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Guanghua Xiao, Ph.D. - Publications

Affiliations: 
2006 University of Minnesota, Twin Cities, Minneapolis, MN 
Area:
Biostatistics Biology, Bioinformatics Biology
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50 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Kim J, Greenberg DE, Pifer R, Jiang S, Xiao G, Shelburne SA, Koh A, Xie Y, Zhan X. VAMPr: VAriant Mapping and Prediction of antibiotic resistance via explainable features and machine learning. Plos Computational Biology. 16: e1007511. PMID 31929521 DOI: 10.1371/Journal.Pcbi.1007511  0.308
2020 Wang S, Rong R, Yang DM, Fujimoto J, Yan S, Cai L, Yang L, Luo D, Behrens C, Parra ER, Yao B, Xu L, Wang T, Zhan X, Wistuba II, ... ... Xiao G, et al. Computational staining of pathology images to study the tumor microenvironment in lung cancer. Cancer Research. PMID 31915129 DOI: 10.1158/0008-5472.Can-19-1629  0.353
2019 Jiang S, Xiao G, Koh AY, Kim J, Li Q, Zhan X. A Bayesian zero-inflated negative binomial regression model for the integrative analysis of microbiome data. Biostatistics (Oxford, England). PMID 31844880 DOI: 10.1093/Biostatistics/Kxz050  0.306
2019 Pattee J, Zhan X, Xiao G, Pan W. Integrating germline and somatic genetics to identify genes associated with lung cancer. Genetic Epidemiology. PMID 31821614 DOI: 10.1002/Gepi.22275  0.327
2019 Chen PH, Cai L, Huffman K, Yang C, Kim J, Faubert B, Boroughs L, Ko B, Sudderth J, McMillan EA, Girard L, Chen D, Peyton M, Shields MD, Yao B, ... ... Xiao G, et al. Metabolic Diversity in Human Non-Small Cell Lung Cancer Cells. Molecular Cell. PMID 31564558 DOI: 10.1016/J.Molcel.2019.08.028  0.306
2019 Cai L, Lin S, Girard L, Zhou Y, Yang L, Ci B, Zhou Q, Luo D, Yao B, Tang H, Allen J, Huffman K, Gazdar A, Heymach J, Wistuba I, ... Xiao G, et al. Correction: LCE: an open web portal to explore gene expression and clinical associations in lung cancer. Oncogene. PMID 31501522 DOI: 10.1038/S41388-019-1000-6  0.336
2019 Cai L, Luo D, Yao B, Yang DM, Lin S, Girard L, DeBerardinis RJ, Minna JD, Xie Y, Xiao G. Systematic Analysis of Gene Expression in Lung Adenocarcinoma and Squamous Cell Carcinoma with a Case Study of and . Cancers. 11. PMID 31242643 DOI: 10.3390/Cancers11060886  0.338
2019 Luo X, Yin S, Yang L, Fujimoto J, Yang Y, Moran C, Kalhor N, Weissferdt A, Xie Y, Gazdar A, Minna J, Wistuba II, Mao Y, Xiao G. Development and Validation of a Pathology Image Analysis-based Predictive Model for Lung Adenocarcinoma Prognosis - A Multi-cohort Study. Scientific Reports. 9: 6886. PMID 31053738 DOI: 10.1038/S41598-019-42845-Z  0.308
2019 Zhang M, Li Q, Yu D, Yao B, Guo W, Xie Y, Xiao G. GeNeCK: a web server for gene network construction and visualization. Bmc Bioinformatics. 20: 12. PMID 30616521 DOI: 10.1186/S12859-018-2560-0  0.328
2018 Cai L, Lin S, Girard L, Zhou Y, Yang L, Ci B, Zhou Q, Luo D, Yao B, Tang H, Allen J, Huffman K, Gazdar A, Heymach J, Wistuba I, ... Xiao G, et al. LCE: an open web portal to explore gene expression and clinical associations in lung cancer. Oncogene. PMID 30532070 DOI: 10.1038/S41388-018-0588-2  0.37
2018 Xie Y, Lu W, Wang S, Tang X, Tang H, Zhou Y, Moran C, Behrens C, Roth JA, Zhou Q, Johnson DH, Swisher SG, Heymach JV, Papadimitrakopoulou VA, Xiao G, et al. Validation of the 12-gene predictive signature for Adjuvant Chemotherapy Response in Lung Cancer. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 30287547 DOI: 10.1158/1078-0432.Ccr-17-2543  0.335
2018 Wang S, Yang L, Ci B, Maclean M, Gerber DE, Xiao G, Xie Y. Development and Validation of a Nomogram Prognostic Model for Small-Cell Lung Cancer Patients. Journal of Thoracic Oncology : Official Publication of the International Association For the Study of Lung Cancer. PMID 29902534 DOI: 10.1016/J.Jtho.2018.05.037  0.302
2018 Li Q, Wang X, Liang F, Yi F, Xie Y, Gazdar A, Xiao G. A Bayesian hidden Potts mixture model for analyzing lung cancer pathology images. Biostatistics (Oxford, England). PMID 29788035 DOI: 10.1093/Biostatistics/Kxy019  0.333
2017 Cai L, Li Q, Du Y, Yun J, Xie Y, DeBerardinis RJ, Xiao G. Genomic regression analysis of coordinated expression. Nature Communications. 8: 2187. PMID 29259170 DOI: 10.1038/S41467-017-02181-0  0.393
2017 Lee S, Liang F, Cai L, Xiao G. A two-stage approach of gene network analysis for high-dimensional heterogeneous data. Biostatistics (Oxford, England). PMID 29036516 DOI: 10.1093/Biostatistics/Kxx033  0.349
2017 Gönen M, Weir BA, Cowley GS, Vazquez F, Guan Y, Jaiswal A, Karasuyama M, Uzunangelov V, Wang T, Tsherniak A, Howell S, Marbach D, Hoff B, Norman TC, Airola A, ... ... Xiao G, et al. A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell Lines. Cell Systems. PMID 28988802 DOI: 10.1016/J.Cels.2017.09.004  0.373
2017 Li X, Wang X, Xiao G. A comparative study of rank aggregation methods for partial and top ranked lists in genomic applications. Briefings in Bioinformatics. PMID 28968705 DOI: 10.1093/Bib/Bbx101  0.304
2017 Li Q, Yi F, Wang T, Xiao G, Liang F. Lung Cancer Pathological Image Analysis Using a Hidden Potts Model. Cancer Informatics. 16: 1176935117711910. PMID 28615918 DOI: 10.1177/1176935117711910  0.314
2017 Li L, Wang X, Xiao G, Gazdar A. Integrative gene set enrichment analysis utilizing isoform-specific expression. Genetic Epidemiology. PMID 28580727 DOI: 10.1002/Gepi.22052  0.387
2017 Lee S, Liang F, Cai L, Xiao G. Integrative Analysis of Gene Networks and Their Application to Lung Adenocarcinoma Studies. Cancer Informatics. 16: 1176935117690778. PMID 28469387 DOI: 10.1177/1176935117690778  0.361
2017 Yu D, Lim J, Wang X, Liang F, Xiao G. Enhanced construction of gene regulatory networks using hub gene information. Bmc Bioinformatics. 18: 186. PMID 28335719 DOI: 10.1186/S12859-017-1576-1  0.348
2017 Jia B, Xu S, Xiao G, Lamba V, Liang F. Learning gene regulatory networks from next generation sequencing data. Biometrics. PMID 28294287 DOI: 10.1111/Biom.12682  0.339
2017 Tang H, Wang S, Xiao G, Schiller J, Papadimitrakopoulou V, Minna J, Wistuba II, Xie Y. Comprehensive evaluation of published gene expression prognostic signatures for biomarker-based lung cancer clinical studies. Annals of Oncology : Official Journal of the European Society For Medical Oncology. PMID 28200038 DOI: 10.1093/Annonc/Mdw683  0.348
2017 Zhang Y, Zhou Y, Luo X, Xiao G, Gazdar AF. Abstract 5715: Gene body methylation and expression ofSHOX2gene are potent prognostic markers for survival in intermediate grade gliomas and renal cancers Cancer Research. 77: 5715-5715. DOI: 10.1158/1538-7445.Am2017-5715  0.349
2016 Luo X, Zang X, Yang L, Huang J, Liang F, Rodriguez Canales J, Wistuba II, Gazdar A, Xie Y, Xiao G. Comprehensive Computational Pathological Image Analysis Predicts Lung Cancer Prognosis. Journal of Thoracic Oncology : Official Publication of the International Association For the Study of Lung Cancer. PMID 27826035 DOI: 10.1016/J.Jtho.2016.10.017  0.308
2015 Zang X, Chen M, Zhou Y, Xiao G, Xie Y, Wang X. Identifying CDKN3 Gene Expression as a Prognostic Biomarker in Lung Adenocarcinoma via Meta-analysis. Cancer Informatics. 14: 183-91. PMID 26052221 DOI: 10.4137/Cin.S17287  0.34
2015 Yu D, Son W, Lim J, Xiao G. Statistical completion of a partially identified graph with applications for the estimation of gene regulatory networks. Biostatistics (Oxford, England). PMID 25837438 DOI: 10.1093/Biostatistics/Kxv013  0.357
2015 Yun EJ, Baek ST, Xie D, Tseng SF, Dobin T, Hernandez E, Zhou J, Zhang L, Yang J, Sun H, Xiao G, He D, Kittler R, Hsieh JT. DAB2IP regulates cancer stem cell phenotypes through modulating stem cell factor receptor and ZEB1. Oncogene. 34: 2741-52. PMID 25043300 DOI: 10.1038/Onc.2014.215  0.303
2015 Zhang W, Yao Y, Zhou Y, Ma X, Yan J, Wang T, Girard L, Minna J, Xiao G, Xie Y, Gazdar A. Abstract 2965: Identification of SMARCA4/BRG1 mutation types in NSCLC cell lines and tumors Cancer Research. 75: 2965-2965. DOI: 10.1158/1538-7445.Am2015-2965  0.318
2014 Zhong R, Allen JD, Xiao G, Xie Y. Ensemble-based network aggregation improves the accuracy of gene network reconstruction. Plos One. 9: e106319. PMID 25390635 DOI: 10.1371/Journal.Pone.0106319  0.309
2014 Yang J, Wang X, Kim M, Xie Y, Xiao G. Detection of candidate tumor driver genes using a fully integrated Bayesian approach. Statistics in Medicine. 33: 1784-800. PMID 24347204 DOI: 10.1002/Sim.6066  0.401
2013 Chen M, Zang M, Wang X, Xiao G. A powerful Bayesian meta-analysis method to integrate multiple gene set enrichment studies. Bioinformatics (Oxford, England). 29: 862-9. PMID 23418184 DOI: 10.1093/Bioinformatics/Btt068  0.389
2013 Tang H, Xiao G, Behrens C, Schiller J, Allen J, Chow CW, Suraokar M, Corvalan A, Mao J, White MA, Wistuba II, Minna JD, Xie Y. A 12-gene set predicts survival benefits from adjuvant chemotherapy in non-small cell lung cancer patients. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. 19: 1577-86. PMID 23357979 DOI: 10.1158/1078-0432.Ccr-12-2321  0.328
2013 Wang X, Zang M, Xiao G. Epigenetic change detection and pattern recognition via Bayesian hierarchical hidden Markov models. Statistics in Medicine. 32: 2292-307. PMID 23097332 DOI: 10.1002/Sim.5658  0.329
2013 Girard L, Peyton M, Wistuba I, Xie Y, Greer R, Suraokar MB, Behrens C, Xiao G, Heymach J, Wheeler DA, Davis CF, Huffman K, Shames DS, Coombes KR, Gazdar AF, et al. Abstract 5589: Molecular signatures of in vitro drug response in lung cancer. Cancer Research. 73: 5589-5589. DOI: 10.1158/1538-7445.Am2013-5589  0.319
2012 Wu K, Gore C, Yang L, Fazli L, Gleave M, Pong RC, Xiao G, Zhang L, Yun EJ, Tseng SF, Kapur P, He D, Hsieh JT. Slug, a unique androgen-regulated transcription factor, coordinates androgen receptor to facilitate castration resistance in prostate cancer. Molecular Endocrinology (Baltimore, Md.). 26: 1496-507. PMID 22745193 DOI: 10.1210/Me.2011-1360  0.303
2012 Allen JD, Xie Y, Chen M, Girard L, Xiao G. Comparing statistical methods for constructing large scale gene networks. Plos One. 7: e29348. PMID 22272232 DOI: 10.1371/Journal.Pone.0029348  0.32
2012 Allen JD, Wang S, Chen M, Girard L, Minna JD, Xie Y, Xiao G. Probe mapping across multiple microarray platforms. Briefings in Bioinformatics. 13: 547-54. PMID 22199380 DOI: 10.1093/Bib/Bbr076  0.315
2012 Wang X, Chen M, Khodursky AB, Xiao G. Bayesian Joint Analysis of Gene Expression Data and Gene Functional Annotations Statistics in Biosciences. 4: 300-318. DOI: 10.1007/S12561-012-9065-6  0.674
2011 Orvedahl A, Sumpter R, Xiao G, Ng A, Zou Z, Tang Y, Narimatsu M, Gilpin C, Sun Q, Roth M, Forst CV, Wrana JL, Zhang YE, Luby-Phelps K, Xavier RJ, et al. Image-based genome-wide siRNA screen identifies selective autophagy factors. Nature. 480: 113-7. PMID 22020285 DOI: 10.1038/Nature10546  0.305
2011 Xiao G, Wang X, Khodursky AB. Modeling Three-Dimensional Chromosome Structures Using Gene Expression Data. Journal of the American Statistical Association. 106: 61-72. PMID 21760653 DOI: 10.1198/Jasa.2010.Ap09504  0.64
2011 Xie Y, Xiao G, Coombes KR, Behrens C, Solis LM, Raso G, Girard L, Erickson HS, Roth J, Heymach JV, Moran C, Danenberg K, Minna JD, Wistuba II. Robust gene expression signature from formalin-fixed paraffin-embedded samples predicts prognosis of non-small-cell lung cancer patients. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. 17: 5705-14. PMID 21742808 DOI: 10.1158/1078-0432.Ccr-11-0196  0.377
2011 Wang S, Wang Y, Xie Y, Xiao G. A novel approach to DNA copy number data segmentation. Journal of Bioinformatics and Computational Biology. 9: 131-48. PMID 21328710 DOI: 10.1142/S0219720011005343  0.304
2011 Jeong Y, Xie Y, Xiao G, Girard L, Lee W, Behrens C, Wistuba II, Minna JD, Mangelsdorf DJ. Abstract 354: Nuclear receptor expression atlas: A theragnostic targets for lung cancer patients Cancer Research. 71: 354-354. DOI: 10.1158/1538-7445.Am2011-354  0.362
2010 Jeong Y, Xie Y, Xiao G, Behrens C, Girard L, Wistuba II, Minna JD, Mangelsdorf DJ. Nuclear receptor expression defines a set of prognostic biomarkers for lung cancer. Plos Medicine. 7: e1000378. PMID 21179495 DOI: 10.1371/Journal.Pmed.1000378  0.341
2010 Xie Y, Pan W, Jeong KS, Xiao G, Khodursky AB. A Bayesian approach to joint modeling of protein-DNA binding, gene expression and sequence data. Statistics in Medicine. 29: 489-503. PMID 20049751 DOI: 10.1002/Sim.3815  0.713
2009 Xiao G, Reilly C, Khodursky AB. Improved detection of differentially expressed genes through incorporation of gene locations. Biometrics. 65: 805-14. PMID 19173705 DOI: 10.1111/J.1541-0420.2008.01161.X  0.668
2008 Ding LH, Xie Y, Park S, Xiao G, Story MD. Enhanced identification and biological validation of differential gene expression via Illumina whole-genome expression arrays through the use of the model-based background correction methodology. Nucleic Acids Research. 36: e58. PMID 18450815 DOI: 10.1093/Nar/Gkn234  0.366
2007 Li N, Wu B, Wei P, Xie B, Xie Y, Xiao G, Pan W. Functional group-based linkage analysis of gene expression trait loci. Bmc Proceedings. 1: S117. PMID 18466458 DOI: 10.1186/1753-6561-1-S1-S117  0.342
2006 Xiao G, Martinez-Vaz B, Pan W, Khodursky AB. Operon information improves gene expression estimation for cDNA microarrays. Bmc Genomics. 7: 87. PMID 16630355 DOI: 10.1186/1471-2164-7-87  0.644
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