Author details

Full Name

Xuegong Zhang

Affiliation

ORCID

Career Start Year

2002

Papers

134

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
38008394	The spatial and single-cell analysis reveals remodeled immune microenvironment induced by synthetic oncolytic adenovirus treatment.		2024
37161402	The prognostic value of intraoperative HRV during anesthesia in patients presenting for non-cardiac surgery.		2023
37903634	Latent feature extraction with a prior-based self-attention framework for spatial transcriptomics.		2023
37770335	Detection and subtyping of hepatic echinococcosis from plain CT images with deep learning: a retrospective, multicentre study.		2023
37494428	simCAS: an embedding-based method for simulating single-cell chromatin accessibility sequencing data.		2023
34472588	ARIC: accurate and robust inference of cell type proportions from bulk gene expression or DNA methylation data.	Briefings in Bioinformatics	2022
35394015	scGraph: a graph neural network-based approach to automatically identify cell types.	Bioinformatics	2022
35452708	Discovering single-cell eQTLs from scRNA-seq data only.	Gene	2022
35428192	DualGCN: a dual graph convolutional network model to predict cancer drug response.	BMC Bioinformatics	2022
35926337	CS-CO: A Hybrid Self-Supervised Visual Representation Learning Method for H&E-stained Histopathological Images.	Medical Image Analysis	2022
35602947	hECA: The cell-centric assembly of a cell atlas.	iScience	2022
35350228	Toward a unified information framework for cell atlas assembly.	National Science Review	2022
36548025	Cellular features of localized microenvironments in human meniscal degeneration: a single-cell transcriptomic study.		2022
35293310	DeepCAGE: Incorporating Transcription Factors in Genome-wide Prediction of Chromatin Accessibility.	Genomics Proteomics Bioinformatics	2022
35073179	Multifaceted Spatial and Functional Zonation of Cardiac Cells in Adult Human Heart.	Circulation	2022
34606979	Single-cell Transcriptomes Reveal Characteristics of MicroRNAs in Gene Expression Noise Reduction.		2021
31647443	A Method for Generating Synthetic Electronic Medical Record Text.	IEEE/ACM Transactions on Computational Biology and Bioinformatics	2021
33751971	Responses of cyanobacterial aggregate microbial communities to algal blooms.	Water Res	2021
34165490	SOMDE: a scalable method for identifying spatially variable genes with self-organizing map.		2021
33468056	Prediction and analysis of metagenomic operons via MetaRon: a pipeline for prediction of Metagenome and whole-genome opeRons.	BMC Genomics	2021
33999180	OpenAnnotate: a web server to annotate the chromatin accessibility of genomic regions.	Nucleic Acids Res	2021
34096998	HGC: fast hierarchical clustering for large-scale single-cell data.		2021
34252941	stPlus: a reference-based method for the accurate enhancement of spatial transcriptomics.		2021
33141303	Single-cell genomic profile-based analysis of tissue differentiation in colorectal cancer.	Science China Life Sciences	2021
33416830	CellTracker: an automated toolbox for single-cell segmentation and tracking of time-lapse microscopy images.		2021
33327944	Using DenseFly algorithm for cell searching on massive scRNA-seq datasets.	BMC Genomics	2020
31981701	Single-cell alternative splicing analysis reveals dominance of single transcript variant.	Genomics	2020
33205121	An Experiment on Discovery of Biological Knowledge from scRNA-Seq Data Using Machine Learning.	Patterns	2020
33193662	Whole-Exome Sequencing of Discordant Monozygotic Twin Families for Identification of Candidate Genes for Microtia-Atresia.	Frontiers in Genetics	2020
30967110	Estimating the total genome length of a metagenomic sample using k-mers.	BMC Genomics	2019
30478535	Tongue coating microbiome as a potential biomarker for gastritis including precancerous cascade.	Protein and Cell	2019
30818912	[Identifying immunization strategy for preventing mother-to-child transmission of hepatitis B virus].	Zhonghua gan zang bing za zhi = Zhonghua ganzangbing zazhi = Chinese journal of hepatology	2019
30814546	Integrative modeling reveals key chromatin and sequence signatures predicting super-enhancers.	Scientific Reports	2019
29546410	SEASTAR: systematic evaluation of alternative transcription start sites in RNA.	Nucleic Acids Res	2018
30169995	Super-enhancers are transcriptionally more active and cell type-specific than stretch enhancers.	Epigenetics	2018
30016986	Making genome browsers portable and personal.		2018
29875359	Precise temporal regulation of alternative splicing during neural development.	Nature Communications	2018
30367578	Characterization of kinase gene expression and splicing profile in prostate cancer with RNA-Seq data.	BMC Genomics	2018
29688277	DEsingle for detecting three types of differential expression in single-cell RNA-seq data.		2018
28198669	ulfasQTL: an ultra-fast method of composite splicing QTL analysis.	BMC Genomics	2017
28542625	The identification of switch-like alternative splicing exons among multiple samples with RNA-Seq data.	PLoS ONE	2017
28977434	Network embedding-based representation learning for single cell RNA-seq data.	Nucleic Acids Research	2017
28577945	Systematic identification of cancer-related long noncoding RNAs and aberrant alternative splicing of quintuple-negative lung adenocarcinoma through RNA-Seq.	Lung Cancer	2017
27659221	Computational operon prediction in whole-genomes and metagenomes.	Briefings in Functional Genomics	2017
28061432	Identification and functional analysis of a novel LHX1 mutation associated with congenital absence of the uterus and vagina.	Oncotarget	2017
27744061	Precision Medicine: What Challenges Are We Facing?		2016
27427949	Epigenetic Switch Driven by DNA Inversions Dictates Phase Variation in Streptococcus pneumoniae.	PLoS Pathog	2016
27092944	The Influence of the Global Gene Expression Shift on Downstream Analyses.	PLoS ONE	2016
27212199	Exome Sequencing and Gene Prioritization Correct Misdiagnosis in a Chinese Kindred with Familial Amyloid Polyneuropathy.	Sci Rep	2016
27257017	CNV analysis in Chinese children of mental retardation highlights a sex differentiation in parental contribution to de novo and inherited mutational burdens.	Sci Rep	2016