Comprehensive analysis of epigenetic and epitranscriptomic genes’ expression in human NAFLD

Nutrition and epigenetic programming

(2023) Carsten Carlberg et al.   CURRENT OPINION IN CLINICAL NUTRITION AND METABOLIC CARE

The global epidemiology of nonalcoholic fatty liver disease (NAFLD) and nonalcoholic steatohepatitis (NASH): a systematic review

(2023) Zobair M. Younossi et al.   HEPATOLOGY

METTL5 stabilizes c‐Myc by facilitating USP5 translation to reprogram glucose metabolism and promote hepatocellular carcinoma progression

(2023) Peng Xia et al.   Cancer Communications

The emerging importance role of m6A modification in liver disease

(2023) Sheng Wang et al.   BIOMEDICINE & PHARMACOTHERAPY

The m6A/m5C/m1A regulator genes signature reveals the prognosis and is related with immune microenvironment for hepatocellular carcinoma

(2023) Ting Liu et al.   BMC GASTROENTEROLOGY

Positive selection of somatically mutated clones identifies adaptive pathways in metabolic liver disease

(2023) Zixi Wang et al.   CELL

Epigenetic memory of environmental exposures as a mediator of liver disease

(2023) Ryan A. Hlady et al.   HEPATOLOGY

Spatial metabolomics and its application in the liver

(2023) André A. Santos et al.   HEPATOLOGY

Metabolic dysfunction–associated fatty liver disease (MAFLD): an update of the recent advances in pharmacological treatment

(2023) Paloma Sangro et al.   JOURNAL OF PHYSIOLOGY AND BIOCHEMISTRY

Antifibrotic therapy in nonalcoholic steatohepatitis: time for a human-centric approach

(2023) Paul N. Brennan et al.   Nature Reviews Gastroenterology & Hepatology

Nonalcoholic steatohepatitis-related hepatocellular carcinoma: pathogenesis and treatment

(2023) Josep M. Llovet et al.   Nature Reviews Gastroenterology & Hepatology

Deficiency of gluconeogenic enzyme PCK1 promotes metabolic-associated fatty liver disease through PI3K/AKT/PDGF axis activation in male mice

(2023) Qian Ye et al.   Nature Communications

Insights into the role of nucleotide methylation in metabolic-associated fatty liver disease

(2023) Ni Zhang et al.   Frontiers in Immunology

Epigenetic moonlighting: Catalytic-independent functions of histone modifiers in regulating transcription

(2023) Marc A. J. Morgan et al.   Science Advances

The Role of the Left Inferior Parietal Cortex in Gilles de la Tourette Syndrome—An rTMS Study

(2023) Theresa Paulus et al.   Biomedicines

Transcriptional and Epigenetic Alterations in the Progression of Non-Alcoholic Fatty Liver Disease and Biomarkers Helping to Diagnose Non-Alcoholic Steatohepatitis

(2023) Yalan Zhu et al.   Biomedicines

A robust gene expression signature for NASH in liver expression data

(2022) Yehudit Hasin-Brumshtein et al.   Scientific Reports

Epigenetic remodelling in human hepatocellular carcinoma

(2022) Maria Rita Braghini et al.   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

Members of the Chromobox Family Have Prognostic Value in Hepatocellular Carcinoma

(2022) Chenxi Pan et al.   Frontiers in Genetics

The comprehensive expression and functional analysis of m6A modification “readers” in hepatocellular carcinoma

(2022) Sha Qin et al.   Aging-US

Dynamic changes in hepatic DNA methylation during the development of nonalcoholic fatty liver disease induced by a high-sugar diet

(2022) Daiane Teixeira de Oliveira et al.   JOURNAL OF PHYSIOLOGY AND BIOCHEMISTRY

Integrating the contributions of mitochondrial oxidative metabolism to lipotoxicity and inflammation in NAFLD pathogenesis

(2022) Curtis C. Hughey et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR AND CELL BIOLOGY OF LIPIDS

IL-6/STAT3 axis dictates the PNPLA3-mediated susceptibility to non-alcoholic fatty liver disease

(2022) Jiwoon Park et al.   JOURNAL OF HEPATOLOGY

Biological roles of adenine methylation in RNA

(2022) Konstantinos Boulias et al.   NATURE REVIEWS GENETICS

A liver secretome gene signature-based approach for determining circulating biomarkers of NAFLD severity

(2022) Christoffer A. Hagemann et al.   PLoS One

New roles of N6-methyladenosine methylation system regulating the occurrence of non-alcoholic fatty liver disease with N6-methyladenosine-modified MYC

(2022) Wenli Cheng et al.   Frontiers in Pharmacology

Pan-Cancer Analysis Reveals the Relation between TRMT112 and Tumor Microenvironment

(2022) Haitao Xu et al.   Journal of Oncology

Prognostication in NAFLD: physiological bases, clinical indicators, and newer biomarkers

(2022) Francesca Terracciani et al.   JOURNAL OF PHYSIOLOGY AND BIOCHEMISTRY

EpiFactors 2022: expansion and enhancement of a curated database of human epigenetic factors and complexes

(2022) Daria Marakulina et al.   NUCLEIC ACIDS RESEARCH

Integrative multiomics evaluation reveals the importance of pseudouridine synthases in hepatocellular carcinoma

(2022) Zhipeng Jin et al.   Frontiers in Genetics

SMYD2 Promotes Hepatocellular Carcinoma Progression by Reprogramming Glutamine Metabolism via c-Myc/GLS1 Axis

(2022) Kangdi Xu et al.   Cells

Molecular characterization of hepatocellular carcinoma in patients with non-alcoholic steatohepatitis

(2021) Roser Pinyol et al.   JOURNAL OF HEPATOLOGY

Advances in epigenetic therapeutics with focus on solid tumors

(2021) Ning Jin et al.   Clinical Epigenetics

The Gene Signature Associated with Hepatocellular Carcinoma in Patients with Nonalcoholic Fatty Liver Disease

(2021) Jiayun Ge et al.   Journal of Oncology

ACSL family: The regulatory mechanisms and therapeutic implications in cancer

(2021) Jing Quan et al.   EUROPEAN JOURNAL OF PHARMACOLOGY

Sentinels of chromatin: chromodomain helicase DNA-binding proteins in development and disease

(2021) Andrej Alendar et al.   GENES & DEVELOPMENT

Hepatic fibrosis 2022: Unmet needs and a blueprint for the future

(2021) Scott L. Friedman et al.   HEPATOLOGY

Small molecule targeting of chromatin writers in cancer

(2021) Andrew R. Conery et al.   Nature Chemical Biology

MODOMICS: a database of RNA modification pathways. 2021 update

(2021) Pietro Boccaletto et al.   NUCLEIC ACIDS RESEARCH

Mechanism and Therapeutic Opportunities of Histone Modifications in Chronic Liver Disease

(2021) Qiuyu Cai et al.   Frontiers in Pharmacology

Metabolic Fuel for Epigenetic: Nuclear Production Meets Local Consumption

(2021) Ruben Boon   Frontiers in Genetics

Interplay Among Metabolism, Epigenetic Modifications, and Gene Expression in Cancer

(2021) Miaomiao Huo et al.   Frontiers in Cell and Developmental Biology

One-Carbon Metabolism in Fatty Liver Disease and Fibrosis: One-Carbon to Rule Them All

(2020) Robin P da Silva et al.   JOURNAL OF NUTRITION

Succinate‐GPR‐91 receptor signalling is responsible for nonalcoholic steatohepatitis‐associated fibrosis: Effects of DHA supplementation

(2020) Xue‐Jing Liu et al.   LIVER INTERNATIONAL

Complications, morbidity and mortality of nonalcoholic fatty liver disease

(2020) Alessandro Mantovani et al.   METABOLISM-CLINICAL AND EXPERIMENTAL

M3C: Monte Carlo reference-based consensus clustering

(2020) Christopher R. John et al.   Scientific Reports

Multi-omics characterization of a diet-induced obese model of non-alcoholic steatohepatitis

(2020) Helene M. Ægidius et al.   Scientific Reports

Writers, readers and erasers of RNA modifications in cancer

(2020) Rosaura Esteve-Puig et al.   CANCER LETTERS

Epigenetic mechanisms and metabolic reprogramming in fibrogenesis: dual targeting of G9a and DNMT1 for the inhibition of liver fibrosis

(2020) Marina Barcena-Varela et al.   GUT

Targeting clinical epigenetic reprogramming for chemoprevention of metabolic and viral hepatocellular carcinoma

(2020) Frank Jühling et al.   GUT

Epitranscriptomics in liver disease: Basic concepts and therapeutic potential

(2020) Zhicong Zhao et al.   JOURNAL OF HEPATOLOGY

Epigenetics factors in nonalcoholic fatty liver disease

(2020) Carlos Jose Pirola et al.   Expert Review of Gastroenterology & Hepatology

PRMT2 accelerates tumorigenesis of hepatocellular carcinoma by activating Bcl2 via histone H3R8 methylation

(2020) Guohui Hu et al.   EXPERIMENTAL CELL RESEARCH

Histone acetyltransferase 1 is a succinyltransferase for histones and non‐histones and promotes tumorigenesis

(2020) Guang Yang et al.   EMBO REPORTS

Deciphering the role of epigenetic modifications in fatty liver disease: A systematic review

(2020) Xiaofang Zhang et al.   EUROPEAN JOURNAL OF CLINICAL INVESTIGATION

Enhanced expression of queuine tRNA-ribosyltransferase 1 (QTRT1) predicts poor prognosis in lung adenocarcinoma

(2020) Qianli Ma et al.   Annals of Translational Medicine

Genetic and epigenetic factors determining NAFLD risk

(2020) Wenke Jonas et al.   Molecular Metabolism

Epigenetic Mechanisms in Hepatic Stellate Cell Activation During Liver Fibrosis and Carcinogenesis

(2019) Marina Barcena-Varela et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

From NASH to HCC: current concepts and future challenges

(2019) Quentin M. Anstee et al.   Nature Reviews Gastroenterology & Hepatology

Total liver phosphatidylcholine content associates with non‐alcoholic steatohepatitis and glycine N‐methyltransferase expression

(2019) Ville Männistö et al.   LIVER INTERNATIONAL

Biomarkers and subtypes of deranged lipid metabolism in non-alcoholic fatty liver disease

(2019) José M Mato et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Metabolic control of gene transcription in non-alcoholic fatty liver disease: the role of the epigenome

(2019) Matthew C. Sinton et al.   Clinical Epigenetics

Genetic contributions to NAFLD: leveraging shared genetics to uncover systems biology

(2019) Mohammed Eslam et al.   Nature Reviews Gastroenterology & Hepatology

Mammalian Sulfur Amino Acid Metabolism: A Nexus Between Redox Regulation, Nutrition, Epigenetics, and Detoxification

(2018) María A. Pajares et al.   ANTIOXIDANTS & REDOX SIGNALING

Epigenetically mediated inhibition of S-adenosylhomocysteine hydrolase and the associated dysregulation of 1-carbon metabolism in nonalcoholic steatohepatitis and hepatocellular carcinoma

(2018) Igor P. Pogribny et al.   FASEB JOURNAL

Histone modifications in fatty acid synthase modulated by carbohydrate responsive element binding protein are associated with non‑alcoholic fatty liver disease

(2018) Can Cai et al.   INTERNATIONAL JOURNAL OF MOLECULAR MEDICINE

Regulation of chromatin and gene expression by metabolic enzymes and metabolites

(2018) Xinjian Li et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The histone demethylase Phf2 acts as a molecular checkpoint to prevent NAFLD progression during obesity

(2018) Julien Bricambert et al.   Nature Communications

Epigenetic tools (The Writers, The Readers and The Erasers) and their implications in cancer therapy

(2018) Subhankar Biswas et al.   EUROPEAN JOURNAL OF PHARMACOLOGY

Histone H3K9 demethylase JMJD2B induces hepatic steatosis through upregulation of PPARγ2

(2018) Ji-Hyun Kim et al.   Scientific Reports

Non-alcoholic fatty liver disease – A global public health perspective

(2018) Zobair M. Younossi   JOURNAL OF HEPATOLOGY

BET Inhibition Improves NASH and Liver Fibrosis

(2018) Sarah A. Middleton et al.   Scientific Reports

Pathology of non-alcoholic fatty liver disease

(2017) Pierre Bedossa   LIVER INTERNATIONAL

Of mice and humans through the looking glass : “reflections” on epigenetics of lipid metabolism

(2017) Raffaella Longo et al.   MOLECULAR ASPECTS OF MEDICINE

Changes in human hepatic metabolism in steatosis and cirrhosis

(2017) Zoe Schofield et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Human hepatic gene expression signature of non-alcoholic fatty liver disease progression, a meta-analysis

(2017) Maria Ryaboshapkina et al.   Scientific Reports

A pseudouridine synthase module is essential for mitochondrial protein synthesis and cell viability

(2016) Hana Antonicka et al.   EMBO REPORTS

Persistent Chromatin Modifications Induced by High Fat Diet

(2016) Amy Leung et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Sirtuins and nonalcoholic fatty liver disease

(2016) Fatiha Nassir et al.   WORLD JOURNAL OF GASTROENTEROLOGY

MPP8 and SIRT1 crosstalk in E-cadherin gene silencing and epithelial-mesenchymal transition

(2015) L. Sun et al.   EMBO REPORTS

TRIM24 suppresses development of spontaneous hepatic lipid accumulation and hepatocellular carcinoma in mice

(2015) Shiming Jiang et al.   JOURNAL OF HEPATOLOGY

Differential DNA methylation of genes involved in fibrosis progression in non-alcoholic fatty liver disease and alcoholic liver disease

(2015) Müjdat Zeybel et al.   Clinical Epigenetics

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Genome-Wide Study of Hypomethylated and Induced Genes in Patients with Liver Cancer Unravels Novel Anticancer Targets

(2014) B. Stefanska et al.   CLINICAL CANCER RESEARCH

GSVA: gene set variation analysis for microarray and RNA-Seq data

(2013) Sonja Hänzelmann et al.   BMC BIOINFORMATICS

DNA Methylation Analysis in Nonalcoholic Fatty Liver Disease Suggests Distinct Disease-Specific and Remodeling Signatures after Bariatric Surgery

(2013) Markus Ahrens et al.   Cell Metabolism

Relationship Between Methylome and Transcriptome in Patients With Nonalcoholic Fatty Liver Disease

(2013) Susan K. Murphy et al.   GASTROENTEROLOGY

Hepatic gene expression profiles differentiate presymptomatic patients with mild versus severe nonalcoholic fatty liver disease

(2013) Cynthia A. Moylan et al.   HEPATOLOGY

Extrahepatic complications of nonalcoholic fatty liver disease

(2013) Matthew J. Armstrong et al.   HEPATOLOGY

ChromoHub: a data hub for navigators of chromatin-mediated signalling

(2012) L. Liu et al.   BIOINFORMATICS

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

(2012) Jeffrey T. Leek et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma

(2012) Wing-Kin Sung et al.   NATURE GENETICS

DNA Methylation and Its Basic Function

(2012) Lisa D Moore et al.   NEUROPSYCHOPHARMACOLOGY

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Death inducer-obliterator 1 (Dido1) is a BMP target gene and promotes BMP-induced melanoma progression

(2012) S Braig et al.   ONCOGENE

Deletion of Betaine-HomocysteineS-Methyltransferase in Mice Perturbs Choline and 1-Carbon Metabolism, Resulting in Fatty Liver and Hepatocellular Carcinomas

(2011) Ya-Wen Teng et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Epigenetic inactivation of the tumor suppressor gene RIZ1 in hepatocellular carcinoma involves both DNA methylation and histone modifications

(2010) Cuijuan Zhang et al.   JOURNAL OF HEPATOLOGY

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Dysfunctional very-low-density lipoprotein synthesis and release is a key factor in nonalcoholic steatohepatitis pathogenesis

(2009) Koji Fujita et al.   HEPATOLOGY

adegenet: a R package for the multivariate analysis of genetic markers

(2008) Thibaut Jombart   BIOINFORMATICS

Inferring Pathway Activity toward Precise Disease Classification

(2008) Eunjung Lee et al.   PLoS Computational Biology