List of works - Chien-Yu Chen

A novel radial basis function network classifier with centers set by hierarchical clustering

A statistics-based approach to control the quality of subclusters in incremental gravitational clustering

scholarly article by Chien-Yu Chen et al published December 2005 in Pattern Recognition

ANXA7, PPP3CB, DNAJC9, and ZMYND17 genes at chromosome 10q22 associated with the subgroup of schizophrenia with deficits in attention and executive function

scientific article

Analysis and summarization of correlations in data cubes

Cross-generation and cross-laboratory predictions of Affymetrix microarrays by rank-based methods

scientific article published on 4 December 2007

DBD2BS: connecting a DNA-binding protein with its binding sites

scientific article

Data classification with a relaxed model of variable kernel density estimation

Data classification with radial basis function networks based on a novel kernel density estimation algorithm

scientific article

De novo motif discovery facilitates identification of interactions between transcription factors in Saccharomyces cerevisiae ⬇️

scientific article published on January 11, 2012

De novo transcriptome sequencing of axolotl blastema for identification of differentially expressed genes during limb regeneration

scientific article

Design of an incremental clustering package for protein function and family analysis

Detecting homogeneity in protein sequence clusters for automatic functional annotation and noise detection

Differential activation of sporamin expression in response to abiotic mechanical wounding and biotic herbivore attack in the sweet potato

scientific article

Discovering gapped binding sites of yeast transcription factors

scholarly article

Discovery of genes related to insecticide resistance in Bactrocera dorsalis by functional genomic analysis of a de novo assembled transcriptome

scientific article

E1DS: catalytic site prediction based on 1D signatures of concurrent conservation

scientific article published on 4 June 2008

Efficient Discovery of Structural Motifs from Protein Sequences with Combination of Flexible Intra- and Inter-block Gap Constraints

Emergence of differentially regulated pathways associated with the development of regional specificity in chicken skin

scientific article

Expediting protein structural analysis with an efficient kernel density estimation algorithm

Exploiting homogeneity in protein sequence clusters for construction of protein family hierarchies

Expression of HOXB genes is significantly different in acute myeloid leukemia with a partial tandem duplication of MLL vs. a MLL translocation: a cross-laboratory study

article

GenEpi: gene-based epistasis discovery using machine learning

scientific article published on 24 February 2020

Gene expression variation increase in trisomy 21 tissues.

scientific article published in June 2008

Identification of cucurbitacins and assembly of a draft genome for Aquilaria agallocha

scientific article

Identification of hot regions in protein-protein interactions by sequential pattern mining

scientific article

Incremental generation of summarized clustering hierarchy for protein family analysis

scientific article published on 06 May 2004

Intellectual disability-associated dBRWD3 regulates gene expression through inhibition of HIRA/YEM-mediated chromatin deposition of histone H3.3.

scientific article

MAGIIC-PRO: detecting functional signatures by efficient discovery of long patterns in protein sequences

scientific article

MAGIIC-PRO: detecting functional signatures by efficient discovery of long patterns in protein sequences

scientific article published in March 2008

Pattern classification in DNA microarray data of multiple tumor types

scholarly article by Tsun-Chen Lin et al published December 2006 in Pattern Recognition

PiDNA: Predicting protein-DNA interactions with structural models

scientific article published on 22 May 2013

Predicting DNA-binding locations and orientation on proteins using knowledge-based learning of geometric properties

scientific article

Predicting DNA-binding locations and orientation on proteins using knowledge-based learning of geometric properties

Predicting target DNA sequences of DNA-binding proteins based on unbound structures

scientific article

Prediction of Outer Membrane Proteins by Support Vector Machines Using Combinations of Gapped Amino Acid Pair Compositions

article

Prediction of protein secondary structures with a novel kernel density estimation based classifier.

scientific article

ProteMiner-SSM: a web server for efficient analysis of similar protein tertiary substructures

scientific article published on July 2004

Protein disorder prediction by condensed PSSM considering propensity for order or disorder

scientific article

Sequence composition analysis on arsenic-binding proteins in human cells

article

Statistical identification of gene association by CID in application of constructing ER regulatory network

scientific article

The effect of red light and far-red light conditions on secondary metabolism in agarwood

scientific article published on 12 June 2015

The opportunistic marine pathogen Vibrio parahaemolyticus becomes virulent by acquiring a plasmid that expresses a deadly toxin

scientific article

WildSpan: mining structured motifs from protein sequences

scientific article

iPDA: integrated protein disorder analyzer

scientific article published on 6 June 2007

pubmedKB: an interactive web server for exploring biomedical entity relations in the biomedical literature

scientific article published on 18 April 2022

seeMotif: exploring and visualizing sequence motifs in 3D structures

scientific article published on 28 May 2009

List of works by Chien-Yu Chen

A novel radial basis function network classifier with centers set by hierarchical clustering

A statistics-based approach to control the quality of subclusters in incremental gravitational clustering

ANXA7, PPP3CB, DNAJC9, and ZMYND17 genes at chromosome 10q22 associated with the subgroup of schizophrenia with deficits in attention and executive function

Analysis and summarization of correlations in data cubes

Cross-generation and cross-laboratory predictions of Affymetrix microarrays by rank-based methods

DBD2BS: connecting a DNA-binding protein with its binding sites

Data classification with a relaxed model of variable kernel density estimation

Data classification with radial basis function networks based on a novel kernel density estimation algorithm

De novo motif discovery facilitates identification of interactions between transcription factors in Saccharomyces cerevisiae ⬇️

De novo transcriptome sequencing of axolotl blastema for identification of differentially expressed genes during limb regeneration

Design of an incremental clustering package for protein function and family analysis

Detecting homogeneity in protein sequence clusters for automatic functional annotation and noise detection

Differential activation of sporamin expression in response to abiotic mechanical wounding and biotic herbivore attack in the sweet potato

Discovering gapped binding sites of yeast transcription factors

Discovery of genes related to insecticide resistance in Bactrocera dorsalis by functional genomic analysis of a de novo assembled transcriptome

E1DS: catalytic site prediction based on 1D signatures of concurrent conservation

Efficient Discovery of Structural Motifs from Protein Sequences with Combination of Flexible Intra- and Inter-block Gap Constraints

Emergence of differentially regulated pathways associated with the development of regional specificity in chicken skin

Expediting protein structural analysis with an efficient kernel density estimation algorithm

Exploiting homogeneity in protein sequence clusters for construction of protein family hierarchies

Expression of HOXB genes is significantly different in acute myeloid leukemia with a partial tandem duplication of MLL vs. a MLL translocation: a cross-laboratory study

GenEpi: gene-based epistasis discovery using machine learning

Gene expression variation increase in trisomy 21 tissues.

Identification of cucurbitacins and assembly of a draft genome for Aquilaria agallocha

Identification of hot regions in protein-protein interactions by sequential pattern mining

Incremental generation of summarized clustering hierarchy for protein family analysis

Intellectual disability-associated dBRWD3 regulates gene expression through inhibition of HIRA/YEM-mediated chromatin deposition of histone H3.3.

MAGIIC-PRO: detecting functional signatures by efficient discovery of long patterns in protein sequences

MAGIIC-PRO: detecting functional signatures by efficient discovery of long patterns in protein sequences

Pattern classification in DNA microarray data of multiple tumor types

PiDNA: Predicting protein-DNA interactions with structural models

Predicting DNA-binding locations and orientation on proteins using knowledge-based learning of geometric properties

Predicting DNA-binding locations and orientation on proteins using knowledge-based learning of geometric properties

Predicting target DNA sequences of DNA-binding proteins based on unbound structures

Prediction of Outer Membrane Proteins by Support Vector Machines Using Combinations of Gapped Amino Acid Pair Compositions

Prediction of protein secondary structures with a novel kernel density estimation based classifier.

ProteMiner-SSM: a web server for efficient analysis of similar protein tertiary substructures

Protein disorder prediction by condensed PSSM considering propensity for order or disorder

Sequence composition analysis on arsenic-binding proteins in human cells

Statistical identification of gene association by CID in application of constructing ER regulatory network

The effect of red light and far-red light conditions on secondary metabolism in agarwood

The opportunistic marine pathogen Vibrio parahaemolyticus becomes virulent by acquiring a plasmid that expresses a deadly toxin

WildSpan: mining structured motifs from protein sequences

iPDA: integrated protein disorder analyzer

pubmedKB: an interactive web server for exploring biomedical entity relations in the biomedical literature

seeMotif: exploring and visualizing sequence motifs in 3D structures