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List of works by Xi Chen

585 - A Novel, Methylation-Based Nomogram Predicts Recurrence in Gastric Cancer Patients

scholarly article published in May 2018

A data similarity-based strategy for meta-analysis of transcriptional profiles in cancer

scientific article

A rectal cancer organoid platform to study individual responses to chemoradiation

scientific article published on 07 October 2019

A unified mixed effects model for gene set analysis of time course microarray experiments

scientific article published on 7 November 2009

ASXL1 interacts with the cohesin complex to maintain chromatid separation and gene expression for normal hematopoiesis

scientific article published on 20 January 2017

Abstract LB-301: Integrative genomic analysis identifies distinct mutational, epigenetic and immunological patterns among triple-negative breast cancer subtypes

scholarly article

Acute Lipopolysaccharide-Induced Inflammation Lowers IL-2R Signaling and the Proliferative Potential of Regulatory T Cells

scientific article published on 17 December 2020

An Integrative Pathway-based Clinical-genomic Model for Cancer Survival Prediction

scientific article published on September 2010

An efficient hierarchical generalized linear mixed model for pathway analysis of genome-wide association studies ⬇️

scientific article published on January 25, 2011

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

scientific article published on 01 November 2019

An integrated approach for the analysis of biological pathways using mixed models

scientific article

BVES regulates EMT in human corneal and colon cancer cells and is silenced via promoter methylation in human colorectal carcinoma

scientific article

BVES regulates c-Myc stability via PP2A and suppresses colitis-induced tumourigenesis

scientific article published on 14 January 2016

Cancer after thyroidectomy: a multi-institutional experience with 1,523 patients.

scientific article

Characteristics of lung cancers harboring NRAS mutations

scientific article (publication date: May 2013)

Claudin-1 up-regulates the repressor ZEB-1 to inhibit E-cadherin expression in colon cancer cells

scientific article

Colonic epithelial-derived Selenoprotein P is the source for antioxidant-mediated protection in colitis-associated cancer

scientific article published on 31 December 2020

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

scientific article

Comparison of Nanostring nCounter® Data on FFPE Colon Cancer Samples and Affymetrix Microarray Data on Matched Frozen Tissues

scientific article

Correction: Kaiso is required for MTG16-dependent effects on colitis-associated carcinoma

scientific article published on 01 June 2019

EGFR-mutant lung adenocarcinomas treated first-line with the novel EGFR inhibitor, XL647, can subsequently retain moderate sensitivity to erlotinib

scientific article

ERBB activation modulates sensitivity to MEK1/2 inhibition in a subset of driver-negative melanoma

scientific article

Endogenous dendritic cells from the tumor microenvironment support T-ALL growth via IGF1R activation

scientific article published on 9 February 2016

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

scientific article published on 30 November 2020

Essential and non-overlapping IL-2Rα-dependent processes for thymic development and peripheral homeostasis of regulatory T cells

scientific article published on 04 March 2019

Evaluation of frozen tissue-derived prognostic gene expression signatures in FFPE colorectal cancer samples

scientific article

Evaluation of public cancer datasets and signatures identifies TP53 mutant signatures with robust prognostic and predictive value

scientific article published on 26 March 2015

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

scientific article published on 30 April 2011

Genes regulated by Nkx2-3 in siRNA-mediated knockdown B cells: implication of endothelin-1 in inflammatory bowel disease.

scientific article

Genes regulated by Nkx2-3 in sporadic and inflammatory bowel disease-associated colorectal cancer cell lines.

scientific article

Growth Factor-Independent 1 Is a Tumor Suppressor Gene in Colorectal Cancer

scientific article published on 03 January 2019

Hhex is Required at Multiple Stages of Adult Hematopoietic Stem and Progenitor Cell Differentiation

scientific article

IL-2/CD25: A Long-Acting Fusion Protein That Promotes Immune Tolerance by Selectively Targeting the IL-2 Receptor on Regulatory T Cells

scientific article published on 03 October 2018

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

scientific article published on 28 July 2018

Identification of disease-associated DNA methylation in B cells from Crohn's disease and ulcerative colitis patients.

scientific article

Identification of human triple-negative breast cancer subtypes and preclinical models for selection of targeted therapies

scientific article (publication date: July 2011)

Identification of prognosis-relevant subgroups in patients with chemoresistant triple-negative breast cancer

scientific article published on 2 April 2013

In vivo antitumor activity by dual stromal and tumor-targeted oncolytic measles viruses

scientific article published on 31 March 2020

Integrating biological knowledge with gene expression profiles for survival prediction of cancer

scientific article

Inverse Correlation of STAT3 and MEK Signaling Mediates Resistance to RAS Pathway Inhibition in Pancreatic Cancer

scientific article published on 28 August 2018

Kaiso directs the transcriptional corepressor MTG16 to the Kaiso binding site in target promoters

scientific article

Kaiso is required for MTG16-dependent effects on colitis-associated carcinoma

scientific article published on 11 March 2019

LIM domain only-2 (LMO2) induces T-cell leukemia by two distinct pathways

scientific article published on 21 January 2014

Lmo2 induces hematopoietic stem cell-like features in T-cell progenitor cells prior to leukemia

scientific article published on May 2013

Loss of Rab25 promotes the development of intestinal neoplasia in mice and is associated with human colorectal adenocarcinomas

scientific article

MASTL induces Colon Cancer progression and Chemoresistance by promoting Wnt/β-catenin signaling

scientific article published on 01 August 2018

MTG16 contributes to colonic epithelial integrity in experimental colitis

scientific article published on 24 July 2012

MTG16 is a tumor suppressor in colitis-associated carcinoma.

scientific article published on 17 August 2017

Molecular Effects of Stromal-Selective Targeting by uPAR-Retargeted Oncolytic Virus in Breast Cancer

scientific article published on 5 July 2017

NKX2-3 transcriptional regulation of endothelin-1 and VEGF signaling in human intestinal microvascular endothelial cells

scientific article

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

scientific article published on 05 March 2019

Novel mechanistic insights into ectodomain shedding of EGFR Ligands Amphiregulin and TGF-α: impact on gastrointestinal cancers driven by secondary bile acids.

scientific article

Nuclear factor of activated T-cell activity is associated with metastatic capacity in colon cancer

scientific article published on 15 October 2014

Optimizing the sequence of anti-EGFR-targeted therapy in EGFR-mutant lung cancer

scientific article

PI3Kγ/δ and NOTCH1 Cross-Regulate Pathways That Define the T-cell Acute Lymphoblastic Leukemia Disease Signature.

scientific article published on 17 July 2017

PIK3CA mutations in androgen receptor-positive triple negative breast cancer confer sensitivity to the combination of PI3K and androgen receptor inhibitors

scientific article

Pathway hunting by random survival forests

scientific article

Pathway-based analysis for genome-wide association studies using supervised principal components.

scientific article

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

scientific article published on 20 May 2020

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

scientific article published on 24 April 2018

Random forests for genomic data analysis

scientific article

Rationale for co-targeting IGF-1R and ALK in ALK fusion-positive lung cancer

scientific article

Reduced Arginyltransferase 1 is a driver and a potential prognostic indicator of prostate cancer metastasis

scientific article published on 03 September 2018

Refinement of Triple-Negative Breast Cancer Molecular Subtypes: Implications for Neoadjuvant Chemotherapy Selection.

scientific article

SMAD4 Loss in Colorectal Cancer Patients Correlates with Recurrence, Loss of Immune Infiltrate, and Chemoresistance

scientific article published on 26 December 2018

Selenoprotein P influences colitis-induced tumorigenesis by mediating stemness and oxidative damage

scientific article

Serine Threonine Kinase 17A Maintains the Epithelial State in Colorectal Cancer Cells

scientific article published on 17 January 2019

Signal Transducer and Activator of Transcription 3, Mediated Remodeling of the Tumor Microenvironment Results in Enhanced Tumor Drug Delivery in a Mouse Model of Pancreatic Cancer.

scientific article published on 6 August 2015

Smad4-mediated signaling inhibits intestinal neoplasia by inhibiting expression of β-catenin.

scientific article

Statistical Analysis of Patient-Specific Pathway Activities via Mixed Models

scientific article published on January 2012

Supervised principal component analysis for gene set enrichment of microarray data with continuous or survival outcomes

scientific article

TNBCtype: A Subtyping Tool for Triple-Negative Breast Cancer.

scientific article

Targeting Tumor-Stromal IL6/STAT3 Signaling through IL1 Receptor Inhibition in Pancreatic Cancer

scientific article published on 13 September 2021

The AML-Associated FLT3-ITD Kinase Regulates Histone Modifications and Cytokine Signaling, Via Effects on PRMT5 ⬇️

scholarly article

Toxic nodular goiter and cancer: a compelling case for thyroidectomy.

scientific article published on 30 October 2012

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

scientific article published on 21 November 2019

Tumor suppressor function of the plasma glutathione peroxidase gpx3 in colitis-associated carcinoma

scientific article published on 5 December 2012

Urolithin A, a novel natural compound to target PI3K/AKT/mTOR pathway in pancreatic cancer

scientific article published on 07 November 2018

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

scientific article published on 01 September 2019

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