The transcription factors SOX9 and SOX5/SOX6 cooperate genome-wide through super-enhancers to drive chondrogenesis

A pathway to bone: signaling molecules and transcription factors involved in chondrocyte development and maturation

(2015) E. Kozhemyakina et al.   DEVELOPMENT

Osteoarthritis in the XXIst Century: Risk Factors and Behaviours that Influence Disease Onset and Progression

(2015) Giuseppe Musumeci et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Pioneer factors govern super-enhancer dynamics in stem cell plasticity and lineage choice

(2015) Rene C. Adam et al.   NATURE

The SOX9 upstream region prone to chromosomal aberrations causing campomelic dysplasia contains multiple cartilage enhancers

(2015) B. Yao et al.   NUCLEIC ACIDS RESEARCH

The transcription factor Foxc1 is necessary for Ihh–Gli2-regulated endochondral ossification

(2015) Michiko Yoshida et al.   Nature Communications

SOX9: a stem cell transcriptional regulator of secreted niche signaling factors

(2014) M. Kadaja et al.   GENES & DEVELOPMENT

Mutant activated FGFR3 impairs endochondral bone growth by preventing SOX9 downregulation in differentiating chondrocytes

(2014) Zi-Qiang Zhou et al.   HUMAN MOLECULAR GENETICS

SOXC proteins amplify canonical WNT signaling to secure nonchondrocytic fates in skeletogenesis

(2014) Pallavi Bhattaram et al.   JOURNAL OF CELL BIOLOGY

High-resolution chromatin immunoprecipitation (ChIP) sequencing reveals novel binding targets and prognostic role for SOX11 in mantle cell lymphoma

(2014) P-Y Kuo et al.   ONCOGENE

SOX9 Regulates Multiple Genes in Chondrocytes, Including Genes Encoding ECM Proteins, ECM Modification Enzymes, Receptors, and Transporters

(2014) Chun-do Oh et al.   PLoS One

Hmgb1 can facilitate activation of the matrilin-1 gene promoter by Sox9 and L-Sox5/Sox6 in early steps of chondrogenesis

(2013) Tibor Szénási et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

PAVIS: a tool for Peak Annotation and Visualization

(2013) Weichun Huang et al.   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

Sox proteins: regulators of cell fate specification and differentiation

(2013) Y. Kamachi et al.   DEVELOPMENT

A far-upstream (−70 kb) enhancer mediates Sox9 auto-regulation in somatic tissues during development and adult regeneration

(2013) Timothy J. Mead et al.   NUCLEIC ACIDS RESEARCH

Development of the Endochondral Skeleton

(2013) F. Long et al.   Cold Spring Harbor Perspectives in Biology

Interaction between Foxc1 and Fgf8 during Mammalian Jaw Patterning and in the Pathogenesis of Syngnathia

(2013) Kimberly E. Inman et al.   PLoS Genetics

Six2 and Wnt Regulate Self-Renewal and Commitment of Nephron Progenitors through Shared Gene Regulatory Networks

(2012) Joo-Seop Park et al.   DEVELOPMENTAL CELL

Sox9 Directs Hypertrophic Maturation and Blocks Osteoblast Differentiation of Growth Plate Chondrocytes

(2012) Peter Dy et al.   DEVELOPMENTAL CELL

A newly identified enhancer element responsible for type II collagen gene expression

(2012) T. Shinomura et al.   JOURNAL OF BIOCHEMISTRY

L-Sox5 and Sox6 Proteins Enhance Chondrogenic miR-140 MicroRNA Expression by Strengthening Dimeric Sox9 Activity

(2012) Satoshi Yamashita et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The postnatal role of Sox9 in cartilage

(2012) Stephen P Henry et al.   JOURNAL OF BONE AND MINERAL RESEARCH

Multiple enhancers associated with ACAN suggest highly redundant transcriptional regulation in cartilage

(2012) Gui Hu et al.   MATRIX BIOLOGY

Identifying ChIP-seq enrichment using MACS

(2012) Jianxing Feng et al.   Nature Protocols

Inferring direct DNA binding from ChIP-seq

(2012) Timothy L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Nosology and classification of genetic skeletal disorders: 2010 revision

(2011) Matthew L. Warman et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART A

Sox9 Is Upstream of MicroRNA-140 in Cartilage

(2011) Yukio Nakamura et al.   APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY

Genome-wide mapping of Sox6 binding sites in skeletal muscle reveals both direct and indirect regulation of muscle terminal differentiation by Sox6

(2011) Chung-Il An et al.   BMC DEVELOPMENTAL BIOLOGY

Unraveling the transcriptional regulatory machinery in chondrogenesis

(2011) Haruhiko Akiyama et al.   JOURNAL OF BONE AND MINERAL METABOLISM

Arid5a cooperates with Sox9 to stimulate chondrocyte-specific transcription

(2011) Katsuhiko Amano et al.   MOLECULAR BIOLOGY OF THE CELL

Concerted regulation of myofiber-specific gene expression and muscle performance by the transcriptional repressor Sox6

(2011) D. Quiat et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Wwp2 is essential for palatogenesis mediated by the interaction between Sox9 and mediator subunit 25

(2011) Yukio Nakamura et al.   Nature Communications

SOX9 Governs Differentiation Stage-Specific Gene Expression in Growth Plate Chondrocytes via Direct Concomitant Transactivation and Repression

(2011) Victor Y. L. Leung et al.   PLoS Genetics

Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data

(2010) Robert C McLeay et al.   BMC BIOINFORMATICS

Synovial joint morphogenesis requires the chondrogenic action of Sox5 and Sox6 in growth plate and articular cartilage

(2010) Peter Dy et al.   DEVELOPMENTAL BIOLOGY

MicroRNA-140 plays dual roles in both cartilage development and homeostasis

(2010) S. Miyaki et al.   GENES & DEVELOPMENT

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

The E3 ubiquitin ligase Wwp2 regulates craniofacial development through mono-ubiquitylation of Goosecoid

(2010) Weiguo Zou et al.   NATURE CELL BIOLOGY

Identification of SOX9 Interaction Sites in the Genome of Chondrocytes

(2010) Chun-do Oh et al.   PLoS One

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Sox9 directly promotes Bapx1 gene expression to repress Runx2 in chondrocytes

(2009) Satoshi Yamashita et al.   EXPERIMENTAL CELL RESEARCH

The SoxD transcription factors – Sox5, Sox6, and Sox13 – are key cell fate modulators

(2009) Véronique Lefebvre   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

SOX–partner code for cell specification: Regulatory target selection and underlying molecular mechanisms

(2009) Hisato Kondoh et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Long-range regulation at the SOX9 locus in development and disease

(2009) C T Gordon et al.   JOURNAL OF MEDICAL GENETICS

The Transcriptional Activity of Sox9 in Chondrocytes Is Regulated by RhoA Signaling and Actin Polymerization

(2009) D. Kumar et al.   MOLECULAR AND CELLULAR BIOLOGY

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Integration of External Signaling Pathways with the Core Transcriptional Network in Embryonic Stem Cells

(2008) Xi Chen et al.   CELL

Generation of mice harboring aSox5conditional null allele

(2008) Peter Dy et al.   GENESIS

L-Sox5 and Sox6 Drive Expression of the Aggrecan Gene in Cartilage by Securing Binding of Sox9 to a Far-Upstream Enhancer

(2008) Y. Han et al.   MOLECULAR AND CELLULAR BIOLOGY

The transcription factor Sox5 modulates Sox10 function during melanocyte development

(2008) C. C. Stolt et al.   NUCLEIC ACIDS RESEARCH