Zhixiang Lin

发表

Predicting transcription factor binding motifs from DNA-binding domains, chromatin accessibility and gene expression data

Rui Jiang, Yong Wang, Wing Hung Wong, 2017, Nucleic acids research.

CRISPhieRmix: a hierarchical mixture model for CRISPR pooled screens

Lei S. Qi, W. Wong, L. Qi, 2018, Genome Biology.

Unsupervised clustering and epigenetic classification of single cells

Alicia N. Schep, W. Wong, W. Greenleaf, 2017, Nature Communications.

A Markov random field-based approach for joint estimation of differentially expressed genes in mouse transcriptome data

Hongyu Zhao, Mingfeng Li, Zhixiang Lin, 2016, Statistical applications in genetics and molecular biology.

Dimensionality reduction for single cell RNA sequencing data using constrained robust non-negative matrix factorization

M. Ng, Zhixiang Lin, Shuqin Zhang, 2020, NAR genomics and bioinformatics.

AC-PCA: simultaneous dimension reduction and adjustment for confounding variation

John C. Duchi, W. Wong, Hongyu Zhao, 2016, bioRxiv.

scICML: Information-Theoretic Co-Clustering-Based Multi-View Learning for the Integrative Analysis of Single-Cell Multi-Omics Data

Zhixiang Lin, Pengcheng Zeng, 2022, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

Ac-pca Adjusts for Confounding Variation in Transcriptome Data and Recovers the Anatomical Structure of Neocortex

John C. Duchi, W. Wong, Hongyu Zhao, 2022 .

Adversarial domain translation networks for integrating large-scale atlas-level single-cell datasets

Justus M. Kebschull, Trygve E Bakken, Gabrielle J. Loeb, 2022, Nature Computational Science.

INSIDER: Interpretable Sparse Matrix Decomposition for Bulk RNA Expression Data Analysis

P. Sham, H. So, Zhixiang Lin, 2022, bioRxiv.

Adversarial domain translation networks enable fast and accurate large-scale atlas-level single-cell data integration

Gefei Wang, Yang Wang, A. Wu, 2021 .

RefTM: reference-guided topic modeling of single-cell chromatin accessibility data

Zhixiang Lin, Shengquan Chen, Zheng Zhang, 2022, Briefings Bioinform..

Weighted K-Means Clustering with Observation Weight for Single-Cell Epigenomic Data

Wenyu Zhang, Zhixiang Lin, Jiaxuan Wangwu, 2020 .

iPoLNG—An unsupervised model for the integrative analysis of single-cell multiomics data

Zhixiang Lin, Wenyu Zhang, 2023, Frontiers in Genetics.

Mendelian randomization for causal inference accounting for pleiotropy and sample structure using genome-wide summary statistics

Hongyu Zhao, Yang Wang, Heng Peng, 2022, bioRxiv.

MR-APSS: a unified approach to Mendelian Randomization accounting for pleiotropy and sample structure using genome-wide summary statistics

Hongyu Zhao, Yang Wang, Heng Peng, 2021 .

coupleCoC+: An information-theoretic co-clustering-based transfer learning framework for the integrative analysis of single-cell genomic data

Zhixiang Lin, Pengcheng Zeng, 2021, bioRxiv.

Coupled co-clustering-based unsupervised transfer learning for the integrative analysis of single-cell genomic data.

Pengcheng Zeng, Zhixiang Lin, Jiaxuan Wangwu, 2020, Briefings in bioinformatics.

Coupled Co-clustering-based Unsupervised Transfer Learning for the Integrative Analysis of Single-Cell Genomic Data

Pengcheng Zeng, Zhixiang Lin, Jiaxuan WangWu, 2020, bioRxiv.

Adversarial domain translation networks for fast and accurate integration of large-scale atlas-level single-cell datasets

Gefei Wang, Yang Wang, A. Wu, 2021, bioRxiv.

RA3 is a reference-guided approach for epigenetic characterization of single cells

Wenyu Zhang, Rui Jiang, Shengquan Chen, 2020, Nature Communications.

A MARKOV RANDOM FIELD-BASED APPROACH TO CHARACTERIZING HUMAN BRAIN DEVELOPMENT USING SPATIAL-TEMPORAL TRANSCRIPTOME DATA.

Hongyu Zhao, Mingfeng Li, Zhixiang Lin, 2015, The annals of applied statistics.

FIRM: Fast Integration of single-cell RNA-sequencing data across Multiple platforms

Xiang Wan, Can Yang, Zhixiang Lin, 2020 .

scAMACE: Model-based approach to the joint analysis of single-cell data on chromatin accessibility, gene expression and methylation

Zhixiang Lin, Zexuan Sun, Jiaxuan Wangwu, 2021, bioRxiv.

Divergence in a master variator generates distinct phenotypes and transcriptional responses

Hongyu Zhao, Wei Zheng, B. Dunn, 2014, Genes & development.

Simultaneous inference of phenotype-associated genes and relevant tissues from GWAS data via Bayesian integration of multiple tissue-specific gene networks

Rui Jiang, Wing Hung Wong, Ting Chen, 2017, Journal of molecular cell biology.

FIRM: Flexible Integration of single-cell RNA-sequencing data for large-scale Multi-tissue cell atlas datasets

A. Wu, X. Wan, Can Yang, 2020, bioRxiv.

Simultaneous dimension reduction and adjustment for confounding variation

Can Yang, Bai Jiang, Yong Wang, 2016, Proceedings of the National Academy of Sciences.

SpatialScope: A unified approach for integrating spatial and single-cell transcriptomics data using deep generative models

Yang Wang, A. Wu, X. Wan, 2023, bioRxiv.

scAWMV: an adaptively weighted multi-view learning framework for the integrative analysis of parallel scRNA-seq and scATAC-seq data

Yuanyuan Ma, Zhixiang Lin, Pengcheng Zeng, 2022, Bioinform..

On joint estimation of Gaussian graphical models for spatial and temporal data

Tao Wang, Can Yang, Hongyu Zhao, 2015, Biometrics.

Predicting transcription factor binding motifs from DNA-binding domains, chromatin accessibility and gene expression data

R. Jiang, Mahdi Zamanighomi, Zhixiang Lin, 2017, Nucleic acids research.

Model-Based Approach to the Joint Analysis of Single-Cell Data on Chromatin Accessibility and Gene Expression

Timothy Daley, Wing Hung Wong, Mahdi Zamanighomi, 2020, Statistical Science.

Elastic Coupled Co-clustering for Single-Cell Genomic Data pdf

Pengcheng Zeng, Zhixiang Lin, Zhixiang Lin, 2020, ArXiv.

CRISPhieRmix: a hierarchical mixture model for CRISPR pooled screens

Lei S. Qi, Zhixiang Lin, Xueqiu Lin, 2018, Genome Biology.

RA3 is a reference-guided approach for epigenetic characterization of single cells

R. Jiang, Zhixiang Lin, Guanao Yan, 2021, Nature Communications.

SR2: Sparse Representation Learning for Scalable Single-cell RNA Sequencing Data Analysis

H. So, Zhixiang Lin, Kai Zhao, 2023, bioRxiv.