic Encryption.
CoRR
Jiaqi Xue, Xin Xin, Wei Zhang, Mengxin Zheng, Qianqian Song, Minxuan Zhou, Yushun Dong, Dongjie Wang, Xun Chen, Jiafeng Xie, Liqiang Wang, David Mohaisen, Hongyi Wu, Qian Lou
2025 J jnl
SynOmics: integrating multi-omics data through feature interaction networks.
Briefings Bioinform.
Muhtasim Noor Alif, Wei Zhang
2024 J jnl
A 65-nm RRAM Compute-in-Memory Macro for Genome Processing.
IEEE J. Solid State Circuits
Fan Zhang, Amitesh Sridharan, Wangxin He, Injune Yeo, Maximilian Liehr, Wei Zhang, Nathaniel C. Cady, Yu Cao, Jae-sun Seo, Deliang Fan
2024 J jnl
DTI-LM: language model powered drug-target interaction prediction.
Bioinform.
Khandakar Tanvir Ahmed, Md. Istiaq Ansari, Wei Zhang
2024 A conf
Feature Interaction Aware Automated Data Representation Transformation.
SDM
Ehtesamul Azim, Dongjie Wang, Kunpeng Liu, Wei Zhang, Yanjie Fu
2024 J jnl
Integrating spatial transcriptomics and bulk RNA-seq: predicting gene expression with enhanced resolution through graph attention networks.
Briefings Bioinform.
Sudipto Baul, Khandakar Tanvir Ahmed, Qibing Jiang, Guangyu Wang, Qian Li, Jeongsik Yong, Wei Zhang
2024 J jnl
Optimizing multi-omics data imputation with NMF and GAN synergy.
Bioinform.
Md. Istiaq Ansari, Khandakar Tanvir Ahmed, Wei Zhang
2023 J jnl
Aligner-D: Leveraging In-DRAM Computing to Accelerate DNA Short Read Alignment.
IEEE J. Emerg. Sel. Topics Circuits Syst.
Fan Zhang, Shaahin Angizi, Jiao Sun, Wei Zhang, Deliang Fan
2023 A conf
Attention-Based Multi-modal Missing Value Imputation for Time Series Data with High Missing Rate.
SDM
Khandakar Tanvir Ahmed, Sudipto Baul, Yanjie Fu, Wei Zhang
2023 J jnl
Feature Cognition Enhancement via Interaction-Aware Automated Transformation.
CoRR
Ehtesamul Azim, Dongjie Wang, Kunpeng Liu, Wei Zhang, Yanjie Fu
2023 J jnl
Incomplete time-series gene expression in integrative study for islet autoimmunity prediction.
Briefings Bioinform.
Khandakar Tanvir Ahmed, Sze Cheng, Qian Li, Jeongsik Yong, Wei Zhang
2022 J jnl
APA-Scan: detection and visualization of 3′-UTR alternative polyadenylation with RNA-seq and 3′-end-seq data.
BMC Bioinform.
Naima Ahmed Fahmi, Khandakar Tanvir Ahmed, Jae-Woong Chang, Heba Nassereddeen, Deliang Fan, Jeongsik Yong, Wei Zhang
2022 J jnl
CancerCellTracker: a brightfield time-lapse microscopy framework for cancer drug sensitivity estimation.
Bioinform.
Qibing Jiang, Praneeth Sudalagunta, Maria C. Silva, Rafael R. Canevarolo, Xiaohong Zhao, Khandakar Tanvir Ahmed, Raghunandan Reddy Alugubelli, Gabriel Deavila, Alexandre Tungesvik, Lia Perez, Robert A. Gatenby, Robert J. Gillies, Rachid Baz, Mark B. Meads, Kenneth H. Shain, Ariosto Siqueira Silva, Wei Zhang
2021 J jnl
In silico model for miRNA-mediated regulatory network in cancer.
Briefings Bioinform.
Khandakar Tanvir Ahmed, Jiao Sun, William Chen, Irene Martinez, Sze Cheng, Wencai Zhang, Jeongsik Yong, Wei Zhang
2021 A conf
Multi-Armed Bandit Based Feature Selection.
SDM
Kunpeng Liu, Haibo Huang, Wei Zhang, Ahmad Hariri, Yanjie Fu, Kien A. Hua
2021 J jnl
Multi-omics data integration by generative adversarial network.
Bioinform.
Khandakar Tanvir Ahmed, Jiao Sun, Sze Cheng, Jeongsik Yong, Wei Zhang
2021 A* conf
PIM-Quantifier: A Processing-in-Memory Platform for mRNA Quantification.
DAC
Fan Zhang, Shaahin Angizi, Naima Ahmed Fahmi, Wei Zhang, Deliang Fan
2020 — conf
Exploring DNA Alignment-in-Memory Leveraging Emerging SOT-MRAM.
ACM Great Lakes Symposium on VLSI
Shaahin Angizi, Wei Zhang, Deliang Fan
2020 J jnl
Network-based multi-task learning models for biomarker selection and cancer outcome prediction.
Bioinform.
Zhibo Wang, Zhezhi He, Milan Shah, Teng Zhang, Deliang Fan, Wei Zhang
2020 J jnl
PANDA: Processing-in-MRAM Accelerated De Bruijn Graph based DNA Assembly.
CoRR
Shaahin Angizi, Naima Ahmed Fahmi, Wei Zhang, Deliang Fan
2020 A conf
PIM-Aligner: A Processing-in-MRAM Platform for Biological Sequence Alignment.
DATE
Shaahin Angizi, Jiao Sun, Wei Zhang, Deliang Fan
2020 A* conf
PIM-Assembler: A Processing-in-Memory Platform for Genome Assembly.
DAC
Shaahin Angizi, Naima Ahmed Fahmi, Wei Zhang, Deliang Fan
2020 J jnl
Platform-integrated mRNA isoform quantification.
Bioinform.
Jiao Sun, Jae-Woong Chang, Teng Zhang, Jeongsik Yong, Rui Kuang, Wei Zhang
2019 A* conf
AlignS: A Processing-In-Memory Accelerator for DNA Short Read Alignment Leveraging SOT-MRAM.
DAC
Shaahin Angizi, Jiao Sun, Wei Zhang, Deliang Fan
2019 A conf
GraphS: A Graph Processing Accelerator Leveraging SOT-MRAM.
DATE
Shaahin Angizi, Jiao Sun, Wei Zhang, Deliang Fan
2019 A* conf
Learning a Low-Rank Tensor of Pharmacogenomic Multi-relations from Biomedical Networks.
ICDM
Zhuliu Li, Wei Zhang, Rong Stephanie Huang, Rui Kuang
2017 J jnl
Low-rank Label Propagation for Semi-supervised Learning with 100 Millions Samples.
CoRR
Raphael Petegrosso, Wei Zhang, Zhuliu Li, Yousef Saad, Rui Kuang
2015 J jnl
Network-Based Isoform Quantification with RNA-Seq Data for Cancer Transcriptome Analysis.
PLoS Comput. Biol.
Wei Zhang, Jae-Woong Chang, Lilong Lin, Kay Minn, Baolin Wu, Jeremy Chien, Jeongsik Yong, Hui Zheng, Rui Kuang
2014 J jnl
Network-based Transcript Quantification with RNA-Seq Data.
CoRR
Wei Zhang, Kay Minn, Lilong Lin, Baolin Wu, Jeremy Chien, Hui Zheng, Rui Kuang
2013 J jnl
Network-based Survival Analysis Reveals Subnetwork Signatures for Predicting Outcomes of Ovarian Cancer Treatment.
PLoS Comput. Biol.
Wei Zhang, Takayo Ota, Viji Shridhar, Jeremy Chien, Baolin Wu, Rui Kuang
2012 — conf
Signed network propagation for detecting differential gene expressions and DNA copy number variations.
BCB
Wei Zhang, Nicholas Johnson, Baolin Wu, Rui Kuang
2011 J jnl
Inferring Disease and Gene Set Associations with Rank Coherence in Networks
CoRR
Taehyun Hwang, Wei Zhang, Maoqiang Xie, Rui Kuang
2011 J jnl
Inferring disease and gene set associations with rank coherence in networks.
Bioinform.
Taehyun Hwang, Wei Zhang, Maoqiang Xie, Jinfeng Liu, Rui Kuang
2010 — conf
Network propagation models for gene selection.
GENSiPS
Wei Zhang, Baryun Hwang, Baolin Wu, Rui Kuang