Integrative Analysis of Epigenome and Transcriptome Data Reveals Aberrantly Methylated Promoters and Enhancers in Hepatocellular Carcinoma

CircPVT1 promotes progression in clear cell renal cell carcinoma by sponging miR‐145‐5p and regulating TBX15 expression

(2021) Zaosong Zheng et al.   CANCER SCIENCE

C1q-like 1 is frequently up-regulated in lung adenocarcinoma and contributes to the proliferation and invasion of tumor cells

(2021) Yu-Jun Gao et al.   JOURNAL OF CHEMOTHERAPY

Elevated Serum FGG Levels Prognosticate and Promote the Disease Progression in Prostate Cancer

(2021) H. H. Peng et al.   Frontiers in Genetics

LINC01287 facilitates proliferation, migration, invasion and EMT of colon cancer cells via miR-4500/MAP3K13 pathway

(2021) Dazhi Fu et al.   BMC CANCER

Long noncoding RNA LINC01287 promotes proliferation and inhibits apoptosis of lung adenocarcinoma cells via the miR ‐3529‐5p/ RNASEH2A axis under the competitive endogenous RNA pattern

(2021) Jing Zhang et al.   ENVIRONMENTAL TOXICOLOGY

E3 ligase MKRN3 is a tumor suppressor regulating PABPC1 ubiquitination in non–small cell lung cancer

(2021) Ke Li et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Circular RNA hsa_circ_0110389 promotes gastric cancer progression through upregulating SORT1 via sponging miR-127-5p and miR-136-5p

(2021) Min Liang et al.   Cell Death & Disease

Long noncoding RNA LINC01139 promotes the progression of hepatocellular carcinoma by upregulating MYBL2 via competitively binding to miR-30 family

(2020) Zai-Bo Li et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

DNA hypermethylation associated with upregulated gene expression in prostate cancer demonstrates the diversity of epigenetic regulation

(2020) Ieva Rauluseviciute et al.   BMC Medical Genomics

LRRC4 Suppresses E-Cadherin-Dependent Collective Cell Invasion and Metastasis in Epithelial Ovarian Cancer

(2020) Chunhua Zhao et al.   Frontiers in Oncology

ST8SIA6-AS1 promotes hepatocellular carcinoma by absorbing miR-5195-3p to regulate HOXB6

(2020) Yang Li et al.   CANCER BIOLOGY & THERAPY

Causative Role for Defective Expression of MIEAP in Accumulation of Mitochondria in Thyroid Oncocytic Cell Tumors

(2020) Zhanna Mussazhanova et al.   CANCER SCIENCE

TIMD4 exhibits regulatory capability on the proliferation and apoptosis of diffuse large B-cell lymphoma cells via the Wnt/β-catenin pathway

(2020) Yi Li et al.   JOURNAL OF GENE MEDICINE

LncRNA TONSL-AS1 regulates miR-490-3p/CDK1 to affect ovarian epithelial carcinoma cell proliferation

(2020) Yan Liu et al.   Journal of Ovarian Research

p53/Mieap-regulated mitochondrial quality control plays an important role as a tumor suppressor in gastric and esophageal cancers

(2020) Hitoya Sano et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

TCF21: a critical transcription factor in health and cancer

(2020) Xiang Ao et al.   JOURNAL OF MOLECULAR MEDICINE-JMM

KIF2C: a novel link between Wnt/β-catenin and mTORC1 signaling in the pathogenesis of hepatocellular carcinoma

(2020) Shi Wei et al.   Protein & Cell

Genome-wide DNA methylation analysis reveals significant impact of long-term ambient air pollution exposure on biological functions related to mitochondria and immune response

(2020) Maiqiu Wang et al.   ENVIRONMENTAL POLLUTION

Identification of MiR-211-5p as a tumor suppressor by targeting ACSL4 in Hepatocellular Carcinoma

(2020) Xia Qin et al.   Journal of Translational Medicine

Carbonic Anhydrase Inhibitors Targeting Metabolism and Tumor Microenvironment

(2020) Andrea Angeli et al.   Metabolites

LINC00355 induces gastric cancer proliferation and invasion through promoting ubiquitination of P53

(2020) Wenjing Zhao et al.   Cell Death Discovery

MYBL2 amplification in breast cancer: Molecular mechanisms and therapeutic potential

(2020) Rachel Bayley et al.   BIOCHIMICA ET BIOPHYSICA ACTA-REVIEWS ON CANCER

APCCDC20-mediated degradation of PHD3 stabilizes HIF-1a and promotes tumorigenesis in hepatocellular carcinoma

(2020) Min Shi et al.   CANCER LETTERS

Aberrant enhancer hypomethylation contributes to hepatic carcinogenesis through global transcriptional reprogramming

(2019) Lei Xiong et al.   Nature Communications

FGG promotes migration and invasion in hepatocellular carcinoma cells through activating epithelial to mesenchymal transition

(2019) Xiang Zhang et al.   Cancer Management and Research

The methionine salvage pathway-involving ADI1 inhibits hepatoma growth by epigenetically altering genes expression via elevating S-adenosylmethionine

(2019) Yu-De Chu et al.   Cell Death & Disease

TCF21 inhibits tumor-associated angiogenesis and suppresses the growth of cholangiocarcinoma by targeting PI3K/Akt and ERK signaling

(2019) Hua-Xin Duan et al.   AMERICAN JOURNAL OF PHYSIOLOGY-GASTROINTESTINAL AND LIVER PHYSIOLOGY

DUXAP10 inhibition attenuates the proliferation and metastasis of hepatocellular carcinoma cells by regulation of the Wnt/β-catenin and PI3K/Akt signaling pathways

(2019) Kun Han et al.   BIOSCIENCE REPORTS

Epigenomic Profiling of DNA Methylation Reveals New Potential Biomarkers for Hepatocellular Carcinoma Diagnosis and Prognosis Prediction

(2019) Cheng Zhang et al.   JOURNAL OF GASTROENTEROLOGY AND HEPATOLOGY

Hepatocellular Carcinoma

(2019) Augusto Villanueva   NEW ENGLAND JOURNAL OF MEDICINE

KIF2C exerts an oncogenic role in nonsmall cell lung cancer and is negatively regulated by miR‐325‐3p

(2019) Huizhu Gan et al.   CELL BIOCHEMISTRY AND FUNCTION

SIRT1 downregulated FGB expression to inhibit RCC tumorigenesis by destabilizing STAT3

(2019) Yanbing Chen et al.   EXPERIMENTAL CELL RESEARCH

The Role of APAL/ST8SIA6-AS1 lncRNA in PLK1 Activation and Mitotic Catastrophe of Tumor Cells

(2019) Man-Li Luo et al.   JNCI-Journal of the National Cancer Institute

Metascape provides a biologist-oriented resource for the analysis of systems-level datasets

(2019) Yingyao Zhou et al.   Nature Communications

Downregulation of CYB5D2 is associated with breast cancer progression

(2019) Diane Ojo et al.   Scientific Reports

Dynamics of genomic, epigenomic, and transcriptomic aberrations during stepwise hepatocarcinogenesis

(2019) Byul A Jee et al.   CANCER RESEARCH

A novel long non-coding RNA TONSL-AS1 regulates progression of gastric cancer via activating TONSL

(2019) Peng Wang et al.   EXPERIMENTAL CELL RESEARCH

LINC01128 expedites cervical cancer progression by regulating miR-383-5p/SFN axis

(2019) Yi Hu et al.   BMC CANCER

Transcriptional landscape and clinical utility of enhancer RNAs for eRNA-targeted therapy in cancer

(2019) Zhao Zhang et al.   Nature Communications

LINC00355 Promotes Tumor Progression in HNSCC by Hindering MicroRNA-195-Mediated Suppression of HOXA10 Expression

(2019) Shuo Lu et al.   Molecular Therapy-Nucleic Acids

Overexpression of MUC13 , a Poor Prognostic Predictor, Promotes Cell Growth by Activating Wnt Signaling in Hepatocellular Carcinoma

(2018) Yongdong Dai et al.   AMERICAN JOURNAL OF PATHOLOGY

Carbonic anhydrase 2 inhibits epithelial–mesenchymal transition and metastasis in hepatocellular carcinoma

(2018) Chenyue Zhang et al.   CARCINOGENESIS

An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics

(2018) Jianfang Liu et al.   CELL

A Pan-Cancer Analysis of Enhancer Expression in Nearly 9000 Patient Samples

(2018) Han Chen et al.   CELL

Over-expression of oncigenic pesudogene DUXAP10 promotes cell proliferation and invasion by regulating LATS1 and β-catenin in gastric cancer

(2018) Yongcan Xu et al.   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

LINC01287/miR-298/STAT3 feedback loop regulates growth and the epithelial-to-mesenchymal transition phenotype in hepatocellular carcinoma cells

(2018) Yichao Mo et al.   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

Metabolic reprogramming by PCK1 promotes TCA cataplerosis, oxidative stress and apoptosis in liver cancer cells and suppresses hepatocellular carcinoma

(2018) Meng-Xi Liu et al.   ONCOGENE

Epigenetic landscape influences the liver cancer genome architecture

(2018) Natsuko Hama et al.   Nature Communications

Integrating the Epigenome to Identify Novel Drivers of Hepatocellular Carcinoma

(2018) R A Hlady et al.   HEPATOLOGY

Publisher Correction: Hypermethylation of gene body CpG islands predicts high dosage of functional oncogenes in liver cancer

(2018) Maria Arechederra et al.   Nature Communications

HCCDB: A Database of Hepatocellular Carcinoma Expression Atlas

(2018) Qiuyu Lian et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Possible role of p53/Mieap-regulated mitochondrial quality control as a tumor suppressor in human breast cancer

(2018) Siqin Gaowa et al.   CANCER SCIENCE

Transthyretin Stimulates Tumor Growth through Regulation of Tumor, Immune, and Endothelial Cells

(2018) Chih-Chun Lee et al.   JOURNAL OF IMMUNOLOGY

Targeting SPINK1 in the damaged tumour microenvironment alleviates therapeutic resistance

(2018) Fei Chen et al.   Nature Communications

Serine protease inhibitor Kazal type 1 (SPINK 1 ) downregulates E-cadherin and induces EMT of hepatoma cells to promote hepatocellular carcinoma metastasis via the MEK/ERK signaling pathway

(2017) Hai Yan Ying et al.   Journal of Digestive Diseases

Therapeutic targeting of ependymoma as informed by oncogenic enhancer profiling

(2017) Stephen C. Mack et al.   NATURE

The FOXM1/BUB1B signaling pathway is essential for the tumorigenicity and radioresistance of glioblastoma

(2017) Qing Ma et al.   ONCOLOGY REPORTS

Impact of cytosine methylation on DNA binding specificities of human transcription factors

(2017) Yimeng Yin et al.   SCIENCE

Serine peptidase inhibitor Kazal type 1 (SPINK1) as novel downstream effector of the cadherin-17/β-catenin axis in hepatocellular carcinoma

(2017) Felix H. Shek et al.   CELLULAR ONCOLOGY

Anti-GPC3-CAR T Cells Suppress the Growth of Tumor Cells in Patient-Derived Xenografts of Hepatocellular Carcinoma

(2017) Zhiwu Jiang et al.   Frontiers in Immunology

CYB5D2 displays tumor suppression activities towards cervical cancer

(2016) Yanyun Xie et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE

Differential methylation analysis for BS-seq data under general experimental design

(2016) Yongseok Park et al.   BIOINFORMATICS

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

MUC13 protects colorectal cancer cells from death by activating the NF-κB pathway and is a potential therapeutic target

(2016) Y H Sheng et al.   ONCOGENE

Overexpression of BUB1B contributes to progression of prostate cancer and predicts poor outcome in patients with prostate cancer

(2016) Wei-de Zhong et al.   OncoTargets and Therapy

Paracrine regulation of matrix metalloproteinases contributes to cancer cell invasion by hepatocellular carcinoma-secreted 14-3-3σ

(2016) Chia-Chia Liu et al.   Oncotarget

Cytochrome P450 1A2 Metabolizes 17β-Estradiol to Suppress Hepatocellular Carcinoma

(2016) Jianwai Ren et al.   PLoS One

Suppression of trophoblast cell surface antigen 2 enhances proliferation and migration in liver fluke-associated cholangiocarcinoma

(2015) Kanlayanee Sawanyawisuth et al.   Annals of Hepatology

Evaluation of the Antitumor Efficacy of RNAi-Mediated Inhibition ofCDC20andHeparanasein an Orthotopic Liver Tumor Model

(2015) Meizhou Liu et al.   CANCER BIOTHERAPY AND RADIOPHARMACEUTICALS

DNA methylation-based prognosis and epidrivers in hepatocellular carcinoma

(2015) Augusto Villanueva et al.   HEPATOLOGY

Disruption of a regulatory loop between DUSP1 and p53 contributes to hepatocellular carcinoma development and progression

(2015) Pei-Pei Hao et al.   JOURNAL OF HEPATOLOGY

ACSL4 promotes prostate cancer growth, invasion and hormonal resistance

(2015) Xinyu Wu et al.   Oncotarget

Mieap suppresses murine intestinal tumor via its mitochondrial quality control

(2015) Masayuki Tsuneki et al.   Scientific Reports

POD-1/TCF21Reduces SHP Expression, AffectingLRH-1Regulation and Cell Cycle Balance in Adrenocortical and Hepatocarcinoma Tumor Cells

(2015) Monica Malheiros França et al.   Biomed Research International

Global analysis of DNA methylation in hepatocellular carcinoma by a liquid hybridization capture-based bisulfite sequencing approach

(2015) Fei Gao et al.   Clinical Epigenetics

DNA methylation and gene expression profiles show novel regulatory pathways in hepatocellular carcinoma

(2015) Silvia Udali et al.   Clinical Epigenetics

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

GPC3 reduces cell proliferation in renal carcinoma cell lines

(2014) Marina Curado Valsechi et al.   BMC CANCER

Gene Body Methylation Can Alter Gene Expression and Is a Therapeutic Target in Cancer

(2014) Xiaojing Yang et al.   CANCER CELL

Hepatocellular carcinoma: clinical frontiers and perspectives

(2014) Jordi Bruix et al.   GUT

Tissue-Specific RNA Expression Marks Distant-Acting Developmental Enhancers

(2014) Han Wu et al.   PLoS Genetics

Age-adjusted nonparametric detection of differential DNA methylation with case--control designs

(2013) Hanwen Huang et al.   BMC BIOINFORMATICS

Cancer statistics, 2013

(2013) Rebecca Siegel et al.   CA-A CANCER JOURNAL FOR CLINICIANS

Discovery and Characterization of Super-Enhancer-Associated Dependencies in Diffuse Large B Cell Lymphoma

(2013) Bjoern Chapuy et al.   CANCER CELL

Dynamic Readers for 5-(Hydroxy)Methylcytosine and Its Oxidized Derivatives

(2013) Cornelia G. Spruijt et al.   CELL

Genome-Wide Methylation Analysis and Epigenetic Unmasking Identify Tumor Suppressor Genes in Hepatocellular Carcinoma

(2013) Kate Revill et al.   GASTROENTEROLOGY

A DNA methylation signature associated with the epigenetic repression of glycine N-methyltransferase in human hepatocellular carcinoma

(2013) Covadonga Huidobro et al.   JOURNAL OF MOLECULAR MEDICINE-JMM

Predicting enhancer transcription and activity from chromatin modifications

(2013) Yun Zhu et al.   NUCLEIC ACIDS RESEARCH

Loss of miR-125b-1 contributes to head and neck cancer development by dysregulating TACSTD2 and MAPK pathway

(2013) H Nakanishi et al.   ONCOGENE

Software for Computing and Annotating Genomic Ranges

(2013) Michael Lawrence et al.   PLoS Computational Biology

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

LRRC4 Inhibits Glioma Cell Growth and Invasion Through a miR-185- Dependent Pathway

(2012) Hailin Tang et al.   CURRENT CANCER DRUG TARGETS

Exploring genome-wide DNA methylation profiles altered in hepatocellular carcinoma using Infinium HumanMethylation 450 BeadChips

(2012) Jing Shen et al.   Epigenetics

GENCODE: The reference human genome annotation for The ENCODE Project

(2012) J. Harrow et al.   GENOME RESEARCH

Characteristic patterns of altered DNA methylation predict emergence of human hepatocellular carcinoma

(2012) Naoshi Nishida et al.   HEPATOLOGY

Elevation of Highly Up-regulated in Liver Cancer (HULC) by Hepatitis B Virus X Protein Promotes Hepatoma Cell Proliferation via Down-regulating p18

(2012) Yumei Du et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Neurotrophin-3 modulates breast cancer cells and the microenvironment to promote the growth of breast cancer brain metastasis

(2012) E Louie et al.   ONCOGENE

Grhl2 Determines the Epithelial Phenotype of Breast Cancers and Promotes Tumor Progression

(2012) Xiaoyu Xiang et al.   PLoS One

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

(2011) Felix Krueger et al.   BIOINFORMATICS

Genetic and Epigenetic Signatures in Human Hepatocellular Carcinoma:A Systematic Review

(2011) Naoshi Nishida et al.   CURRENT GENOMICS

Epigenome-wide association studies for common human diseases

(2011) Vardhman K. Rakyan et al.   NATURE REVIEWS GENETICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

DUSP1/MKP1 promotes angiogenesis, invasion and metastasis in non-small-cell lung cancer

(2010) V Moncho-Amor et al.   ONCOGENE

Gain of GRHL2 is associated with early recurrence of hepatocellular carcinoma

(2008) Yasuo Tanaka et al.   JOURNAL OF HEPATOLOGY