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Ruan, Jianhua

One or more keywords matched the following properties of Ruan, Jianhua

Property	Value
overview	My research interests lie in the broad area of bioinformatics, computational systems biology, and data mining. More specifically, my current research is focused on the following three directions: (1) module discovery and analysis in complex networks, with applications in protein complex prediction and microarray data clustering; (2) modeling and analysis of transcriptional/post-transcriptional regulatory networks (e.g. DNA motif finding and ChIP-seq data analysis); and (3) network-based biomarker discovery and disease classification via integrated analysis of heterogonous functional genomics data such as gene expression, protein-protein interactions, and microRNA-mRNA interactions. My research has been sponsored by NIH, NSF, and the San Antonio Life Sciences Institute.

Property

Value

overview

My research interests lie in the broad area of bioinformatics, computational systems biology, and data mining. More specifically, my current research is focused on the following three directions: (1) module discovery and analysis in complex networks, with applications in protein complex prediction and microarray data clustering; (2) modeling and analysis of transcriptional/post-transcriptional regulatory networks (e.g. DNA motif finding and ChIP-seq data analysis); and (3) network-based biomarker discovery and disease classification via integrated analysis of heterogonous functional genomics data such as gene expression, protein-protein interactions, and microRNA-mRNA interactions. My research has been sponsored by NIH, NSF, and the San Antonio Life Sciences Institute.

One or more keywords matched the following items that are connected to Ruan, Jianhua

Item Type	Name
Academic Article	An ensemble learning approach to reverse-engineering transcriptional regulatory networks from time-series gene expression data.
Academic Article	A general co-expression network-based approach to gene expression analysis: comparison and applications.
Academic Article	A systems biology approach to the identification and analysis of transcriptional regulatory networks in osteocytes.
Academic Article	A novel swarm intelligence algorithm for finding DNA motifs.
Academic Article	Systematic identification of functional modules and cis-regulatory elements in Arabidopsis thaliana.
Academic Article	A Steiner tree-based method for biomarker discovery and classification in breast cancer metastasis.
Academic Article	A novel link prediction algorithm for reconstructing protein-protein interaction networks by topological similarity.
Academic Article	A genome-wide cis-regulatory element discovery method based on promoter sequences and gene co-expression networks.
Academic Article	Network-based Pathway Enrichment Analysis.
Academic Article	Promoter hypomethylation of EpCAM-regulated bone morphogenetic protein gene family in recurrent endometrial cancer.
Academic Article	A personalized committee classification approach to improving prediction of breast cancer metastasis.
Academic Article	A novel algorithm for network-based prediction of cancer recurrence.
Academic Article	Logo2PWM: a tool to convert sequence logo to position weight matrix.
Academic Article	Network-Based Single-Cell RNA-Seq Data Imputation Enhances Cell Type Identification.
Concept	Regression Analysis
Concept	Cluster Analysis
Concept	Sequence Analysis, DNA
Concept	Sequence Analysis, RNA
Concept	Oligonucleotide Array Sequence Analysis
Academic Article	An iterated loop matching approach to the prediction of RNA secondary structures with pseudoknots.
Academic Article	ILM: a web server for predicting RNA secondary structures with pseudoknots.
Academic Article	A bi-dimensional regression tree approach to the modeling of gene expression regulation.
Academic Article	CAGER: classification analysis of gene expression regulation using multiple information sources.
Academic Article	Cis-regulatory element based targeted gene finding: genome-wide identification of abscisic acid- and abiotic stress-responsive genes in Arabidopsis thaliana.
Academic Article	Characterization and identification of microRNA core promoters in four model species.
Academic Article	Plasticity of the systemic inflammatory response to acute infection during critical illness: development of the riboleukogram.
Academic Article	Cell density-dependent transcriptional activation of endocrine-related genes in human adipose tissue-derived stem cells.
Academic Article	Spatial mapping of single cells in the Drosophila embryo from transcriptomic data based on topological consistency.

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Data mining
analysis