發表著作 | MBAL

2026

期刊 ⭐ Featured

LIMPACAT: Multi-omics Attention Transformer for Immune Prediction in Liver Cancer Using Whole-Slide Imaging

Chiu Y-J

PLoS ONE , 21(1) : e0339667 (2026)

multi-omicstransformerliver cancermedical imagingimmunology

DOI ↗

Proceeding

Comparative Evaluation of Drug Response Metrics for Predicting Cancer Sensitivity Using Transcriptomic Profiles

Chiu Y-J, Wu P-Q, Huang Y-H

BIO Web of Conferences , 232 : 01001 (2026)

drug responsetranscriptomicscancer sensitivitymachine learning

DOI ↗

2025

期刊

Machine Learning-Driven Transcriptome Analysis of Keratoconus for Predictive Biomarker Identification

Chang S-H, Yeh L-K, Hung K-H, Chiu Y-J, Hsieh C-H, Ma C-P

Biomedicines , 13(5) : 1032 (2025)

machine learningtranscriptomicsbiomarker

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Proceeding ⭐ Featured

Bridging VAE-Derived Latent Gene Representations and Graph Neural Networks for Improved Drug Response Prediction

Huang Y-H, Chiu Y-J

IEEE EMBC 2025 : 1–6 (2025)

GNNVAEdrug responsedeep learning

DOI ↗

Proceeding

Mutation-Based Survival Prediction in Hepatocellular Carcinoma: A Genomic Alternative Matching Transcriptomic Approaches

Chiu Y-J, Liu C-W, Lin Y-J, Huang Y-H

IEEE iFUZZY 2025 : 1–5 (2025)

mutationsurvival predictionliver cancergenomics

DOI ↗

Proceeding

Chunking for Medical Knowledge Dataset Construction and LLM-Based Question Answering

Chiu Y-J, Chang H-Y, Chuang C-C

ICBET 2025 — IEEE : 110–114 (2025)

LLMRAGmedical QAknowledge dataset

DOI ↗

Proceeding

Enhancing Medical Diagnosis with Fine-Tuned Large Language Models: Addressing Cardiogenic Pulmonary Edema (CPE)

Chiu Y-J, Chuang C-C, Hwa K-Y

ICBBE 2024 — ACM : 66–71 (2025)

LLMclinical decision supportmedical diagnosis

2024

期刊

Automated Medication Verification System (AMVS): System Based on Edge Detection and CNN Classification Drug on Embedded Systems

Chiu Y-J

Heliyon , 10(9) : e30486 (2024)

CNNedge detectionembedded systemsmedication safety

DOI ↗

2023

期刊 ⭐ Featured

Deconvolution of Bulk Gene Expression Profiles Reveals the Association Between Immune Cell Polarization and the Prognosis of Hepatocellular Carcinoma Patients

Chiu Y-J, Ni C-E, Huang Y-H

Cancer Medicine , 12(14) : 15736–15760 (2023)

deconvolutiontranscriptomicsimmune cellsliver cancerprecision oncology

DOI ↗

期刊 ⭐ Featured

HArmonized Single-cell RNA-seq Cell Type Assisted Deconvolution (HASCAD)

Chiu Y-J, Ni C-E, Huang Y-H

BMC Medical Genomics , 16(Suppl 2) : 272 (2023)

single-cellRNA-seqdeconvolutionbioinformatics

DOI ↗

期刊

TSSUNet-MB — Ab Initio Identification of σ70 Promoter Transcription Start Sites in Escherichia coli Using Deep Multitask Learning

Ni C-E, Doan D-P, Chiu Y-J, Huang Y-H

Computers & Biology and Chemistry , 105 : 107904 (2023)

deep learninggenomicstranscriptionbioinformatics

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Proceeding

FLAg: An Automated Client-Independent Federated Learning System on HPC for Digital Pathology Slice Training

Chiu Y-J, Chuang C-C, Wang Y-T, Yeh L-C, Rudon R-E, Lin K-W, Yang W-J, Fann Y-C, Chung P-C

IEEE CAI 2023 : 314–315 (2023)

federated learningdigital pathologyHPCdeep learning

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2022

期刊

Using Deep Learning and Adaptive Window Adjustment to Facilitate the Detection of Pulmonary Edema in Chest X-Rays

Chiu Y-J, Chuang C-C, Tang S-T

(2022)

deep learningmedical imagingchest X-raypulmonary edemaclinical AI

Proceeding

TSSNet — A Deep Neural Network Model for Predicting Prokaryotic Transcription Start Sites

Ni C-E, Doan D-P, Chiu Y-J, Huang Y-H

IEEE BIBE 2022 : 221–224 (2022)

deep learninggenomicstranscription start sitebioinformatics

DOI ↗

期刊

Time Series Multi-task Learning for Prognosis of MICU and SICU

Chiu Y-J, Wu S-H, Wu P-F, Chuang C-C, Hsiao M-L, Chen M-J, Chen P-R, Tang S-T

International Journal of Clinical Medicine and Bioengineering , 2(2) : 55–62 (2022)

time seriesmulti-task learningICU prognosisclinical AI

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2019

期刊

Improved Cell Composition Deconvolution Method of Bulk Gene Expression Profiles to Quantify Subsets of Immune Cells

Chiu Y-J, Hsieh Y-H, Huang Y-H

BMC Medical Genomics , 12(Suppl 8) : 169 (2019)

deconvolutionimmune cellsbulk RNA-seqbioinformatics

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