Works by Guanghua Xiao

Results: 106

Statistical completion of a partially identified graph with applications for the estimation of gene regulatory networks.

Published in:

2015

By:

DONGHYEON YU;
WON SON;
JOHAN LIM;
GUANGHUA XIAO;
Yu, Donghyeon;
Son, Won;
Lim, Johan;
Xiao, Guanghua

Publication type:

journal article

High KYNU Expression Is Associated with Poor Prognosis, KEAP1 / STK11 Mutations, and Immunosuppressive Metabolism in Patient-Derived but Not Murine Lung Adenocarcinomas.

Published in:

Cancers, 2025, v. 17, n. 10, p. 1681, doi. 10.3390/cancers17101681

By:

Cai, Ling;
Rogers, Thomas J.;
Mousavi Jafarabad, Reza;
Vu, Hieu;
Yang, Chendong;
Novaresi, Nicole;
Galán-Cobo, Ana;
Girard, Luc;
Ostrin, Edwin J.;
Fahrmann, Johannes F.;
Kim, Jiyeon;
Heymach, John V.;
O'Donnell, Kathryn A.;
Xiao, Guanghua;
Xie, Yang;
DeBerardinis, Ralph J.;
Minna, John D.

Publication type:

Article

Nuclear Receptor Expression Defines a Set of Prognostic Biomarkers for Lung Cancer.

Published in:

PLoS Medicine, 2010, v. 7, n. 12, p. 1, doi. 10.1371/journal.pmed.1000378

By:

Yangsik Jeong;
Yang Xie;
Guanghua Xiao;
Behrens, Carmen;
Girard, Luc;
Wistuba, Ignacio I.;
Minna, John D.;
Mangelsdorf, David J.

Publication type:

Article

Integrating germline and somatic genetics to identify genes associated with lung cancer.

Published in:

Genetic Epidemiology, 2020, v. 44, n. 3, p. 233, doi. 10.1002/gepi.22275

By:

Pattee, Jack;
Zhan, Xiaowei;
Xiao, Guanghua;
Pan, Wei

Publication type:

Article

Integrative gene set enrichment analysis utilizing isoform-specific expression.

Published in:

Genetic Epidemiology, 2017, v. 41, n. 6, p. 498, doi. 10.1002/gepi.22052

By:

Li, Lie;
Wang, Xinlei;
Xiao, Guanghua;
Gazdar, Adi

Publication type:

Article

SbacHTS: Spatial background noise correction for High-Throughput RNAi Screening.

Published in:

Bioinformatics, 2013, v. 29, n. 17, p. 2218, doi. 10.1093/bioinformatics/btt358

By:

Zhong, Rui;
Kim, Min Soo;
White, Michael A.;
Xie, Yang;
Xiao, Guanghua

Publication type:

Article

A powerful Bayesian meta-analysis method to integrate multiple gene set enrichment studies.

Published in:

Bioinformatics, 2013, v. 29, n. 7, p. 862, doi. 10.1093/bioinformatics/btt068

By:

Chen, Min;
Zang, Miao;
Wang, Xinlei;
Xiao, Guanghua

Publication type:

Article

Deep Learning-Based Automated Measurement of Murine Bone Length in Radiographs.

Published in:

Bioengineering (Basel), 2024, v. 11, n. 7, p. 670, doi. 10.3390/bioengineering11070670

By:

Rong, Ruichen;
Denton, Kristin;
Jin, Kevin W.;
Quan, Peiran;
Wen, Zhuoyu;
Kozlitina, Julia;
Lyon, Stephen;
Wang, Aileen;
Wise, Carol A.;
Beutler, Bruce;
Yang, Donghan M.;
Li, Qiwei;
Rios, Jonathan J.;
Xiao, Guanghua

Publication type:

Article

Deep-Learning-Based Hepatic Ploidy Quantification Using H&E Histopathology Images.

Published in:

Genes, 2023, v. 14, n. 4, p. 921, doi. 10.3390/genes14040921

By:

Wen, Zhuoyu;
Lin, Yu-Hsuan;
Wang, Shidan;
Fujiwara, Naoto;
Rong, Ruichen;
Jin, Kevin W.;
Yang, Donghan M.;
Yao, Bo;
Yang, Shengjie;
Wang, Tao;
Xie, Yang;
Hoshida, Yujin;
Zhu, Hao;
Xiao, Guanghua

Publication type:

Article

Large-Scale Profiling of RBP-circRNA Interactions from Public CLIP-Seq Datasets.

Published in:

Genes, 2020, v. 11, n. 1, p. 54, doi. 10.3390/genes11010054

By:

Zhang, Minzhe;
Wang, Tao;
Xiao, Guanghua;
Xie, Yang

Publication type:

Article

SAFARI: shape analysis for AI-segmented images.

Published in:

BMC Medical Imaging, 2022, v. 22, n. 1, p. 1, doi. 10.1186/s12880-022-00849-8

By:

Fernández, Esteban;
Yang, Shengjie;
Chiou, Sy Han;
Moon, Chul;
Zhang, Cong;
Yao, Bo;
Xiao, Guanghua;
Li, Qiwei

Publication type:

Article

Operon information improves gene expression estimation for cDNA microarrays.

Published in:

BMC Genomics, 2006, v. 7, p. 87, doi. 10.1186/1471-2164-7-87

By:

Xiao, Guanghua;
Martinez-Vaz, Betsy;
Pan, Wei;
Khodursky, Arkady B

Publication type:

Article

Ensemble-Based Network Aggregation Improves the Accuracy of Gene Network Reconstruction.

Published in:

PLoS ONE, 2014, v. 9, n. 11, p. 1, doi. 10.1371/journal.pone.0106319

By:

Zhong, Rui;
Allen, Jeffrey D.;
Xiao, Guanghua;
Xie, Yang

Publication type:

Article

A Model-Based Approach to Identify Binding Sites in CLIP-Seq Data.

Published in:

PLoS ONE, 2014, v. 9, n. 4, p. 1, doi. 10.1371/journal.pone.0093248

By:

Wang, Tao;
Chen, Beibei;
Kim, MinSoo;
Xie, Yang;
Xiao, Guanghua

Publication type:

Article

Comparing Statistical Methods for Constructing Large Scale Gene Networks.

Published in:

PLoS ONE, 2012, v. 7, n. 1, p. 1, doi. 10.1371/journal.pone.0029348

By:

Allen, Jeffrey D.;
Yang Xie;
Min Chen;
Luc Girard;
Guanghua Xiao

Publication type:

Article

A Blood-Based Screening Tool for Alzheimer's Disease That Spans Serum and Plasma: Findings from TARC and ADNI.

Published in:

PLoS ONE, 2011, v. 6, n. 12, p. 1, doi. 10.1371/journal.pone.0028092

By:

O'Bryant, Sid E.;
Guanghua Xiao;
Barber, Robert;
Huebinger, Ryan;
Wilhelmsen, Kirk;
Edwards, Melissa;
Graff-Radford, Neill;
Doody, Rachelle;
Diaz-Arrastia, Ramon

Publication type:

Article

Navigating electronic health record accuracy by examination of sex incongruent conditions.

Published in:

Journal of the American Medical Informatics Association, 2024, v. 31, n. 12, p. 2849, doi. 10.1093/jamia/ocae236

By:

Cai, Ling;
DeBerardinis, Ralph J;
Zhan, Xiaowei;
Xiao, Guanghua;
Xie, Yang

Publication type:

Article

Using Functional Signature Ontology (FUSION) to Identify Mechanisms of Action for Natural Products.

Published in:

Science Signaling, 2013, v. 6, n. 297, p. 1, doi. 10.1126/scisignal.2004657

By:

Potts, Malia B.;
Hyun Seok Kim;
Fisher, Kurt W.;
Youcai Hu;
Carrasco, Yazmin P.;
Bulut, Gamze Betul;
Yi-Hung Ou;
Herrera-Herrera, Mireya L.;
Cubillos, Federico;
Mendiratta, Saurabh;
Guanghua Xiao;
Hofree, Matan;
Ideker, Trey;
Yang Xie;
Jun-shen Huang, Lily;
Lewis, Robert E.;
MacMillan, John B.;
White, Michael A.

Publication type:

Article

Fused lasso regression for identifying differential correlations in brain connectome graphs.

Published in:

Statistical Analysis & Data Mining, 2018, v. 11, n. 5, p. 203, doi. 10.1002/sam.11382

By:

Yu, Donghyeon;
Lee, Sang Han;
Lim, Johan;
Xiao, Guanghua;
Craddock, Richard Cameron;
Biswal, Bharat B.

Publication type:

Article

Detection of epigenetic changes using ANOVA with spatially varying coefficients.

Published in:

Statistical Applications in Genetics & Molecular Biology, 2013, v. 12, n. 2, p. 189, doi. 10.1515/sagmb-2012-0057

By:

Guanghua, Xiao;
Xinlei, Wang;
Quincey, LaPlant;
Nestler, Eric J.;
Xie, Yang

Publication type:

Article

A Bayesian zero-inflated negative binomial regression model for the integrative analysis of microbiome data.

Published in:

2021

By:

Jiang, Shuang;
Xiao, Guanghua;
Koh, Andrew Y;
Kim, Jiwoong;
Li, Qiwei;
Zhan, Xiaowei

Publication type:

journal article

A critical assessment of using ChatGPT for extracting structured data from clinical notes.

Published in:

NPJ Digital Medicine, 2024, v. 7, n. 1, p. 1, doi. 10.1038/s41746-024-01079-8

By:

Huang, Jingwei;
Yang, Donghan M.;
Rong, Ruichen;
Nezafati, Kuroush;
Treager, Colin;
Chi, Zhikai;
Wang, Shidan;
Cheng, Xian;
Guo, Yujia;
Klesse, Laura J.;
Xiao, Guanghua;
Peterson, Eric D.;
Zhan, Xiaowei;
Xie, Yang

Publication type:

Article

Genomic regression analysis of coordinated expression.

Published in:

Nature Communications, 2017, v. 8, n. 1, p. 1, doi. 10.1038/s41467-017-02181-0

By:

DeBerardinis, Ralph J.;
Ling Cai;
Qiwei Li;
Yang Xie;
Xiao, Guanghua;
Yi Du;
Jonghyun Yun

Publication type:

Article

Serum-based biomarker algorithms of neuropsychological functioning

Published in:

2012

By:

O'Bryant, Sid;
Xiao, Guanghua;
Barber, Robert;
Edwards, Melissa;
Hall, James

Publication type:

Abstract

Comparison of protein concentrations in serum versus plasma from Alzheimer's patients

Published in:

2012

By:

Barber, Robert;
Xiao, Guanghua;
Wilhelmsen, Kirk;
Huebinger, Ryan;
Diaz-Arrastia, Ramon;
O'Bryant, Sid

Publication type:

Abstract

Refinement and expansion of the Texas Alzheimer's research consortium serum-based diagnostic algorithm for Alzheimer's disease

Published in:

2011

By:

O'Bryant, Sid;
Xiao, Guanghua;
Barber, Robert;
Hall, James;
Doody, Rachelle;
Reisch, Joan;
Fairchild, Thomas;
Adams, Perrie;
Royall, Donald;
Wilhelmsen, Kirk;
Diaz-Arrastia, Ramon

Publication type:

Abstract

Developing and validating of Diagnostic Algorithm for Alzheimer's Disease

Published in:

2011

By:

Xiao, Guanghua;
Barber, Robert;
Reisch, Joan;
Doody, Rachelle;
Fairchild, Thomas;
Adams, Perrie;
Royall, Donald;
Diaz-Arrastia, Ramon;
O'Bryant, Sid

Publication type:

Abstract

A Serum protein-based algorithm for the detection of Alzheimer's disease

Published in:

2011

By:

O'Bryant, Sidney;
Guanghua, Xiao;
Robert, Barber;
Hall, James;
Doody, Rachelle;
Reisch, Joan;
Royall, Donald;
Adams, Perrie;
Wilhelmsen, Kirk;
Fairchild, Thomas;
Diaz-Arrastia, Ramon

Publication type:

Abstract

An inflammatory endophenotype of Alzheimer's disease

Published in:

2010

By:

Barber, Robert;
Xiao, Guanghua;
O'Bryant, Sid;
Saunders, Justin;
Reisch, Joan;
Doody, Rachelle;
Fairchild, Thomas;
Adams, Perrie;
Ballantyne, Christie;
Diaz-Arrastia, Ramon

Publication type:

Abstract

A serum protein-based diagnostic algorithm for Alzheimer's disease

Published in:

2010

By:

Diaz-Arrastia, Ramon;
Xiao, Guanghua;
Reisch, Joan;
Barber, Robert;
Doody, Rachelle;
Fairchild, Thomas;
Adams, Perrie;
O'Bryant, Sid

Publication type:

Abstract

Effect of hypoxia and hyperoxia on cerebral blood flow, blood oxygenation, and oxidative metabolism.

Published in:

Journal of Cerebral Blood Flow & Metabolism, 2012, v. 32, n. 10, p. 1909, doi. 10.1038/jcbfm.2012.93

By:

Xu, Feng;
Liu, Peiying;
Pascual, Juan M;
Xiao, Guanghua;
Lu, Hanzhang

Publication type:

Article

BayeSMART: Bayesian clustering of multi-sample spatially resolved transcriptomics data.

Published in:

Briefings in Bioinformatics, 2024, v. 25, n. 6, p. 1, doi. 10.1093/bib/bbae524

By:

Guo, Yanghong;
Zhu, Bencong;
Tang, Chen;
Rong, Ruichen;
Ma, Ying;
Xiao, Guanghua;
Xu, Lin;
Li, Qiwei

Publication type:

Article

Spatial molecular profiling: platforms, applications and analysis tools.

Published in:

Briefings in Bioinformatics, 2021, v. 22, n. 3, p. 1, doi. 10.1093/bib/bbaa145

By:

Zhang, Minzhe;
Sheffield, Thomas;
Zhan, Xiaowei;
Li, Qiwei;
Yang, Donghan M;
Wang, Yunguan;
Wang, Shidan;
Xie, Yang;
Wang, Tao;
Xiao, Guanghua

Publication type:

Article

comparative study of rank aggregation methods for partial and top ranked lists in genomic applications.

Published in:

Briefings in Bioinformatics, 2019, v. 20, n. 1, p. 178, doi. 10.1093/bib/bbx101

By:

Li, Xue;
Wang, Xinlei;
Xiao, Guanghua

Publication type:

Article

Probe mapping across multiple microarray platforms.

Published in:

Briefings in Bioinformatics, 2012, v. 13, n. 5, p. 547, doi. 10.1093/bib/bbr076

By:

Allen, Jeffrey D.;
Wang, Siling;
Chen, Min;
Girard, Luc;
Minna, John D.;
Xie, Yang;
Xiao, Guanghua

Publication type:

Article

A deep learning-based model for screening and staging pneumoconiosis.

Published in:

Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-020-77924-z

By:

Zhang, Liuzhuo;
Rong, Ruichen;
Li, Qiwei;
Yang, Donghan M.;
Yao, Bo;
Luo, Danni;
Zhang, Xiong;
Zhu, Xianfeng;
Luo, Jun;
Liu, Yongquan;
Yang, Xinyue;
Ji, Xiang;
Liu, Zhidong;
Xie, Yang;
Sha, Yan;
Li, Zhimin;
Xiao, Guanghua

Publication type:

Article

SMIXnorm: Fast and Accurate RNA-Seq Data Normalization for Formalin-Fixed Paraffin-Embedded Samples.

Published in:

Frontiers in Genetics, 2021, v. 11, p. N.PAG, doi. 10.3389/fgene.2021.650795

By:

Yin, Shen;
Zhan, Xiaowei;
Yao, Bo;
Xiao, Guanghua;
Wang, Xinlei;
Xie, Yang

Publication type:

Article

Nonoptimal codon usage influences protein structure in intrinsically disordered regions.

Published in:

Molecular Microbiology, 2015, v. 97, n. 5, p. 974, doi. 10.1111/mmi.13079

By:

Zhou, Mian;
Wang, Tao;
Fu, Jingjing;
Xiao, Guanghua;
Liu, Yi

Publication type:

Article

A Deep Learning Onion Peeling Approach to Measure Oral Epithelium Layer Number.

Published in:

Cancers, 2023, v. 15, n. 15, p. 3891, doi. 10.3390/cancers15153891

By:

Zhang, Xinyi;
Gleber-Netto, Frederico O.;
Wang, Shidan;
Jin, Kevin W.;
Yang, Donghan M.;
Gillenwater, Ann M.;
Myers, Jeffrey N.;
Ferrarotto, Renata;
Pickering, Curtis R.;
Xiao, Guanghua

Publication type:

Article

A Pan-Cancer Assessment of RB1 / TP53 Co-Mutations.

Published in:

Cancers, 2022, v. 14, n. 17, p. 4199, doi. 10.3390/cancers14174199

By:

Cai, Ling;
DeBerardinis, Ralph J.;
Xiao, Guanghua;
Minna, John D.;
Xie, Yang

Publication type:

Article

Artificial Intelligence in Lung Cancer Pathology Image Analysis.

Published in:

Cancers, 2019, v. 11, n. 11, p. 1673, doi. 10.3390/cancers11111673

By:

Wang, Shidan;
Yang, Donghan M.;
Rong, Ruichen;
Zhan, Xiaowei;
Fujimoto, Junya;
Liu, Hongyu;
Minna, John;
Wistuba, Ignacio Ivan;
Xie, Yang;
Xiao, Guanghua

Publication type:

Article

Systematic Analysis of Gene Expression in Lung Adenocarcinoma and Squamous Cell Carcinoma with a Case Study of FAM83A and FAM83B.

Published in:

Cancers, 2019, v. 11, n. 6, p. 886, doi. 10.3390/cancers11060886

By:

Cai, Ling;
Luo, Danni;
Yao, Bo;
Yang, Donghan M.;
Lin, ShinYi;
Girard, Luc;
DeBerardinis, Ralph J.;
Minna, John D.;
Xie, Yang;
Xiao, Guanghua

Publication type:

Article

Detection of candidate tumor driver genes using a fully integrated Bayesian approach.

Published in:

Statistics in Medicine, 2014, v. 33, n. 10, p. 1784, doi. 10.1002/sim.6066

By:

Yang, Jichen;
Wang, Xinlei;
Kim, Minsoo;
Xie, Yang;
Xiao, Guanghua

Publication type:

Article

Epigenetic change detection and pattern recognition via Bayesian hierarchical hidden Markov models.

Published in:

Statistics in Medicine, 2013, v. 32, n. 13, p. 2292, doi. 10.1002/sim.5658

By:

Wang, Xinlei;
Zang, Miao;
Xiao, Guanghua

Publication type:

Article

Type and case volume of health care facility influences survival and surgery selection in cases with early-stage non-small cell lung cancer.

Published in:

2019

By:

Wang, Shidan;
Lai, Sunny;
Itzstein, Mitchell S.;
Yang, Lin;
Yang, Donghan M.;
Zhan, Xiaowei;
Xiao, Guanghua;
Halm, Ethan A.;
Gerber, David E.;
Xie, Yang;
von Itzstein, Mitchell S

Publication type:

journal article

Microvessel prediction in H&E Stained Pathology Images using fully convolutional neural networks.

Published in:

BMC Bioinformatics, 2018, v. 19, p. 1, doi. 10.1186/s12859-018-2055-z

By:

Yi, Faliu;
Yang, Lin;
Wang, Shidan;
Guo, Lei;
Huang, Chenglong;
Xie, Yang;
Xiao, Guanghua

Publication type:

Article

Enhanced construction of gene regulatory networks using hub gene information.

Published in:

BMC Bioinformatics, 2017, v. 18, p. 1, doi. 10.1186/s12859-017-1576-1

By:

Donghyeon Yu;
Johan Lim;
Xinlei Wang;
Faming Liang;
Guanghua Xiao

Publication type:

Article

A Bayesian hidden Potts mixture model for analyzing lung cancer pathology images.

Published in:

2019

By:

Li, Qiwei;
Wang, Xinlei;
Liang, Faming;
Yi, Faliu;
Xie, Yang;
Gazdar, Adi;
Xiao, Guanghua

Publication type:

journal article

A two-stage approach of gene network analysis for high-dimensional heterogeneous data.

Published in:

2018

By:

Lee, Sangin;
Liang, Faming;
Cai, Ling;
Xiao, Guanghua

Publication type:

journal article

Deep learning‐based pathology image analysis predicts cancer progression risk in patients with oral leukoplakia.

Published in:

Cancer Medicine, 2023, v. 12, n. 6, p. 7508, doi. 10.1002/cam4.5478

By:

Zhang, Xinyi;
Gleber‐Netto, Frederico O.;
Wang, Shidan;
Martins‐Chaves, Roberta Rayra;
Gomez, Ricardo Santiago;
Vigneswaran, Nadarajah;
Sarkar, Arunangshu;
William, William N.;
Papadimitrakopoulou, Vassiliki;
Williams, Michelle;
Bell, Diana;
Palsgrove, Doreen;
Bishop, Justin;
Heymach, John V.;
Gillenwater, Ann M.;
Myers, Jeffrey N.;
Ferrarotto, Renata;
Lippman, Scott M.;
Pickering, Curtis Rg;
Xiao, Guanghua

Publication type:

Article