Xi Chen

发表

Proteogenomic Characterization of Endometrial Carcinoma

Peter B. McGarvey, Ying Wang, Li Ding, 2020, Cell.

An Integrated Approach for the Analysis of Biological Pathways using Mixed Models

Bing Zhang, Russell D. Wolfinger, Xi Chen, 2008, PLoS genetics.

coMethDMR: accurate identification of co-methylated and differentially methylated regions in epigenome-wide association studies with continuous phenotypes

Juan I. Young, Gabriel J. Odom, E. Martin, 2019, bioRxiv.

Gene set analysis of genome-wide association studies: methodological issues and perspectives.

Peilin Jia, Zhongming Zhao, Xi Chen, 2011, Genomics.

Interpreting pathways to discover cancer driver genes with Moonlight

Matthew H Bailey, Gabriel J. Odom, Gianluca Bontempi, 2020, Nature Communications.

A Unified Mixed Effects Model for Gene Set Analysis of Time Course Microarray Experiments

Bing Zhang, Xi Chen, Russell D Wolfinger, 2009, Statistical applications in genetics and molecular biology.

Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma

Jeffrey R. Whiteaker, Dana R. Valley, Karna L. Robinson, 2020, Cell.

Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma

Guo Ci Teo, Matthew A. Wyczalkowski, Andy T. Kong, 2019, Cell.

Identification of a five‐lncRNA signature for predicting the risk of tumor recurrence in patients with breast cancer

Yun Xiao, Lei Yu, Weida Wang, 2018, International journal of cancer.

PathwaySplice: an R package for unbiased pathway analysis of alternative splicing in RNA-Seq data

Xi Chen, Zhen Gao, Aimin Yan, 2018, Bioinform..

Proteogenomic Landscape of Breast Cancer Tumorigenesis and Targeted Therapy

Jeffrey R. Whiteaker, Matthew A. Wyczalkowski, Ratna R. Thangudu, 2020, Cell.

Transcriptome-wide analysis of changes in the fetal placenta associated with prenatal arsenic exposure in the New Hampshire Birth Cohort Study

C. Marsit, M. Karagas, Xi Chen, 2019, Environmental Health.

An Automatized Workflow to Study Mechanistic Indicators for Driver Gene Prediction with Moonlight

E. Papaleo, A. Colaprico, M. Tiberti, 2022, bioRxiv.

Structure-Based Design, Synthesis and Biological Evaluation of Peptidomimetic Aldehydes as a Novel Series of Antiviral Drug Candidates Targeting the SARS-CoV-2 Main Protease

Hualiang Jiang, Yechun Xu, Jian Li, 2020, bioRxiv.

Colorectal Cancer Cell Line Proteomes Are Representative of Primary Tumors and Predict Drug Sensitivity.

Daniel C. Liebler, Xiaojing Wang, Bing Zhang, 2017, Gastroenterology.

Proteogenomic and metabolomic characterization of human glioblastoma.

Joshua F. McMichael, Sneha P. Couvillion, Matthew A. Wyczalkowski, 2021, Cancer cell.

Integrated Proteogenomic Characterization across Major Histological Types of Pediatric Brain Cancer

Guo Ci Teo, Allison P. Heath, Marilyn M. Li, 2020, Cell.

MethReg: estimating the regulatory potential of DNA methylation in gene transcription

Juan I. Young, E. Martin, Xi Chen, 2021, bioRxiv.

Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma

Guo Ci Teo, Meghan C. Burke, Jeffrey R. Whiteaker, 2020, Cell.

Sex-specific DNA methylation differences in Alzheimer’s disease pathology

Juan I. Young, E. Martin, Xi Chen, 2021, Acta neuropathologica communications.

Proteogenomic insights into the biology and treatment of HPV-negative head and neck squamous cell carcinoma.

Alexander R. Pico, Matthew A. Wyczalkowski, Sara R. Savage, 2021, Cancer cell.

coMethDMR: Accurate identification of co-methylated and differentially methylated regions in epigenome-wide association studies

Juan I. Young, Gabriel J. Odom, E. Martin, 2019, bioRxiv.

An evaluation of supervised methods for identifying differentially methylated regions in Illumina methylation arrays

Saurav Mallik, Xi Chen, Lily Wang, 2018, Briefings Bioinform..

Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma

Guo Ci Teo, Matthew A. Wyczalkowski, Andy T. Kong, 2019, Cell.

Sex-specific DNA methylation changes in Alzheimer’s disease pathology

Juan I. Young, E. Martin, Xi Chen, 2021 .

New functionalities in the TCGAbiolinks package for the study and integration of cancer data from GDC and GTEx

Elena Papaleo, Gianluca Bontempi, Mohamed Mounir, 2019, PLoS Comput. Biol..

Epigenome-wide meta-analysis of DNA methylation differences in prefrontal cortex implicates the immune processes in Alzheimer’s disease

Juan I. Young, E. Martin, B. Kunkle, 2020, Nature Communications.

Interpreting pathways to discover cancer driver genes with Moonlight

Gabriel J. Odom, Gianluca Bontempi, H. Noushmehr, 2020, Nature Communications.

Statistical Analysis of Patient-Specific Pathway Activities via Mixed Models.

Bing Zhang, Xi Chen, Bing Zhang, 2012, Journal of biometrics & biostatistics.

PathwayPCA: an R/Bioconductor Package for Pathway Based Integrative Analysis of Multi‐Omics Data

Bing Zhang, Xiaodian Sun, Lizhong Liu, 2020, Proteomics.

pathwayPCA: an R package for integrative pathway analysis with modern PCA methodology and gene selection

Xi Chen, Bing Zhang, Alexander R. Pico, 2019, bioRxiv.

Colorectal Cancer Cell Line Proteomes Are Representative of Primary Tumors and Predict Drug Sensitivity.

C. Yau, R. Jorissen, O. Sieber, 2017, Gastroenterology.