TBX4 is involved in the super-enhancer-driven transcriptional programs underlying features specific to lung fibroblasts

Phenotypic expansion ofTBX4mutations to include acinar dysplasia of the lungs

(2016) Przemyslaw Szafranski et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART A

Tbx2 and Tbx3 Act Downstream of Shh to Maintain Canonical Wnt Signaling during Branching Morphogenesis of the Murine Lung

(2016) Timo H. Lüdtke et al.   DEVELOPMENTAL CELL

Genetic analyses in a cohort of children with pulmonary hypertension

(2016) Marilyne Levy et al.   EUROPEAN RESPIRATORY JOURNAL

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update

(2016) Maxim V. Kuleshov et al.   NUCLEIC ACIDS RESEARCH

Molecular developmental mechanism in polypterid fish provides insight into the origin of vertebrate lungs

(2016) Norifumi Tatsumi et al.   Scientific Reports

Transcriptome analysis of periodontitis-associated fibroblasts by CAGE sequencing identified DLX5 and RUNX2 long variant as novel regulators involved in periodontitis

(2016) Masafumi Horie et al.   Scientific Reports

Transcriptome Analysis of Recurrently Deregulated Genes across Multiple Cancers Identifies New Pan-Cancer Biomarkers

(2015) Bogumil Kaczkowski et al.   CANCER RESEARCH

Aberrant DNA methylation in non-small cell lung cancer-associated fibroblasts

(2015) Miguel Vizoso et al.   CARCINOGENESIS

Direct Lineage Reprogramming: Strategies, Mechanisms, and Applications

(2015) Jun Xu et al.   Cell Stem Cell

The landscape of long noncoding RNAs in the human transcriptome

(2015) Matthew K Iyer et al.   NATURE GENETICS

ENCODE data at the ENCODE portal

(2015) Cricket A. Sloan et al.   NUCLEIC ACIDS RESEARCH

Gastrointestinal Fibroblasts Have Specialized, Diverse Transcriptional Phenotypes: A Comprehensive Gene Expression Analysis of Human Fibroblasts

(2015) Youichi Higuchi et al.   PLoS One

Inflammation-sensitive super enhancers form domains of coordinately regulated enhancer RNAs

(2015) Nasun Hah et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Principles of Long Noncoding RNA Evolution Derived from Direct Comparison of Transcriptomes in 17 Species

(2015) Hadas Hezroni et al.   Cell Reports

T-box transcription factors in cancer biology

(2014) Sabina Wansleben et al.   BIOCHIMICA ET BIOPHYSICA ACTA-REVIEWS ON CANCER

Differential knockdown of TGF-β ligands in a three-dimensional co-culture tumor- stromal interaction model of lung cancer

(2014) Masafumi Horie et al.   BMC CANCER

The T-box gene family: emerging roles in development, stem cells and cancer

(2014) V. E. Papaioannou   DEVELOPMENT

Histamine induces human lung fibroblast-mediated collagen gel contraction via histamine H1 receptor

(2014) Masafumi Horie et al.   EXPERIMENTAL LUNG RESEARCH

Epigenome Analysis Reveals TBX5 as a Novel Transcription Factor Involved in the Activation of Rheumatoid Arthritis Synovial Fibroblasts

(2014) Emmanuel Karouzakis et al.   JOURNAL OF IMMUNOLOGY

NF-κB Directs Dynamic Super Enhancer Formation in Inflammation and Atherogenesis

(2014) Jonathan D. Brown et al.   MOLECULAR CELL

A promoter-level mammalian expression atlas

(2014)   NATURE

Interactive visualization and analysis of large-scale sequencing datasets using ZENBU

(2014) Jessica Severin et al.   NATURE BIOTECHNOLOGY

A transient disruption of fibroblastic transcriptional regulatory network facilitatestrans-differentiation

(2014) Yasuhiro Tomaru et al.   NUCLEIC ACIDS RESEARCH

Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool

(2013) Edward Y Chen et al.   BMC BIOINFORMATICS

Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes

(2013) Warren A. Whyte et al.   CELL

Super-Enhancers in the Control of Cell Identity and Disease

(2013) Denes Hnisz et al.   CELL

Tbx4interacts with the short stature homeobox geneShox2in limb development

(2013) Anne Glaser et al.   DEVELOPMENTAL DYNAMICS

Tbx2 Controls Lung Growth by Direct Repression of the Cell Cycle Inhibitor Genes Cdkn1a and Cdkn1b

(2013) Timo H-W. Lüdtke et al.   PLoS Genetics

Characterization of human lung cancer-associated fibroblasts in three-dimensional in vitro co-culture model

(2012) Masafumi Horie et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

GENCODE: The reference human genome annotation for The ENCODE Project

(2012) J. Harrow et al.   GENOME RESEARCH

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

The T Box Transcription Factor TBX2 Promotes Epithelial-Mesenchymal Transition and Invasion of Normal and Malignant Breast Epithelial Cells

(2012) Bin Wang et al.   PLoS One

Candidate Gene Approach Identifies Multiple Genes and Signaling Pathways Downstream of Tbx4 in the Developing Allantois

(2012) Ripla Arora et al.   PLoS One

Multiple Roles and Interactions of Tbx4 and Tbx5 in Development of the Respiratory System

(2012) Ripla Arora et al.   PLoS Genetics

Identity and fate of Tbx4-expressing cells reveal developmental cell fate decisions in the allantois, limb, and external genitalia

(2011) L.A. Naiche et al.   DEVELOPMENTAL DYNAMICS

Unamplified cap analysis of gene expression on a single-molecule sequencer

(2011) M. Kanamori-Katayama et al.   GENOME RESEARCH

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Prognostic gene-expression signature of carcinoma-associated fibroblasts in non-small cell lung cancer

(2011) R. Navab et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Hallmarks of cancer: Interactions with the tumor stroma

(2010) Kristian Pietras et al.   EXPERIMENTAL CELL RESEARCH

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

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

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

Forcing cells to change lineages

(2009) Thomas Graf et al.   NATURE

Dual hindlimb control elements in the Tbx4 gene and region-specific control of bone size in vertebrate limbs

(2008) D. B. Menke et al.   DEVELOPMENT