李国君

2026

Cross-layer structure information fusion for deep multi-view clustering

Expert Systems With Applications，Vol. 301

DOI

2026

TransGram for heterogeneity-aware transcriptome reconstruction from long read RNA-Seq data

Nature Communications

DOI

2025

A Randomized FPT Approximation Algorithm for Sorting Unsigned Genomes by Translocations: Breaking the 1.375 Approximation Barrier

Lecture notes in computer science

DOI

2024

TransBic: bucket trend-preserving biclustering for finding local and interpretable expression patterns

Briefings in Bioinformatics

DOI

2024

Highly efficient clustering of long-read transcriptomic data with GeLuster

Bioinformatics

DOI

2024

FP-Zernike: An Open-source Structural Database Construction Toolkit for Fast Structure Retrieval

Genomics Proteomics & Bioinformatics

DOI

2024

TDFPS-Designer: an efficient toolkit for barcode design and selection in nanopore sequencing

Genome biology

DOI

2024

Generating barcodes for nanopore sequencing data with PRO

Fundamental Research

DOI

2023

Prediction of Cancer Driver Genes through Integrated Analysis of Differentially Expressed Genes at the Individual Level

Current Bioinformatics

DOI

2023

ARBic: an all-round biclustering algorithm for analyzing gene expression data

NAR Genomics and Bioinformatics

DOI

2023

scQA: A dual-perspective cell type identification model for single cell transcriptome data

Computational and Structural Biotechnology Journal

DOI

2023

HycDemux: a hybrid unsupervised approach for accurate barcoded sample demultiplexing in nanopore sequencing

Genome biology

DOI

2022

RNANetMotif: Identifying sequence-structure RNA network motifs in RNA-protein binding sites

PLoS Computational Biology

DOI

2021

Clustering single-cell RNA-seq data by rank constrained similarity learning

Bioinformatics

DOI

2021

Identification of Common Driver Gene Modules and Associations between Cancers through Integrated Network Analysis

Global Challenges

DOI

2020

Robust and ultrafast fiducial marker correspondence in electron tomography by a two-stage algorithm considering local constraints

Bioinformatics

DOI

2020

RecBic: a fast and accurate algorithm recognizing trend-preserving biclusters

Bioinformatics

DOI

2020

iPAC: a genome-guided assembler of isoforms via phasing and combing paths

Bioinformatics

DOI

2020

KSP: an integrated method for predicting catalyzing kinases of phosphorylation sites in proteins

BMC Genomics

DOI

2019

DCGR: feature extractions from protein sequences based on CGR via remodeling multiple information

BMC Bioinformatics

DOI

2019

ProSampler: an ultrafast and accurate motif finder in large ChIP-seq datasets for combinatory motif discovery

Bioinformatics

DOI

2019

scRNAss: a single-cell RNA-seq assembler via imputing dropouts and combing junctions

Bioinformatics

DOI

2019

Revealing favorable and unfavorable residues in cooperative positions in protease cleavage sites

Biochemical and Biophysical Research Communications

DOI

2019

MiMod: A New Algorithm for Mining Biological Network Modules

IEEE Access

DOI

2018

Prediction of Driver Modules via Balancing Exclusive Coverages of Mutations in Cancer Samples

Advanced Science

DOI

2018

MaxMIF: A New Method for Identifying Cancer Driver Genes through Effective Data Integration

Advanced Science

DOI

2017

Block-based characterization of protease specificity from substrate sequence profile

BMC Bioinformatics

DOI

2017

Identification of driver modules in pan-cancer via coordinating coverage and exclusivity

Oncotarget

DOI

2016

An Insight into Species from Same Descendent Aspect and the Application into Clostridia

Current Bioinformatics

DOI

2016

An integrative and applicable phylogenetic footprinting framework for cis-regulatory motifs identification in prokaryotic genomes

BMC Genomics

DOI

2016

UniBic: Sequential row-based biclustering algorithm for analysis of gene expression data

Scientific Reports

DOI

2016

Bacterial regulon modeling and prediction based on systematic cis regulatory motif analyses

Scientific Reports

DOI

2016

BinPacker: Packing-Based De Novo Transcriptome Assembly from RNA-seq Data

PLoS Computational Biology

DOI

2016

Equitable and List Equitable Colorings of Graphs with Bounded Maximum Average Degree

Ars Comb.

2016

Maximally edge-connected graphs and Zeroth-order general Randić index for $$\alpha \le -1$$α≤-1

Journal of combinatorial optimization

DOI

2015

Integrative enrichment analysis: a new computational method to detect dysregulated pathways in heterogeneous samples

BMC Genomics

DOI

2015

Unravelling personalized dysfunctional gene network of complex diseases based on differential network model

Journal of Translational Medicine

DOI

2015

Bridger: a new framework for de novo transcriptome assembly using RNA-seq data

Genome biology

DOI

2014

Elucidation of Operon Structures across Closely Related Bacterial Genomes

PLoS ONE

DOI

2014

Coloring the Square of Sierpiński Graphs

Graphs and Combinatorics

DOI

2014

The Impacts of Read Length and Transcriptome Complexity for De Novo Assembly: A Simulation Study

PLoS ONE

DOI

2014

eMBI: Boosting Gene Expression-based Clustering for Cancer Subtypes

Cancer Informatics

DOI

2013

Prediction and early diagnosis of complex diseases by edge-network

Bioinformatics

DOI

2013

Shortest paths in Sierpiński graphs

Discrete Applied Mathematics

DOI

2013

An integrated toolkit for accurate prediction and analysis ofcis-regulatory motifs at a genome scale

Bioinformatics

DOI

2013

List edge and list total colorings of planar graphs without non-induced 7-cycles

Discrete Mathematics & Theoretical Computer Science

DOI

2013

Bi-Factor Analysis Based on Noise-Reduction (BIFANR): A New Algorithm for Detecting Coevolving Amino Acid Sites in Proteins

PLoS ONE

DOI

2013

Equitable and list equitable colorings of planar graphs without 4-cycles

Discrete Mathematics

DOI

2013

Computational analyses of transcriptomic data reveal the dynamic organization of the Escherichia coli chromosome under different conditions

Nucleic Acids Research

DOI

2013

The Linear t-Colorings of Sierpiński-Like Graphs

Graphs and Combinatorics

DOI

2013

Notes on Hamiltonian Graphs and Hamiltonian-Connected Graphs

Ars Comb.

2013

Edge-disjoint spanning trees and eigenvalues of graphs

DOI

2012

The hamiltonicity and path t -coloring of Sierpiński-like graphs

Discrete Applied Mathematics

DOI

2012

Neighborhood Unions for the Existence of Disjoint Chorded Cycles in Graphs

Graphs and Combinatorics

DOI

2012

Every Cycle-Connected Multipartite Tournament with δ ≥ 2 Contains At Least Two Universal Arcs

Graphs and Combinatorics

DOI

2012

QServer: A Biclustering Server for Prediction and Assessment of Co-Expressed Gene Clusters

PLoS ONE

DOI

2012

Vertex-Disjoint Cycles of Order Eight with Chords in a Bipartite Graph

2012

LIST EDGE AND LIST TOTAL COLORINGS OF PLANAR GRAPHS WITHOUT 6-CYCLES WITH CHORD

DOI

2012

Equitable Coloring and Equitable Choosability of Planar Graphs without 6- and 7-Cycles

Ars Comb.

2011

Genome-wide discovery of missing genes in biological pathways of prokaryotes

BMC Bioinformatics

DOI

2011

The Linear Arboricity of Planar Graphs without 5-, 6-Cycles with Chords

Graphs and Combinatorics

DOI

2011

Componentwise complementary cycles in multipartite tournaments

Acta Mathematicae Applicatae Sinica English Series

DOI

2011

Integration of sequence-similarity and functional association information can overcome intrinsic problems in orthology mapping across bacterial genomes

Nucleic Acids Research

DOI

2011

Ore-type conditions for bipartite graphs containing hexagons

Discrete Mathematics

DOI

2011

A Simulated Annealing Algorithm for Resource Allocation and Scheduling with Precedence Constraints in the GLECLUBS/eGLECLUBS Pipelines

IEEE International Conference on Computational Science and Engineering (CSE)

DOI

2011

A vertex cover with chorded 4-cycles

DOI

2011

On 2-Factors with Chorded Quadrilaterals in Graphs

Ars Comb.

2011

On the Maximum Number of Disjoint Chorded Cycles in Graphs

Ars Comb.

2010

A Polynomial Time Approximation Scheme for Embedding Hypergraph in a Weighted Cycle

Lecture notes in computer science

DOI

2010

A new framework for identifying cis-regulatory motifs in prokaryotes

Nucleic Acids Research

DOI

2010

On a Sharp Degree Sum Condition for Disjoint Chorded Cycles in Graphs

Graphs and Combinatorics

DOI

2010

A PTAS for embedding a directed hypergraphin a tree of rings

DOI

2009

Sorting Genomes by Reciprocal Translocations, Insertions, and Deletions

IEEE Transactions on Computational Biology and Bioinformatics

DOI

2009

A UNIVERSAL OPERON PREDICTOR FOR PROKARYOTIC GENOMES

Journal of Bioinformatics and Computational Biology

DOI

2009

A polynomial-time approximation scheme for embedding hypergraph in a cycle

ACM Transactions on Algorithms

DOI

2009

MUST: A system for identification of miniature inverted-repeat transposable elements and applications to Anabaena variabilis and Haloquadratum walsbyi

Gene

DOI

2009

DISJOINT SMALL CYCLES IN GRAPHS

2008

Sorting by transpositions: dealing with length-weighted models

International Journal of Bioinformatics Research and Applications

DOI

2008

An effective algorithm of motif finding problem

International Journal of Bioinformatics Research and Applications

DOI

2008

On 2-factors with cycles containing specified vertices in a bipartite graph

Journal of Applied Mathematics and Computing

DOI

2008

A Recently Active Miniature Inverted-Repeat Transposable Element, Chunjie, Inserted Into an Operon Without Disturbing the Operon Structure in Geobacter uraniireducens Rf4

Genetics

DOI

2008

Degree condition for the existence of a k -factor containing a given Hamiltonian cycle

Discrete Mathematics

DOI

2008

Removable edges of cycles in 5-connected graphs

Journal of Applied Mathematics and Computing

DOI

2008

Unbounded batch scheduling with a common due window on a single machine*

Journal of Systems Science and Complexity

DOI

2008

Prospectous for Embedding Hypergraph in a Cycle

Journal of Liaocheng University

2008

Disjoint Cycles and Chorded Cycles in Graphs

International Conference on Foundations of Computer Science

2007

An Algorithm for Simultaneous Backbone Threading and Side-Chain Packing

Algorithmica

DOI

2007

PREDICTION OF cis-REGULATORY ELEMENTS: FROM HIGH-INFORMATION CONTENT ANALYSIS TO MOTIF IDENTIFICATION

Journal of Bioinformatics and Computational Biology

DOI

2007

Componentwise Complementary Cycles in Almost Regular 3-Partite Tournaments

Lecture notes in computer science

DOI

2007

Perfect sorting by reversals and deletions

Journal of Shandong University

2007

Embedding hypergraph in trees of rings

Journal of Shandong University

2007

Removable Edges of a Spanning Tree in 3-Connected 3-Regular Graphs

Springer eBooks

DOI

2006

极小化完工时间和的有界批调度问题(英文)

《应用数学》

2006

基因组重组问题的一个更快算法(英文)

《应用数学》

2006

基于设施选址问题的费用分配问题的近似算法

《计算机工程与应用》

2006

MINIMIZING TOTAL WEIGHTED COMPLETION TIME ON IDENTICAL PARALLEL BATCH MACHINES

International Journal of Foundations of Computer Science

DOI

2006

SORTING SIGNED PERMUTATIONS BY FIXED-LENGTH REVERSALS

International Journal of Foundations of Computer Science

DOI

2006

SORTING GENOMES BY TRANSLOCATIONS AND DELETIONS

DOI

2006

Batch Scheduling with a Common Due Window on a Single Machine

Lecture notes in computer science

DOI

2006

Problem of Complementary Cycles with One of Length 6

2005

Minimizing makespan with release times on identical parallel batching machines

Discrete Applied Mathematics

DOI

2005

On Connected [g,f +1]-Factors in Graphs

COMBINATORICA

DOI

2005

Corrigendum to Proof of Chvátal's conjecture on maximal stable sets and maximal cliques in graphs

Journal of Combinatorial Theory Series B

DOI

2005

A PTAS for Semiconductor Burn-in Scheduling

Journal of Combinatorial Optimization

DOI

2004

WDM网络中的排序与波长分配问题的一个多项式时间近似方案(英文)

《应用数学》

2004

Minimizing makespan on a single batching machine with release times and non-identical job sizes

Operations Research Letters

DOI

2004

A Linear Time Algorithm for the Minimum-weight Feedback Vertex Set Problem in Series-parallel Graphs

Acta Mathematicae Applicatae Sinica English Series

DOI

2004

Two feedback problems for graphs with bounded tree-width

Applied mathematics/Applied Mathematics. A Journal of Chinese Universities/Gao-xiao yingyong shuxue xuebao

DOI

2004

Proof of Chvátal's conjecture on maximal stable sets and maximal cliques in graphs

Journal of Combinatorial Theory Series B

DOI

2004

A Linear-Time Algorithm for Computing Translocation Distance between Signed Genomes

Lecture notes in computer science

DOI

2004

Minimizing Maximum Lateness on Identical Parallel Batch Processing Machines

Lecture notes in computer science

DOI

2004

A PTAS for Embedding Hypergraph in a Cycle

Lecture notes in computer science

DOI

2003

环形全光WDM网络的波长分配

《应用数学学报》

2003

图中推广的正交因子分解

《数学学报(中文版)》

2003

A 2-approximation algorithm for path coloring on a restricted class of trees of rings

Journal of Algorithms

DOI

2003

Genetic Design of Drugs Without Side-Effects

SIAM journal on computing (Print)

DOI

2002

Center and Distinguisher for Strings with Unbounded Alphabet

Journal of Combinatorial Optimization

DOI

2002

A PTAS for Minimizing Total Completion Time of Bounded Batch Scheduling

Lecture notes in computer science

DOI

2002

Hamiltonian cycles in 3-connected Claw-free graphs

Discrete Mathematics

DOI

2002

Orthogonal factorizations of graphs

Discrete Mathematics

DOI

2002

A PTAS for Distinguishing (Sub)string Selection

Lecture notes in computer science

DOI

2002

On Connected [k, k+1]-Factors in Claw-Free Graphs

Ars Comb.

2001

A Generalization of Orthogonal Factorizations in Graphs

DOI

2000

Orthogonal (g, f)-factorizations in networks

Networks

DOI

2000

A 2-Approximation Algorithm for Path Coloring on Trees of Rings

Lecture notes in computer science

DOI

2000

Edge disjoint Hamilton cycles in graphs

Journal of Graph Theory

DOI

1999

Disjoint Hamiltonian cycles in graphs

The Australasian Journal of Combinatorics

1998

(g, f)-factorizations orthogonal to a subgraph in graphs

Science in China Series A Mathematics

DOI

1995

与任意图正交的（g,f）—因子分解

DOI

1992

约束最小权生成树的近似算法和分枝定界算法

《鲁东大学学报(自然科学版)》

2026

CellDETR: A Detection-Guided Framework for Scalable Cell Representation Learning from Histopathology Images

arXiv preprint

2025

GLASS: A Graph Learning Algorithm for Screening Splice-Aware Alignments of Long-Read RNA-seq data

bioRxiv (Cold Spring Harbor Laboratory)

DOI

2023

Clustering scRNA-seq data via qualitative and quantitative analysis

bioRxiv (Cold Spring Harbor Laboratory)

DOI

2022

TransMeta simultaneously assembles multisample RNA-seq reads

Genome Research

DOI

2018

BicGO: a new biclustering algorithm based on global optimization

bioRxiv (Cold Spring Harbor Laboratory)

DOI

2018

Ultra-fast and accurate motif finding in large ChIP-seq datasets reveals transcription factor binding patterns

bioRxiv (Cold Spring Harbor Laboratory)

DOI