Chien-Yu Chen

53 papers B 7C 6Journal 29Unranked 11
YearRankTypeTitle / Venue / Authors
2025 J jnl
A large language model framework for literature-based disease-gene association prediction.
Briefings Bioinform.
Peng-Hsuan Li, Yih-Yun Sun, Hsueh-Fen Juan, Chien-Yu Chen, Huai-Kuang Tsai, Jia-Hsin Huang
2024 J jnl
CAVACHON: a hierarchical variational autoencoder to integrate multi-modal single-cell data.
CoRR
Ping-Han Hsieh, Ru-Xiu Hsiao, Katalin Ferenc, Anthony Mathelier, Rebekka Burkholz, Chien-Yu Chen, Geir Kjetil Sandve, Tatiana Belova, Marieke L. Kuijjer
2024 — conf
Evaluating the Performance of Protein Structure Prediction in Detecting Structural Changes of Pathogenic Nonsynonymous Single Nucleotide Variants.
BIOSTEC (1)
Hong-Sheng Lai, Chien-Yu Chen
2022 J jnl
pubmedKB: an interactive web server for exploring biomedical entity relations in the biomedical literature.
Nucleic Acids Res.
Peng-Hsuan Li, Ting-Fu Chen, Jheng-Ying Yu, Shang-Hung Shih, Chan-Hung Su, Yin-Hung Lin, Huai-Kuang Tsai, Hsueh-Fen Juan, Chien-Yu Chen, Jia-Hsin Huang
2021 J jnl
DockCoV2: a drug database against SARS-CoV-2.
Nucleic Acids Res.
Ting-Fu Chen, Yu-Chuan Chang, Yi Hsiao, Ko-Han Lee, Yu-Chun Hsiao, Yu-Hsiang Lin, Yi-Chin Ethan Tu, Hsuan-Cheng Huang, Chien-Yu Chen, Hsueh-Fen Juan
2021 — conf
Evaluation of using WGS/WES to characterize ACMG actionable genes in genetic testing reports.
BIBM
Wen-Tse Yang, Dong-Chi Wu, Jen-Feng Liu, Jin-Bon Hong, June-Tai Wu, Pei-Lung Chen, Chien-Yu Chen
2021 J jnl
ezGeno: an automatic model selection package for genomic data analysis.
Bioinform.
Jun-Liang Lin, Tsung-Ting Hsieh, Yi-An Tung, Xuan-Jun Chen, Yu-Chun Hsiao, Chia-Lin Yang, Tyng-Luh Liu, Chien-Yu Chen
2020 C conf
Comprehensive Study of Keywords for Sequence-Based Automatic Annotation of Protein Functions.
BIBE
Yu-Cheng Li, Mao-Jan Lin, Xiao-Xuan Huang, Chien-Yu Chen, Yi-Chang Lu
2020 J jnl
GenEpi: gene-based epistasis discovery using machine learning.
BMC Bioinform.
Yu-Chuan Chang, June-Tai Wu, Ming-Yi Hong, Yi-An Tung, Ping-Han Hsieh, Sook Wah Yee, Kathleen M. Giacomini, Yen-Jen Oyang, Chien-Yu Chen
2019 C conf
Predicting Pathogenic Non-coding Variants on Imbalanced Data Set using Cluster Ensemble Sampling.
BIBE
Kai-Wen Chuang, Chien-Yu Chen
2018 — conf
Advanced Ear Detection Algorithm Using Faster R-CNN, Refocus Filters, and the Gradient Map.
DSP
Chien-Yu Chen, Jian-Jiun Ding, Chen-Wei Huang
2018 C conf
Advanced Orientation Robust Face Detection Algorithm Using Prominent Features and Hybrid Learning Techniques.
VCIP
Chien-Yu Chen, Jian-Jiun Ding, Hung-Wei Hsu, Yih-Cherng Lee
2013 J jnl
PiDNA: predicting protein-DNA interactions with structural models.
Nucleic Acids Res.
Chih-Kang Lin, Chien-Yu Chen
2012 J jnl
DBD2BS: connecting a DNA-binding protein with its binding sites.
Nucleic Acids Res.
Ting-Ying Chien, Chih-Kang Lin, Chih-Wei Lin, Yi-Zhong Weng, Chien-Yu Chen, Darby Tien-Hao Chang
2011 J jnl
WildSpan: mining structured motifs from protein sequences.
Algorithms Mol. Biol.
Chen-Ming Hsu, Chien-Yu Chen, Baw-Jhiune Liu
2010 — conf
Predicting DNA-binding locations and orientation on proteins using knowledge-based learning of geometric properties.
BIBM
Chien-Chih Wang, Chien-Yu Chen
2010 — conf
Sequence composition analysis on arsenic-binding proteins in human cells.
BIBM Workshops
Yi-An Tung, Yu-Ying Chang, Rong-Nan Huang, Chien-Yu Chen
2009 J jnl
Statistical identification of gene association by CID in application of constructing ER regulatory network.
BMC Bioinform.
Li-Yu Daisy Liu, Chien-Yu Chen, Mei-Ju May Chen, Ming-Shian Tsai, Cho-Han S. Lee, Tzu L. Phang, Li-Yun Chang, Wen-Hung Kuo, Hsiao-Lin Hwa, Huang-Chun Lien, Shih-Ming Jung, Yi-Shing Lin, King-Jen Chang, Fon-Jou Hsieh
2009 J jnl
seeMotif: exploring and visualizing sequence motifs in 3D structures.
Nucleic Acids Res.
Darby Tien-Hao Chang, Ting-Ying Chien, Chien-Yu Chen
2008 J jnl
Cross-generation and cross-laboratory predictions of Affymetrix microarrays by rank-based methods.
J. Biomed. Informatics
Hsi-Che Liu, Chien-Yu Chen, Yu-Ting Liu, Cheng-Bang Chu, Der-Cherng Liang, Lee-Yung Shih, Chih-Jen Lin
2008 J jnl
E1DS: catalytic site prediction based on 1D signatures of concurrent conservation.
Nucleic Acids Res.
Ting-Ying Chien, Darby Tien-Hao Chang, Chien-Yu Chen, Yi-Zhong Weng, Chen-Ming Hsu
2007 — conf
Enhancing Protein Disorder Detection by Refined Secondary Structure Prediction.
BIRD
Chung-Tsai Su, Tong-Ming Hsu, Chien-Yu Chen, Yu-Yen Ou, Yen-Jen Oyang
2007 J jnl
Identification of hot regions in protein-protein interactions by sequential pattern mining.
BMC Bioinform.
Chen-Ming Hsu, Chien-Yu Chen, Baw-Jhiune Liu, Chih-Chang Huang, Min-Hung Laio, Chien-Chieh Lin, Tzung-Lin Wu
2007 — conf
Prediction of Protein Secondary Structures with a Novel Kernel Density Estimator.
MLMTA
Yen-Jen Oyang, Darby Tien-Hao Chang, Yu-Yen Ou, Hao-Geng Hung, Chien-Yu Chen
2007 J jnl
iPDA: integrated protein disorder analyzer.
Nucleic Acids Res.
Chung-Tsai Su, Chien-Yu Chen, Chen-Ming Hsu
2006 B conf
Efficient Discovery of Structural Motifs from Protein Sequences with Combination of Flexible Intra- and Inter-block Gap Constraints.
PAKDD
Chen-Ming Hsu, Chien-Yu Chen, Ching-Chi Hsu, Baw-Jhiune Liu
2006 J jnl
Exploiting homogeneity in protein sequence clusters for construction of protein family hierarchies.
Pattern Recognit.
Chien-Yu Chen, Wen-Chin Chung, Chung-Tsai Su
2006 J jnl
MAGIIC-PRO: detecting functional signatures by efficient discovery of long patterns in protein sequences.
Nucleic Acids Res.
Chen-Ming Hsu, Chien-Yu Chen, Baw-Jhiune Liu
2006 J jnl
Pattern classification in DNA microarray data of multiple tumor types.
Pattern Recognit.
Tsun-Chen Lin, Ru-Sheng Liu, Chien-Yu Chen, Ya-Ting Chao, Shu-Yuan Chen
2006 J jnl
Protein disorder prediction by condensed PSSM considering propensity for order or disorder.
BMC Bioinform.
Chung-Tsai Su, Chien-Yu Chen, Yu-Yen Ou
2005 B conf
A novel radial basis function network classifier with centers set by hierarchical clustering.
IJCNN
Yu-Yen Ou, Yen-Jen Oyang, Chien-Yu Chen
2005 J jnl
A statistics-based approach to control the quality of subclusters in incremental gravitational clustering.
Pattern Recognit.
Chien-Yu Chen, Shien-Ching Hwang, Yen-Jen Oyang
2005 J jnl
Analysis and summarization of correlations in data cubes and its application in microarray data analysis.
Intell. Data Anal.
Chien-Yu Chen, Shien-Ching Hwang, Yen-Jen Oyang
2005 B conf
Data classification with a relaxed model of variable kernel density estimation.
IJCNN
Yen-Jen Oyang, Yu-Yen Ou, Shien-Ching Hwang, Chien-Yu Chen, Darby Tien-Hao Chang
2005 J jnl
Data classification with radial basis function networks based on a novel kernel density estimation algorithm.
IEEE Trans. Neural Networks
Yen-Jen Oyang, Shien-Ching Hwang, Yu-Yen Ou, Chien-Yu Chen, Zhi-Wei Chen
2005 B conf
Genetic algorithms and silhouette measures applied to microarray data classification.
APBC
Tsun-Chen Lin, Ru-Sheng Liu, Shu-Yuan Chen, Chen-Chung Liu, Chien-Yu Chen
2005 C conf
Prediction of Outer Membrane Proteins by Support Vector Machines Using Combinations of Gapped Amino Acid Pair Compositions.
BIBE
Ssu-Hua Huang, Ru-Sheng Liu, Chien-Yu Chen, Ya-Ting Chao, Shu-Yuan Chen
2004 C conf
An Efficient Mechanism for Prediction of Protein-Ligand Interactions Based on Analysis of Protein Tertiary Substructures.
BIBE
Darby Tien-Hao Chang, Chien-Yu Chen, Yen-Jen Oyang, Hsueh-Fen Juan, Hsuan-Cheng Huang
2004 J jnl
Image Reconstruction With Improved Super-Resolution Algorithm.
Int. J. Pattern Recognit. Artif. Intell.
Chien-Yu Chen, Yu-Chuan Kuo, Chiou-Shann Fuh
2004 J jnl
Incremental generation of summarized clustering hierarchy for protein family analysis.
Bioinform.
Chien-Yu Chen, Yen-Jen Oyang, Hsueh-Fen Juan
2004 J jnl
ProteMiner-SSM: a web server for efficient analysis of similar protein tertiary substructures.
Nucleic Acids Res.
Darby Tien-Hao Chang, Chien-Yu Chen, Wen-Chin Chung, Yen-Jen Oyang, Hsueh-Fen Juan, Hsuan-Cheng Huang
2004 B conf
The Combination of Kaiser Window and Moving Average for the Low-Pass Filtering of the Remote ECG Signals.
CBMS
Ying-Wen Bai, Wen-Yang Chu, Chien-Yu Chen, Yi-Ting Lee, Yi-Ching Tsai, Cheng-Hung Tsai
2003 — conf
Design of an incremental clustering package for protein function and family analysis.
ISMSE
Chien-Yu Chen, Hsueh-Fen Juan, Po-Jen Hsiao, Shui-Tein Chen, Hsiang-Wen Tseng, Yen-Jen Oyang
2003 B conf
Expediting model selection for Support Vector Machines based on data reduction.
SMC
Yu-Yen Ou, Chien-Yu Chen, Shien-Ching Hwang, Yen-Jen Oyang
2003 — conf
Expediting protein structural analysis with an efficient kernel density estimation algorithm.
ISMSE
Yen-Jen Oyang, Darby Tien-Hao Chang, Chien-Yu Chen, Shien-Ching Hwang
2003 J jnl
Geometric Reed-Solomon codes of length 64 and 65 over F
IEEE Trans. Inf. Theory
Chien-Yu Chen, Iwan M. Duursma
2003 J jnl
Material compatibility constraints for make-to-order production planning.
Oper. Res. Lett.
Michael O. Ball, Chien-Yu Chen, Zhen-Ying Zhao
2002 B conf
An Incremental Hierarchical Data Clustering Algorithm Based on Gravity Theory.
PAKDD
Chien-Yu Chen, Shien-Ching Hwang, Yen-Jen Oyang
2002 — conf
Analysis and summarization of correlations in data cubes.
Data Mining and Knowledge Discovery: Theory, Tools, and Technology
Chien-Yu Chen, Shien-Ching Hwang, Yen-Jen Oyang
2001 J jnl
A Programmable Parallel VLSI Architecture for 2-D Discrete Wavelet Transform.
J. VLSI Signal Process.
Chien-Yu Chen, Zhong-Lan Yang, Tu-Chih Wang, Liang-Gee Chen
2001 — conf
A Study on the Hierarchical Data Clustering Algorithm Based on Gravity Theory.
PKDD
Yen-Jen Oyang, Chien-Yu Chen, Tsui-Wei Yang
2001 J jnl
Quantity and Due Date Quoting Available to Promise.
Inf. Syst. Frontiers
Chien-Yu Chen, Zhen-Ying Zhao, Michael O. Ball
2000 C conf
A programmable VLSI architecture for 2-D discrete wavelet transform.
ISCAS
Chien-Yu Chen, Zhong-Lan Yang, Tu-Chih Wang, Liang-Gee Chen