Shu-Hwa Chen

发表

Over-expression of AURKA, SKA3 and DSN1 contributes to colorectal adenoma to carcinoma progression

Sheng-Yao Su, Chung-Yen Lin, Yuan-Tsong Chen, 2016, Oncotarget.

Interplay of RsbM and RsbK controls the s activity of Bacillus cereusemi_2788 1..12

Chien-Cheng Chen, Shu-Hwa Chen, Lei-Chin Chen, 2012 .

EpiMOLAS: an intuitive web-based framework for genome-wide DNA methylation analysis

Jan-Ming Ho, Chung-Yen Lin, Sheng-Yao Su, 2020, BMC Genomics.

Spotlight: assembly of protein complexes by integrating graph clustering methods.

M. Ko, Chin-Wen Ho, C. Hsiung, 2013, Gene.

Precise genotyping and recombination detection of Enterovirus

C. Hsiung, Chung-Yen Lin, Shu-Hwa Chen, 2015, BMC Genomics.

High-throughput profiling of influenza A virus hemagglutinin gene at single-nucleotide resolution

S. Nelson, R. Sun, Chung-Yen Lin, 2014, Scientific Reports.

Dual‐compartmental transcriptomic + proteomic analysis of a marine endosymbiosis exposed to environmental change

Chung-Yen Lin, Shu-Hwa Chen, Chii-Shiarng Chen, 2016, Molecular ecology.

TEA: the epigenome platform for Arabidopsis methylome study

Chung-Yen Lin, Sheng-Yao Su, Pao-Yang Chen, 2016, BMC Genomics.

De Novo Assembly of the Whole Transcriptome of the Wild Embryo, Preleptocephalus, Leptocephalus, and Glass Eel of Anguilla japonica and Deciphering the Digestive and Absorptive Capacities during Early Development

Chung-Yen Lin, K. Tsukamoto, Shu-Hwa Chen, 2015, PloS one.

Membrane Labeling of Coral Gastrodermal Cells by Biotinylation: The Proteomic Identification of Surface Proteins Involving Cnidaria-Dinoflagellate Endosymbiosis

Zi-Yu Huang, Shu-Hwa Chen, Chi-Yu Lu, 2014, PloS one.

1 High-throughput functional annotation of influenza A virus 1 genome at single-nucleotide resolution 2

S. Nelson, R. Sun, Chung-Yen Lin, 2014 .

SQUAT: a Sequencing Quality Assessment Tool for data quality assessments of genome assemblies

Jan-Ming Ho, Yu-Jung Chang, Chung-Yen Lin, 2019, BMC Genomics.

MetaSquare: an integrated metadatabase of 16S rRNA gene amplicon for microbiome taxonomic classification

Chung-Yen Lin, Shu-Hwa Chen, Chun-Chieh Liao, 2022, Bioinformatics.

Peptide-Based Drug Predictions for Cancer Therapy Using Deep Learning

Chung-Yen Lin, Shu-Hwa Chen, I-Hsuan Lu, 2022, bioRxiv.

The novel white spot syndrome virus-induced gene, PmERP15, encodes an ER stress-responsive protein in black tiger shrimp, Penaeus monodon.

Chung-Yen Lin, C. Lo, Shu-Hwa Chen, 2015, Developmental and comparative immunology.

Precise genotyping and recombination detection of Enterovirus

C. Hsiung, Chung-Yen Lin, Shu-Hwa Chen, 2015, BMC Genomics.

The degradation mechanisms of Rhodopseudomonas palustris toward hexabromocyclododecane by time-course transcriptome analysis

Chung-Yen Lin, Shu-Hwa Chen, Reuben Wang, 2021 .

Cloning of Two Crustacean Hyperglycemic Hormone Isoforms in Freshwater Giant Prawn (Macrobrachium rosenbergii): Evidence of Alternative Splicing

Chung-Yen Lin, Shu-Hwa Chen, C. Kuo, 2003, Marine Biotechnology.

cytoHubba: identifying hub objects and sub-networks from complex interactome

Chung-Yen Lin, Shu-Hwa Chen, Ming-Tat Ko, 2014, BMC Systems Biology.

A Review of the Major Penaeid Shrimp EST Studies and the Construction of a Shrimp Transcriptome Database Based on the ESTs from Four Penaeid Shrimp

Jan-Ming Ho, Sheng-Yao Su, Chung-Yen Lin, 2011, Marine Biotechnology.

Characterization of FN1–FGFR1 and novel FN1–FGF1 fusion genes in a large series of phosphaturic mesenchymal tumors

A. Folpe, Shyang-Rong Shih, Chung-Yen Lin, 2016, Modern Pathology.

AI4AVP: an antiviral peptides predictor in deep learning approach with generative adversarial network data augmentation

Chung-Yen Lin, Shu-Hwa Chen, I-Hsuan Lu, 2022, Bioinformatics advances.

Developing an Antiviral Peptides Predictor with Generative Adversarial Network Data Augmentation

Chung-Yen Lin, Shu-Hwa Chen, I-Hsuan Lu, 2021, bioRxiv.

Piwi reduction in the aged niche eliminates germline stem cells via Toll-GSK3 signaling

Chi-Hung Lin, Chung-Yen Lin, Shu-Hwa Chen, 2020, Nature Communications.

Sequencing and analysis of the transcriptome of the acorn worm Ptychodera flava, an indirect developing hemichordate.

Chung-Yen Lin, Shu-Hwa Chen, Hsiu-Chi Ting, 2014, Marine genomics.

EST and transcriptome analysis of cephalochordate amphioxus--past, present and future.

Shu-Hwa Chen, Chun-Yen Lin, Jr-Kai Yu, 2012, Briefings in functional genomics.

ESTand transcriptome analysis of cephalochordate amphioxusçpast , present and future

Shu-Hwa Chen, Chun-Yen Lin, Jr-Kai Yu, 2012 .

Piwi reduction in the aged niche eliminates germline stem cells via Toll-GSK3 signaling

Chi-Hung Lin, Chung-Yen Lin, Shu-Hwa Chen, 2020, Nature Communications.

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

Chung-Yen Lin, Long-fang O. Chen, Shu-Hwa Chen, 2015, BMC Plant Biology.

Using high-throughput transcriptome sequencing to investigate the biotransformation mechanism of hexabromocyclododecane with Rhodopseudomonas palustris in water.

Chung-Yen Lin, Shu-Hwa Chen, Reuben Wang, 2019, The Science of the total environment.

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

Chung-Yen Lin, Long-fang O. Chen, Shu-Hwa Chen, 2015, BMC Plant Biology.

GABOLA: A Reliable Gap-Filling Strategy for de novo Chromosome-Level Assembly

Jan-Ming Ho, Yu-Jung Chang, Shu-Hwa Chen, 2021, bioRxiv.

mySORT: A Web Framework by using Deconvolution Approach to Estimating Immune Cell Composition from Complex Tissues

Chung-Yen Lin, Shu-Hwa Chen, Bo-Yi Yu, 2020 .

UPS 2.0: unique probe selector for probe design and oligonucleotide microarrays at the pangenomic/ genomic level

Chen-Zen Lo, Sheng-Yao Su, Chung-Yen Lin, 2010, BMC Genomics.

The unique probe selector: a comprehensive web service for probe design and oligonucleotide arrays

Chung-Yen Lin, Shu-Hwa Chen, Chen-Zen Lo, 2008, BMC Bioinformatics.

A gene profiling deconvolution approach to estimating immune cell composition from complex tissues

Henry Horng-Shing Lu, Chung-Yen Lin, Sheng-Yao Su, 2018, BMC Bioinformatics.

High-throughput functional annotation of influenza A virus genome at single-nucleotide resolution

S. Nelson, R. Sun, Chung-Yen Lin, 2014, bioRxiv.

A metagenomics study of hexabromocyclododecane degradation with a soil microbial community.

Chung-Yen Lin, Shu-Hwa Chen, Yang-hsin Shih, 2022, Journal of hazardous materials.

Revealing the compositions of the intestinal microbiota of three Anguillid eel species using 16S rDNA sequencing

Chung-Yen Lin, Shu-Hwa Chen, Yu-San Han, 2018 .

A Comprehensive Functional Map of the Hepatitis C Virus Genome Provides a Resource for Probing Viral Proteins

Nicholas C. Wu, Ren Sun, Ting-Ting Wu, 2014, mBio.

Identification of a novel FN1–FGFR1 genetic fusion as a frequent event in phosphaturic mesenchymal tumour

A. Folpe, Yih-Leong Chang, Chen‐Tu Wu, 2015, The Journal of pathology.

Compartment-specific transcriptomics in a reef-building coral exposed to elevated temperatures

Chung-Yen Lin, Shu-Hwa Chen, A. Mayfield, 2014, Molecular ecology.

Interplay of RsbM and RsbK controls the σ(B) activity of Bacillus cereus.

Shu-Hwa Chen, Lei-Chin Chen, Jung-Chi Chen, 2012, Environmental microbiology.

Hubba: hub objects analyzer—a framework of interactome hubs identification for network biology

Chung-Yen Lin, Shu-Hwa Chen, Ming-Tat Ko, 2008, Nucleic Acids Res..

A Novel Genome Optimization Tool for Chromosome-Level Assembly across Diverse Sequencing Techniques

Jan-Ming Ho, Yu-Jung Chang, Chung-Yen Lin, 2023, bioRxiv.

SQUAT: a Sequencing Quality Assessment Tool for data quality assessments of genome assemblies

Jan-Ming Ho, Yu-Jung Chang, Chung-Yen Lin, 2019, BMC Genomics.

PALM: A Paralleled and Integrated Framework for Phylogenetic Inference with Automatic Likelihood Model Selectors

Chung-Yen Lin, Shu-Hwa Chen, Chen-Zen Lo, 2009, PloS one.

Primer Design Assistant (PDA): a web-based primer design tool

C. Y. Lin, S. H. Chen, C. S. Cho, 2003, Nucleic Acids Res..

Elegancy: Digitizing the wisdom from laboratories to the cloud with free no-code platform

Chung-Yen Lin, Shu-Hwa Chen, Wei-Hsuan Chuang, 2022, iScience.

POWER: PhylOgenetic WEb Repeater—an integrated and user-optimized framework for biomolecular phylogenetic analysis

Chung-Yen Lin, Shu-Hwa Chen, Fan-Kai Lin, 2005, Nucleic Acids Res..

Fly-DPI: database of protein interactomes for D. melanogaster in the approach of systems biology

Chia-Ling Chen, Chung-Yen Lin, Shu-Hwa Chen, 2006, BMC Bioinformatics.

A hub-attachment based method to detect functional modules from confidence-scored protein interactions and expression profiles

Chung-Yen Lin, Shu-Hwa Chen, Ming-Tat Ko, 2010, BMC Bioinformatics.

Intelligent De Novo Design of Novel Antimicrobial Peptides against Antibiotic-Resistant Bacteria Strains

Chung-Yen Lin, Shu-Hwa Chen, Yang-hsin Shih, 2023, International journal of molecular sciences.

In Silico Analysis of Crustacean Hyperglycemic Hormone Family

Shu-Hwa Chen, C. Kuo, C. Lin, 2005, Marine Biotechnology.