The Use of Targeted Next Generation Sequencing to Explore Candidate Regulators of TGF-β1’s Impact on Kidney Cells

RAGE Deletion Confers Renoprotection by Reducing Responsiveness to Transforming Growth Factor-β and Increasing Resistance to Apoptosis

(2018) Shinji Hagiwara et al.   DIABETES

TGF-β Contributes to Impaired Exercise Response by Suppression of Mitochondrial Key Regulators in Skeletal Muscle

(2016) Anja Böhm et al.   DIABETES

MicroRNA in Control of Gene Expression: An Overview of Nuclear Functions

(2016) Caterina Catalanotto et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Epithelial to mesenchymal transition-related proteins ZEB1, β-catenin and β-tubulin-III in idiopathic pulmonary fibrosis

(2016) Marco Chilosi et al.   MODERN PATHOLOGY

KLF7 Regulates Satellite Cell Quiescence in Response to Extracellular Signaling

(2016) Xiaobin Wang et al.   STEM CELLS

Tribbles homologue 3 stimulates canonical TGF-β signalling to regulate fibroblast activation and tissue fibrosis

(2015) Michal Tomcik et al.   ANNALS OF THE RHEUMATIC DISEASES

Analysis of the TGFβ-induced program in primary airway epithelial cells shows essential role of NF-κB/RelA signaling network in type II epithelial mesenchymal transition

(2015) Bing Tian et al.   BMC GENOMICS

MicroRNA-26a inhibits TGF-β-induced extracellular matrix protein expression in podocytes by targeting CTGF and is downregulated in diabetic nephropathy

(2015) Kenichi Koga et al.   DIABETOLOGIA

The Histone Methyltransferase Enzyme Enhancer of Zeste Homolog 2 Protects against Podocyte Oxidative Stress and Renal Injury in Diabetes

(2015) F. S. Siddiqi et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

Enhancer of Zeste Homolog 2 Inhibition Attenuates Renal Fibrosis by Maintaining Smad7 and Phosphatase and Tensin Homolog Expression

(2015) X. Zhou et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

Diabetes Induces Aberrant DNA Methylation in the Proximal Tubules of the Kidney

(2015) T. Marumo et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

miRWalk2.0: a comprehensive atlas of microRNA-target interactions

(2015) Harsh Dweep et al.   NATURE METHODS

Integrated miRNA and mRNA expression profiling to identify mRNA targets of dysregulated miRNAs in non-obstructive azoospermia

(2015) Xuan Zhuang et al.   Scientific Reports

TGF-β1-Induced Epithelial–Mesenchymal Transition Promotes Monocyte/Macrophage Properties in Breast Cancer Cells

(2015) Joel Johansson et al.   Frontiers in Oncology

Bootstrap-based differential gene expression analysis for RNA-Seq data with and without replicates

(2014) Sahar Al Seesi et al.   BMC GENOMICS

Transforming Growth Factor β1 (TGF-β1) Enhances Expression of Profibrotic Genes through a Novel Signaling Cascade and MicroRNAs in Renal Mesangial Cells

(2014) Nancy E. Castro et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Tenascin-X promotes epithelial-to-mesenchymal transition by activating latent TGF-β

(2014) Lindsay B. Alcaraz et al.   JOURNAL OF CELL BIOLOGY

Epigenetic Unsilencing Reverses Renal Fibrosis

(2014) D. F. Higgins et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

Histone deacetylase 4 selectively contributes to podocyte injury in diabetic nephropathy

(2014) Xiaojie Wang et al.   KIDNEY INTERNATIONAL

miRDB: an online resource for microRNA target prediction and functional annotations

(2014) Nathan Wong et al.   NUCLEIC ACIDS RESEARCH

Transforming growth factor-β promotes prostate bone metastasis through induction of microRNA-96 and activation of the mTOR pathway

(2014) M K Siu et al.   ONCOGENE

The role of RNA structure at 5′ untranslated region in microRNA-mediated gene regulation

(2014) Wanjun Gu et al.   RNA

miRNA Signature in Mouse Spermatogonial Stem Cells Revealed by High-Throughput Sequencing

(2014) Tao Tan et al.   Biomed Research International

Causal analysis approaches in Ingenuity Pathway Analysis

(2013) Andreas Krämer et al.   BIOINFORMATICS

Analysis of CDS-located miRNA target sites suggests that they can effectively inhibit translation

(2013) J. Hausser et al.   GENOME RESEARCH

Genome-wide methylation profiling of ADPKD identified epigenetically regulated genes associated with renal cyst development

(2013) Yu Mi Woo et al.   HUMAN GENETICS

The microRNA miR-433 promotes renal fibrosis by amplifying the TGF-β/Smad3-Azin1 pathway

(2013) Rong Li et al.   KIDNEY INTERNATIONAL

Epigenetic Alterations in Acute Kidney Injury

(2013) Karol Bomsztyk et al.   SEMINARS IN NEPHROLOGY

The correlation between histone modifications and gene expression

(2013) Xianjun Dong et al.   Epigenomics

Next-generation sequencing identifies TGF-β1-associated gene expression profiles in renal epithelial cells reiterated in human diabetic nephropathy

(2012) Eoin P. Brennan et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE

NADPH-Oxidase 4 Protects against Kidney Fibrosis during Chronic Renal Injury

(2012) S. Nlandu Khodo et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

RNA polymerase II progression through H3K27me3-enriched gene bodies requires JMJD3 histone demethylase

(2012) Conchi Estarás et al.   MOLECULAR BIOLOGY OF THE CELL

Histone deacetylases in kidney development: implications for disease and therapy

(2012) Shaowei Chen et al.   PEDIATRIC NEPHROLOGY

Crosstalk between TGF-β signaling and the microRNA machinery

(2012) Henriett Butz et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

The histone methyltransferase inhibitor, DZNep, up-regulates TXNIP, increases ROS production, and targets leukemia cells in AML

(2011) J. Zhou et al.   BLOOD

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Computational analysis of genome-wide DNA methylation during the differentiation of human embryonic stem cells along the endodermal lineage

(2010) L. Chavez et al.   GENOME RESEARCH

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Histone H3K27 methyltransferase Ezh2 represses Wnt genes to facilitate adipogenesis

(2010) L. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

TGF-β-induced epithelial to mesenchymal transition

(2009) Jian Xu et al.   CELL RESEARCH

Wnt/ -Catenin Signaling Promotes Renal Interstitial Fibrosis

(2009) W. He et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Roles of the EZH2 histone methyltransferase in cancer epigenetics

(2008) Jeffrey A. Simon et al.   MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS

A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis

(2008) Thomas A Down et al.   NATURE BIOTECHNOLOGY

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS