Shyr Yu

Orcid: 0000-0003-2086-9670

According to our database1, Shyr Yu authored at least 47 papers between 1998 and 2024.

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Bibliography

2024
FindAdapt: A python package for fast and accurate adapter detection in small RNA sequencing.
PLoS Comput. Biol., January, 2024

2022
Dysregulated ligand-receptor interactions from single-cell transcriptomics.
Bioinform., 2022

Comprehensive evaluation of noise reduction methods for single-cell RNA sequencing data.
Briefings Bioinform., 2022

2021
MetaGSCA: A tool for meta-analysis of gene set differential coexpression.
PLoS Comput. Biol., 2021

PheWAS-ME: a web-app for interactive exploration of multimorbidity patterns in PheWAS.
Bioinform., 2021

2020
Bayesian Inference of Lymph Node Ratio Estimation and Survival Prognosis for Breast Cancer Patients.
IEEE J. Biomed. Health Informatics, 2020

2019
HACER: an atlas of human active enhancers to interpret regulatory variants.
Nucleic Acids Res., 2019

scRNABatchQC: multi-samples quality control for single cell RNA-seq data.
Bioinform., 2019

2018
RnaSeqSampleSize: real data based sample size estimation for RNA sequencing.
BMC Bioinform., 2018

Strategies for processing and quality control of Illumina genotyping arrays.
Briefings Bioinform., 2018

Power and sample size calculations for high-throughput sequencing-based experiments.
Briefings Bioinform., 2018

2017
Functional data classification using covariate-adjusted subspace projection.
Comput. Stat. Data Anal., 2017

StrandScript: evaluation of Illumina genotyping array design and strand correction.
Bioinform., 2017

2016
Proceedings of the 15th Annual UT-KBRIN Bioinformatics Summit 2016: Cadiz, KY, USA. 8-10 April 2016.
BMC Bioinform., August, 2016

Evidence Combination From an Evolutionary Game Theory Perspective.
IEEE Trans. Cybern., 2016

Mitochondria sequence mapping strategies and practicability of mitochondria variant detection from exome and RNA sequencing data.
Briefings Bioinform., 2016

2015
Practicality of identifying mitochondria variants from exome and RNAseq data.
BMC Bioinform., December, 2015

Population structure analysis on 2504 individuals across 26 ancestries using bioinformatics approaches.
BMC Bioinform., December, 2015

SWATH-MS in proteomics: current status.
Int. J. Comput. Biol. Drug Des., 2015

NGSPERL: a semi-automated framework for large scale next generation sequencing data analysis.
Int. J. Comput. Biol. Drug Des., 2015

Impact of Preference and Equivocators on Opinion Dynamics with Evolutionary Game Framework.
CoRR, 2015

Genome measures used for quality control are dependent on gene function and ancestry.
Bioinform., 2015


2014
Implementation and evaluation of an integrated computerized asthma management system in a pediatric emergency department: A randomized clinical trial.
Int. J. Medical Informatics, 2014

A comparison of microRNA sequencing reproducibility and noise reduction using mirVana and TRIzol isolation methods.
Int. J. Comput. Biol. Drug Des., 2014

Sample size determination for paired right-censored data based on the difference of Kaplan-Meier estimates.
Comput. Stat. Data Anal., 2014

CLIP-EZ: a computational tool for HITS-CLIP data analysis.
BMC Bioinform., 2014

Heatmap3: an improved heatmap package with more powerful and convenient features.
BMC Bioinform., 2014

DupChecker: a bioconductor package for checking high-throughput genomic data redundancy in meta-analysis.
BMC Bioinform., 2014

Detection of internal exon deletion with exon Del.
BMC Bioinform., 2014

2013
An asthma management system in a pediatric emergency department.
Int. J. Medical Informatics, 2013

Sample size calculation for differential expression analysis of RNA-seq data under Poisson distribution.
Int. J. Comput. Biol. Drug Des., 2013

Co-expression network analysis identifies Spleen Tyrosine Kinase (SYK) as a candidate oncogenic driver in a subset of small-cell lung cancer.
BMC Syst. Biol., 2013

Gene and isoform expression signatures associated with tumor stage in kidney renal clear cell carcinoma.
BMC Syst. Biol., 2013

Sample size calculation based on exact test for assessing differential expression analysis in RNA-seq data.
BMC Bioinform., 2013

MitoSeek: extracting mitochondria information and performing high-throughput mitochondria sequencing analysis.
Bioinform., 2013

2012
Statistical aspects of omics data analysis using the random compound covariate.
BMC Syst. Biol., 2012

Advances in systems biology: computational algorithms and applications.
BMC Syst. Biol., 2012

2011
Analyzing survival curves at a fixed point in time for paired and clustered right-censored data.
Comput. Stat. Data Anal., 2011

Wave-spec: a preprocessing package for mass spectrometry data.
Bioinform., 2011

2009
Web-based interrogation of gene expression signatures using EXALT.
BMC Bioinform., 2009

A novel comprehensive wave-form MS data processing method.
Bioinform., 2009

2008
Use of normalization methods for analysis of microarrays containing a high degree of gene effects.
BMC Bioinform., 2008

2007
A Practical Question Based on Cross-Platform microarray Data Normalization: are Boec More Like Large Vessel or microvascular Endothelial Cells or Neither of Them?
J. Bioinform. Comput. Biol., 2007

Wavelet-based procedures for proteomic mass spectrometry data processing.
Comput. Stat. Data Anal., 2007

2000
Registration of Physical Space to Laparoscopic Image Space for use in Minimally Invasive Hepatic Surgery.
IEEE Trans. Medical Imaging, 2000

1998
Visual Assessment of the Accuracy of Retrospective Registration of MR and CT Images of the Brain.
IEEE Trans. Medical Imaging, 1998


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