Published in BMC Evol Biol on February 03, 2009
TGFβ signalling in context. Nat Rev Mol Cell Biol (2012) 8.08
The evolutionary significance of ancient genome duplications. Nat Rev Genet (2009) 3.95
Beyond TGFβ: roles of other TGFβ superfamily members in cancer. Nat Rev Cancer (2013) 1.67
Origin and evolution of the Notch signalling pathway: an overview from eukaryotic genomes. BMC Evol Biol (2009) 1.34
Structural determinants of Smad function in TGF-β signaling. Trends Biochem Sci (2015) 1.18
2R and remodeling of vertebrate signal transduction engine. BMC Biol (2010) 1.09
Evolution of the TGF-β signaling pathway and its potential role in the ctenophore, Mnemiopsis leidyi. PLoS One (2011) 1.07
Hand in glove: brain and skull in development and dysmorphogenesis. Acta Neuropathol (2013) 1.04
BMP signalling in skeletal development, disease and repair. Nat Rev Endocrinol (2016) 0.97
BMP signaling requires retromer-dependent recycling of the type I receptor. Proc Natl Acad Sci U S A (2014) 0.91
Transforming Growth Factor-β Family Ligands Can Function as Antagonists by Competing for Type II Receptor Binding. J Biol Chem (2016) 0.87
Phylogenetic investigation of Peptide hormone and growth factor receptors in five dipteran genomes. Front Endocrinol (Lausanne) (2013) 0.86
R-Smad competition controls activin receptor output in Drosophila. PLoS One (2012) 0.86
The nematode parasite Onchocerca volvulus generates the transforming growth factor-beta (TGF-beta). Parasitol Res (2009) 0.84
Polyploidy and the evolution of complex traits. Int J Evol Biol (2012) 0.84
Strategies for exploring TGF-β signaling in Drosophila. Methods (2014) 0.83
A simple metric of promoter architecture robustly predicts expression breadth of human genes suggesting that most transcription factors are positive regulators. Genome Biol (2014) 0.80
Protein kinase A modulates transforming growth factor-β signaling through a direct interaction with Smad4 protein. J Biol Chem (2013) 0.79
Phylogenetic evidence for the modular evolution of metazoan signalling pathways. Philos Trans R Soc Lond B Biol Sci (2017) 0.79
TGF-β superfamily members from the helminth Fasciola hepatica show intrinsic effects on viability and development. Vet Res (2015) 0.78
TGF-β in tolerance, development and regulation of immunity. Cell Immunol (2015) 0.78
Hippo pathway phylogenetics predicts monoubiquitylation of Salvador and Merlin/Nf2. PLoS One (2012) 0.77
Innate immunity in vertebrates: an overview. Immunology (2016) 0.77
Dact genes are chordate specific regulators at the intersection of Wnt and Tgf-β signaling pathways. BMC Evol Biol (2014) 0.77
Conservation and evolutionary divergence in the activity of receptor-regulated smads. Evodevo (2012) 0.76
Examining crosstalk among Transforming Growth Factor β, Bone Morphogen Protein, and Wnt pathways. J Biol Chem (2016) 0.75
A Trematode Parasite Derived Growth Factor Binds and Exerts Influences on Host Immune Functions via Host Cytokine Receptor Complexes. PLoS Pathog (2016) 0.75
Evolution history of duplicated smad3 genes in teleost: insights from Japanese flounder, Paralichthys olivaceus. PeerJ (2016) 0.75
Recent advances in understanding contextual TGFβ signaling. F1000Res (2017) 0.75
The role of TGF-beta signaling in dendritic cell tolerance. Immunol Res (2017) 0.75
C. elegans SMA-10 regulates BMP receptor trafficking. PLoS One (2017) 0.75
MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics (2003) 130.85
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol (2003) 102.57
MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics (2001) 101.31
MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment. Brief Bioinform (2004) 72.40
The Pfam protein families database. Nucleic Acids Res (2004) 56.46
MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics (2004) 50.89
CAP3: A DNA sequence assembly program. Genome Res (1999) 50.04
Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol (1986) 36.06
The evolutionary fate and consequences of duplicate genes. Science (2000) 24.22
Database resources of the National Center for Biotechnology Information. Nucleic Acids Res (2006) 18.84
Preservation of duplicate genes by complementary, degenerative mutations. Genetics (1999) 18.29
GeneWise and Genomewise. Genome Res (2004) 17.87
TGF-beta signalling from cell membrane to nucleus through SMAD proteins. Nature (1997) 15.75
Smad transcription factors. Genes Dev (2005) 13.43
Reactome: a knowledge base of biologic pathways and processes. Genome Biol (2007) 13.36
The genome sequence of Caenorhabditis briggsae: a platform for comparative genomics. PLoS Biol (2003) 13.32
ATV: display and manipulation of annotated phylogenetic trees. Bioinformatics (2001) 11.54
The amphioxus genome and the evolution of the chordate karyotype. Nature (2008) 8.03
The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans. Nature (2008) 6.69
The evolution of functionally novel proteins after gene duplication. Proc Biol Sci (1994) 5.99
Selection in the evolution of gene duplications. Genome Biol (2002) 5.58
The logic of TGFbeta signaling. FEBS Lett (2006) 5.26
The probability of preservation of a newly arisen gene duplicate. Genetics (2001) 4.42
Genome duplication, a trait shared by 22000 species of ray-finned fish. Genome Res (2003) 4.19
Gene and genome duplications in vertebrates: the one-to-four (-to-eight in fish) rule and the evolution of novel gene functions. Curr Opin Cell Biol (1999) 3.99
Gene duplications and the origins of vertebrate development. Dev Suppl (1994) 3.98
A neutral model of transcriptome evolution. PLoS Biol (2004) 3.44
A simple algorithm to infer gene duplication and speciation events on a gene tree. Bioinformatics (2001) 3.26
Silencing of TGF-beta signalling by the pseudoreceptor BAMBI. Nature (1999) 3.16
Gen(om)e duplications in the evolution of early vertebrates. Curr Opin Genet Dev (1996) 3.15
Mitochondrial genome of Trichoplax adhaerens supports placozoa as the basal lower metazoan phylum. Proc Natl Acad Sci U S A (2006) 2.47
The closest unicellular relatives of animals. Curr Biol (2002) 2.20
Vertebrate innovations. Proc Natl Acad Sci U S A (2000) 2.00
The origins of multicellularity: a multi-taxon genome initiative. Trends Genet (2007) 1.90
Divergence of spatial gene expression profiles following species-specific gene duplications in human and mouse. Genome Res (2004) 1.88
TGF beta-related pathways. Roles in Caenorhabditis elegans development. Trends Genet (2000) 1.78
A receptor tyrosine kinase from choanoflagellates: molecular insights into early animal evolution. Proc Natl Acad Sci U S A (2001) 1.73
The NK homeobox gene cluster predates the origin of Hox genes. Curr Biol (2007) 1.71
Six major steps in animal evolution: are we derived sponge larvae? Evol Dev (2008) 1.64
Were vertebrates octoploid? Philos Trans R Soc Lond B Biol Sci (2002) 1.62
Molecular evidence for deep evolutionary roots of bilaterality in animal development. Proc Natl Acad Sci U S A (2006) 1.57
Wnt and TGF-beta expression in the sponge Amphimedon queenslandica and the origin of metazoan embryonic patterning. PLoS One (2007) 1.54
My favorite animal, Trichoplax adhaerens. Bioessays (2005) 1.50
The evolutionary origin of hedgehog proteins. Curr Biol (2007) 1.40
Molecular evolution of a developmental pathway: phylogenetic analyses of transforming growth factor-beta family ligands, receptors and Smad signal transducers. Genetics (1999) 1.39
Placozoa -- no longer a phylum of one. Curr Biol (2004) 1.39
Localized expression of a dpp/BMP2/4 ortholog in a coral embryo. Proc Natl Acad Sci U S A (2002) 1.32
Dorso/ventral genes are asymmetrically expressed and involved in germ-layer demarcation during cnidarian gastrulation. Curr Biol (2006) 1.30
Transforming growth factor-beta-related proteins: an ancestral and widespread superfamily of cytokines in metazoans. Dev Comp Immunol (2004) 1.20
Identification of two Smad4 proteins in Xenopus. Their common and distinct properties. J Biol Chem (1999) 1.19
Genetic screen for small body size mutants in C. elegans reveals many TGFbeta pathway components. Genesis (2003) 1.12
Xenopus Smad4beta is the co-Smad component of developmentally regulated transcription factor complexes responsible for induction of early mesodermal genes. Dev Biol (1999) 1.09
SMA-3 smad has specific and critical functions in DBL-1/SMA-6 TGFbeta-related signaling. Dev Biol (2000) 1.05
TGF-beta and the evolution of nematode parasitism. Int J Parasitol (2005) 1.03
Genetic analysis of dauer formation in Caenorhabditis briggsae. Genetics (2007) 1.00
Aging. Stopping the clock. Curr Biol (1994) 0.96
Evolution: an ecological context for C. elegans. Curr Biol (2005) 0.95
An ancient chordin-like gene in organizer formation of Hydra. Proc Natl Acad Sci U S A (2007) 0.95
BMP2/4 and BMP5-8 in jellyfish development and transdifferentiation. Int J Dev Biol (2006) 0.91
Conservation of a DPP/BMP signaling pathway in the nonbilateral cnidarian Acropora millepora. Evol Dev (2001) 0.89
Identification and expression of HySmad1, a member of the R-Smad family of TGFbeta signal transducers, in the diploblastic metazoan Hydra. Dev Genes Evol (2001) 0.89
The TGF-beta--Smad network: introducing bioinformatic tools. Trends Genet (2002) 0.86
The evolution of multicellularity and early animal genomes. Curr Opin Genet Dev (2003) 0.83
Organizing chordates with an organizer. Bioessays (2007) 0.78
Sponges. Curr Biol (2005) 0.78
Expansion of the BioCyc collection of pathway/genome databases to 160 genomes. Nucleic Acids Res (2005) 7.13
Non-Smad TGF-beta signals. J Cell Sci (2005) 6.06
The regulation of TGFbeta signal transduction. Development (2009) 4.59
Signaling networks guiding epithelial-mesenchymal transitions during embryogenesis and cancer progression. Cancer Sci (2007) 4.07
Mechanism of TGF-beta signaling to growth arrest, apoptosis, and epithelial-mesenchymal transition. Curr Opin Cell Biol (2009) 3.94
TGF-beta and the Smad signaling pathway support transcriptomic reprogramming during epithelial-mesenchymal cell transition. Mol Biol Cell (2005) 3.75
Actions of TGF-beta as tumor suppressor and pro-metastatic factor in human cancer. Biochim Biophys Acta (2006) 3.64
Transforming growth factor-beta employs HMGA2 to elicit epithelial-mesenchymal transition. J Cell Biol (2006) 3.44
The type I TGF-beta receptor engages TRAF6 to activate TAK1 in a receptor kinase-independent manner. Nat Cell Biol (2008) 3.31
A SNAIL1-SMAD3/4 transcriptional repressor complex promotes TGF-beta mediated epithelial-mesenchymal transition. Nat Cell Biol (2009) 3.12
Construction, visualisation, and clustering of transcription networks from microarray expression data. PLoS Comput Biol (2007) 2.73
Inhibition of PDGF receptor signaling in tumor stroma enhances antitumor effect of chemotherapy. Cancer Res (2002) 2.70
Are splicing mutations the most frequent cause of hereditary disease? FEBS Lett (2005) 2.68
PDGF receptors as cancer drug targets. Cancer Cell (2003) 2.66
Id2 and Id3 define the potency of cell proliferation and differentiation responses to transforming growth factor beta and bone morphogenetic protein. Mol Cell Biol (2004) 2.53
The net of life: reconstructing the microbial phylogenetic network. Genome Res (2005) 2.31
Transforming growth factor-beta-induced mobilization of actin cytoskeleton requires signaling by small GTPases Cdc42 and RhoA. Mol Biol Cell (2002) 2.27
HMGA2 and Smads co-regulate SNAIL1 expression during induction of epithelial-to-mesenchymal transition. J Biol Chem (2008) 2.22
Control of Smad7 stability by competition between acetylation and ubiquitination. Mol Cell (2002) 2.18
A cis-acting regulatory mutation causes premature hair graying and susceptibility to melanoma in the horse. Nat Genet (2008) 2.13
Regulation of EMT by TGFβ in cancer. FEBS Lett (2012) 2.11
Transforming growth factor-beta1 (TGF-beta)-induced apoptosis of prostate cancer cells involves Smad7-dependent activation of p38 by TGF-beta-activated kinase 1 and mitogen-activated protein kinase kinase 3. Mol Biol Cell (2003) 2.03
Computational disease gene identification: a concert of methods prioritizes type 2 diabetes and obesity candidate genes. Nucleic Acids Res (2006) 1.95
Elucidation of Smad requirement in transforming growth factor-beta type I receptor-induced responses. J Biol Chem (2002) 1.89
Prognostic significance of stromal platelet-derived growth factor beta-receptor expression in human breast cancer. Am J Pathol (2009) 1.81
COmplete GENome Tracking (COGENT): a flexible data environment for computational genomics. Bioinformatics (2003) 1.77
PDGF receptors as targets in tumor treatment. Adv Cancer Res (2007) 1.76
Platelet-derived growth factor production by B16 melanoma cells leads to increased pericyte abundance in tumors and an associated increase in tumor growth rate. Cancer Res (2004) 1.72
VEGF-B inhibits apoptosis via VEGFR-1-mediated suppression of the expression of BH3-only protein genes in mice and rats. J Clin Invest (2008) 1.68
Regulating the stability of TGFbeta receptors and Smads. Cell Res (2009) 1.67
Role of Smads in TGFβ signaling. Cell Tissue Res (2011) 1.62
Measuring genome conservation across taxa: divided strains and united kingdoms. Nucleic Acids Res (2005) 1.61
Degradation of the tumor suppressor Smad4 by WW and HECT domain ubiquitin ligases. J Biol Chem (2005) 1.60
ChIP-seq reveals cell type-specific binding patterns of BMP-specific Smads and a novel binding motif. Nucleic Acids Res (2011) 1.55
Revascularization of ischemic tissues by PDGF-CC via effects on endothelial cells and their progenitors. J Clin Invest (2005) 1.55
Nuclear factor YY1 inhibits transforming growth factor beta- and bone morphogenetic protein-induced cell differentiation. Mol Cell Biol (2003) 1.50
Genetic and pharmacological targeting of activin receptor-like kinase 1 impairs tumor growth and angiogenesis. J Exp Med (2010) 1.48
Activation of bone morphogenetic protein/Smad signaling in bronchial epithelial cells during airway inflammation. Am J Respir Cell Mol Biol (2002) 1.45
Smad pathway-specific transcriptional regulation of the cell cycle inhibitor p21(WAF1/Cip1). J Cell Physiol (2005) 1.44
LIM-kinase 2 and cofilin phosphorylation mediate actin cytoskeleton reorganization induced by transforming growth factor-beta. J Biol Chem (2005) 1.42
The mechanism of nuclear export of Smad3 involves exportin 4 and Ran. Mol Cell Biol (2006) 1.42
Interaction between Smad7 and beta-catenin: importance for transforming growth factor beta-induced apoptosis. Mol Cell Biol (2005) 1.41
Suppressors of T-cell receptor signaling Sts-1 and Sts-2 bind to Cbl and inhibit endocytosis of receptor tyrosine kinases. J Biol Chem (2004) 1.38
Notch signaling is necessary for epithelial growth arrest by TGF-beta. J Cell Biol (2007) 1.36
Deletion of exon I of SMAD7 in mice results in altered B cell responses. J Immunol (2006) 1.36
MagicMatch--cross-referencing sequence identifiers across databases. Bioinformatics (2005) 1.34
Platelet-derived growth factor stimulates membrane lipid synthesis through activation of phosphatidylinositol 3-kinase and sterol regulatory element-binding proteins. J Biol Chem (2004) 1.33
Differential ubiquitination defines the functional status of the tumor suppressor Smad4. J Biol Chem (2003) 1.33
Preferential oxidation of the second phosphatase domain of receptor-like PTP-alpha revealed by an antibody against oxidized protein tyrosine phosphatases. Proc Natl Acad Sci U S A (2004) 1.33
Functions of transforming growth factor-beta family type I receptors and Smad proteins in the hypertrophic maturation and osteoblastic differentiation of chondrocytes. J Biol Chem (2002) 1.32
PARP-1 attenuates Smad-mediated transcription. Mol Cell (2010) 1.32
Doxorubicin requires the sequential activation of caspase-2, protein kinase Cdelta, and c-Jun NH2-terminal kinase to induce apoptosis. Mol Biol Cell (2005) 1.29
TRAF6 ubiquitinates TGFβ type I receptor to promote its cleavage and nuclear translocation in cancer. Nat Commun (2011) 1.28
STI571 enhances the therapeutic index of epothilone B by a tumor-selective increase of drug uptake. Clin Cancer Res (2003) 1.27
Genome coverage, literally speaking. The challenge of annotating 200 genomes with 4 million publications. EMBO Rep (2005) 1.25
Tgf-beta3-induced palatal fusion is mediated by Alk-5/Smad pathway. Dev Biol (2004) 1.24
The balance between acetylation and deacetylation controls Smad7 stability. J Biol Chem (2005) 1.24
Association between translation efficiency and horizontal gene transfer within microbial communities. Nucleic Acids Res (2011) 1.24
Induction of epithelial-mesenchymal transition by transforming growth factor β. Semin Cancer Biol (2012) 1.21
A minimal estimate for the gene content of the last universal common ancestor--exobiology from a terrestrial perspective. Res Microbiol (2005) 1.18
The role of Sp1 family members, the proximal GC-rich motifs, and the upstream enhancer region in the regulation of the human cell cycle inhibitor p21WAF-1/Cip1 gene promoter. Biochemistry (2002) 1.16
Regulation of transcription factor Twist expression by the DNA architectural protein high mobility group A2 during epithelial-to-mesenchymal transition. J Biol Chem (2012) 1.16
Negative and positive regulation of MAPK phosphatase 3 controls platelet-derived growth factor-induced Erk activation. J Biol Chem (2008) 1.16
Identification of a subset of pericytes that respond to combination therapy targeting PDGF and VEGF signaling. Int J Cancer (2007) 1.15
The DNA binding activities of Smad2 and Smad3 are regulated by coactivator-mediated acetylation. J Biol Chem (2006) 1.14
The notch and TGF-β signaling pathways contribute to the aggressiveness of clear cell renal cell carcinoma. PLoS One (2011) 1.11
Dynamic control of TGF-beta signaling and its links to the cytoskeleton. FEBS Lett (2008) 1.10
Ligand-induced recruitment of Na+/H+-exchanger regulatory factor to the PDGF (platelet-derived growth factor) receptor regulates actin cytoskeleton reorganization by PDGF. Biochem J (2003) 1.10
Tumorigenic properties of iron regulatory protein 2 (IRP2) mediated by its specific 73-amino acids insert. PLoS One (2010) 1.10
TGFβ-induced invasion of prostate cancer cells is promoted by c-Jun-dependent transcriptional activation of Snail1. Cell Cycle (2014) 1.09
Growth factor regulation of hyaluronan synthesis and degradation in human dermal fibroblasts: importance of hyaluronan for the mitogenic response of PDGF-BB. Biochem J (2007) 1.08
A systems model for immune cell interactions unravels the mechanism of inflammation in human skin. PLoS Comput Biol (2010) 1.07
Control of transforming growth factor beta signal transduction by small GTPases. FEBS J (2009) 1.07
Hyaluronan fragments induce endothelial cell differentiation in a CD44- and CXCL1/GRO1-dependent manner. J Biol Chem (2005) 1.06
Beyond 100 genomes. Genome Biol (2003) 1.06
Site-selective regulation of platelet-derived growth factor beta receptor tyrosine phosphorylation by T-cell protein tyrosine phosphatase. Mol Cell Biol (2004) 1.06
SREBP-1 regulates the expression of heme oxygenase 1 and the phosphatidylinositol-3 kinase regulatory subunit p55 gamma. J Lipid Res (2007) 1.05
Filamin a mediates HGF/c-MET signaling in tumor cell migration. Int J Cancer (2011) 1.05
Combined anti-angiogenic therapy targeting PDGF and VEGF receptors lowers the interstitial fluid pressure in a murine experimental carcinoma. PLoS One (2009) 1.05
Different effects of high and low shear stress on platelet-derived growth factor isoform release by endothelial cells: consequences for smooth muscle cell migration. Arterioscler Thromb Vasc Biol (2002) 1.04
The activity of hyaluronan synthase 2 is regulated by dimerization and ubiquitination. J Biol Chem (2010) 1.04
Cdc6 expression represses E-cadherin transcription and activates adjacent replication origins. J Cell Biol (2011) 1.04
TGFbeta1/Smad3 counteracts BRCA1-dependent repair of DNA damage. Oncogene (2005) 1.03
From mono- to oligo-Smads: the heart of the matter in TGF-beta signal transduction. Genes Dev (2002) 1.03
Quantitative analysis of transient and sustained transforming growth factor-β signaling dynamics. Mol Syst Biol (2011) 1.03