Published in Dev Dyn on July 01, 2007
An equatorial contractile mechanism drives cell elongation but not cell division. PLoS Biol (2014) 1.45
The ANISEED database: digital representation, formalization, and elucidation of a chordate developmental program. Genome Res (2010) 1.43
Whole-organ cell shape analysis reveals the developmental basis of ascidian notochord taper. Dev Biol (2012) 1.01
NK4 antagonizes Tbx1/10 to promote cardiac versus pharyngeal muscle fate in the ascidian second heart field. PLoS Biol (2013) 0.92
ANISEED 2015: a digital framework for the comparative developmental biology of ascidians. Nucleic Acids Res (2015) 0.92
Genetic and genomic toolbox of the chordate Ciona intestinalis. Genetics (2012) 0.91
Phylostratigraphic profiles reveal a deep evolutionary history of the vertebrate head sensory systems. Front Zool (2013) 0.90
doublesex/mab3 related-1 (dmrt1) is essential for development of anterior neural plate derivatives in Ciona. Development (2010) 0.90
Antagonizing retinoic acid and FGF/MAPK pathways control posterior body patterning in the invertebrate chordate Ciona intestinalis. PLoS One (2012) 0.89
Initial deployment of the cardiogenic gene regulatory network in the basal chordate, Ciona intestinalis. Dev Biol (2012) 0.86
A single GATA factor plays discrete, lineage specific roles in ascidian heart development. Dev Biol (2011) 0.86
The identification of transcription factors expressed in the notochord of Ciona intestinalis adds new potential players to the brachyury gene regulatory network. Dev Dyn (2011) 0.85
Ontology for the asexual development and anatomy of the colonial chordate Botryllus schlosseri. PLoS One (2014) 0.85
Tbx2/3 is an essential mediator within the Brachyury gene network during Ciona notochord development. Development (2013) 0.84
CIPRO 2.5: Ciona intestinalis protein database, a unique integrated repository of large-scale omics data, bioinformatic analyses and curated annotation, with user rating and reviewing functionality. Nucleic Acids Res (2010) 0.84
A conserved role for FGF signaling in chordate otic/atrial placode formation. Dev Biol (2007) 0.84
Functional Brachyury binding sites establish a temporal read-out of gene expression in the Ciona notochord. PLoS Biol (2013) 0.83
The pre-vertebrate origins of neurogenic placodes. Nature (2015) 0.82
Eph regulates dorsoventral asymmetry of the notochord plate and convergent extension-mediated notochord formation. PLoS One (2010) 0.81
A cis-regulatory signature for chordate anterior neuroectodermal genes. PLoS Genet (2010) 0.80
Key steps in the morphogenesis of a cranial placode in an invertebrate chordate, the tunicate Ciona savignyi. Dev Biol (2010) 0.80
Anterior-posterior regionalized gene expression in the Ciona notochord. Dev Dyn (2013) 0.80
Study of Cis-regulatory Elements in the Ascidian Ciona intestinalis. Curr Genomics (2013) 0.79
Towards 3D in silico modeling of the sea urchin embryonic development. J Chem Biol (2013) 0.79
A one-dimensional model of PCP signaling: polarized cell behavior in the notochord of the ascidian Ciona. Dev Biol (2014) 0.79
Representation of anatomy in online atlases and databases: a survey and collection of patterns for interface design. BMC Dev Biol (2016) 0.78
An organismal perspective on C. intestinalis development, origins and diversification. Elife (2015) 0.78
A transiently expressed connexin is essential for anterior neural plate development in Ciona intestinalis. Development (2012) 0.78
Matrix adhesion polarizes heart progenitor induction in the invertebrate chordate Ciona intestinalis. Development (2013) 0.78
Reciprocal and dynamic polarization of planar cell polarity core components and myosin. Elife (2015) 0.78
Quantitative and in toto imaging in ascidians: working toward an image-centric systems biology of chordate morphogenesis. Genesis (2014) 0.78
Raman spectroscopic imaging of the whole Ciona intestinalis embryo during development. PLoS One (2013) 0.78
Ephrin-mediated restriction of ERK1/2 activity delimits the number of pigment cells in the Ciona CNS. Dev Biol (2014) 0.78
Fibronectin contributes to notochord intercalation in the invertebrate chordate, Ciona intestinalis. Evodevo (2016) 0.77
An otx/nodal regulatory signature for posterior neural development in ascidians. PLoS Genet (2014) 0.77
Surrounding tissues canalize motile cardiopharyngeal progenitors towards collective polarity and directed migration. Development (2015) 0.77
Fibroblast growth factor signalling controls nervous system patterning and pigment cell formation in Ciona intestinalis. Nat Commun (2014) 0.77
Generation of Germ-Free Ciona intestinalis for Studies of Gut-Microbe Interactions. Front Microbiol (2016) 0.76
T-type Calcium Channel Regulation of Neural Tube Closure and EphrinA/EPHA Expression. Cell Rep (2015) 0.76
Stochasticity and stereotypy in the Ciona notochord. Dev Biol (2014) 0.75
Cis-regulatory timers for developmental gene expression. PLoS Biol (2013) 0.75
Evidence for dynamic and multiple roles for huntingtin in Ciona intestinalis. Invert Neurosci (2013) 0.75
Ciona as a Simple Chordate Model for Heart Development and Regeneration. J Cardiovasc Dev Dis (2016) 0.75
Tunicates: exploring the sea shores and roaming the open ocean. A tribute to Thomas Huxley. Open Biol (2015) 0.75
Rewiring of an ancestral Tbx1/10-Ebf-Mrf network for pharyngeal muscle specification in distinct embryonic lineages. Development (2016) 0.75
ACAM, a novel member of the neural IgCAM family, mediates anterior neural tube closure in a primitive chordate. Dev Biol (2015) 0.75
AMPA glutamate receptors are required for sensory-organ formation and morphogenesis in the basal chordate. Proc Natl Acad Sci U S A (2017) 0.75
Functional and evolutionary insights from the Ciona notochord transcriptome. Development (2017) 0.75
Establishment of lateral organ asymmetries in the invertebrate chordate, Ciona intestinalis. Evodevo (2017) 0.75
Architectural delineation and molecular identification of extracellular matrix in ascidian embryos and larvae. Biol Open (2017) 0.75
The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins. Science (2002) 11.11
Big data: The future of biocuration. Nature (2008) 10.81
Mapping human genetic diversity in Asia. Science (2009) 7.40
Integrative annotation of 21,037 human genes validated by full-length cDNA clones. PLoS Biol (2004) 7.17
Sequence-specific error profile of Illumina sequencers. Nucleic Acids Res (2011) 6.88
Phosphoinositide phosphatase activity coupled to an intrinsic voltage sensor. Nature (2005) 6.85
CIBEX: center for information biology gene expression database. C R Biol (2004) 6.16
MassBank: a public repository for sharing mass spectral data for life sciences. J Mass Spectrom (2010) 6.16
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nat Genet (2009) 6.02
DDBJ in preparation for overview of research activities behind data submissions. Nucleic Acids Res (2006) 6.02
DDBJ launches a new archive database with analytical tools for next-generation sequence data. Nucleic Acids Res (2009) 5.89
Biased biological functions of horizontally transferred genes in prokaryotic genomes. Nat Genet (2004) 5.49
The genome sequence and structure of rice chromosome 1. Nature (2002) 4.99
The Rice Annotation Project Database (RAP-DB): 2008 update. Nucleic Acids Res (2007) 4.23
Metabolic efficiency and amino acid composition in the proteomes of Escherichia coli and Bacillus subtilis. Proc Natl Acad Sci U S A (2002) 4.22
The dynamic genome of Hydra. Nature (2010) 4.00
Phylogenetic analysis of the complete genome of 18 Norwalk-like viruses. Virology (2002) 3.79
DDBJ progress report. Nucleic Acids Res (2010) 3.34
DDBJ dealing with mass data produced by the second generation sequencer. Nucleic Acids Res (2008) 3.24
Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana. Genome Res (2007) 3.13
Clinicopathological characteristics of patients with IgG4-related tubulointerstitial nephritis. Kidney Int (2010) 3.13
The DNA Data Bank of Japan launches a new resource, the DDBJ Omics Archive of functional genomics experiments. Nucleic Acids Res (2011) 3.05
Glucose toxicity in beta-cells: type 2 diabetes, good radicals gone bad, and the glutathione connection. Diabetes (2003) 2.96
Endogenous non-retroviral RNA virus elements in mammalian genomes. Nature (2010) 2.91
The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information. Nucleic Acids Res (2006) 2.90
Exploration and grading of possible genes from 183 bacterial strains by a common protocol to identification of new genes: Gene Trek in Prokaryote Space (GTPS). DNA Res (2006) 2.51
DDBJ working on evaluation and classification of bacterial genes in INSDC. Nucleic Acids Res (2006) 2.50
Whole-genome screening indicates a possible burst of formation of processed pseudogenes and Alu repeats by particular L1 subfamilies in ancestral primates. Genome Biol (2003) 2.19
Proposal for diagnostic criteria for IgG4-related kidney disease. Clin Exp Nephrol (2011) 2.12
The origin and evolution of porcine reproductive and respiratory syndrome viruses. Mol Biol Evol (2005) 2.09
Comparative complete genome sequence analysis of the amino acid replacements responsible for the thermostability of Corynebacterium efficiens. Genome Res (2003) 2.07
A large variation in the rates of synonymous substitution for RNA viruses and its relationship to a diversity of viral infection and transmission modes. Mol Biol Evol (2004) 2.07
The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts. Nucleic Acids Res (2007) 2.07
A comparison of the molecular clock of hepatitis C virus in the United States and Japan predicts that hepatocellular carcinoma incidence in the United States will increase over the next two decades. Proc Natl Acad Sci U S A (2002) 2.02
Mutations in the SLC34A2 gene are associated with pulmonary alveolar microlithiasis. Am J Respir Crit Care Med (2006) 1.98
Towards BioDBcore: a community-defined information specification for biological databases. Nucleic Acids Res (2010) 1.97
Direct binding of Toll-like receptor 2 to zymosan, and zymosan-induced NF-kappa B activation and TNF-alpha secretion are down-regulated by lung collectin surfactant protein A. J Immunol (2003) 1.91
A new conceptualization for Mikulicz's disease as an IgG4-related plasmacytic disease. Mod Rheumatol (2006) 1.91
Rate of evolution in brain-expressed genes in humans and other primates. PLoS Biol (2007) 1.87
KNApSAcK family databases: integrated metabolite-plant species databases for multifaceted plant research. Plant Cell Physiol (2011) 1.82
Clinical and pathological characteristics of Mikulicz's disease (IgG4-related plasmacytic exocrinopathy). Autoimmun Rev (2004) 1.80
FGFR-related gene nou-darake restricts brain tissues to the head region of planarians. Nature (2002) 1.80
Transcriptional interferences in cis natural antisense transcripts of humans and mice. Genetics (2007) 1.79
CXCL8/IL-8 and CXCL12/SDF-1alpha co-operatively promote invasiveness and angiogenesis in pancreatic cancer. Int J Cancer (2009) 1.79
Systems medicine and integrated care to combat chronic noncommunicable diseases. Genome Med (2011) 1.78
Insertional mutagenesis by the Tol2 transposon-mediated enhancer trap approach generated mutations in two developmental genes: tcf7 and synembryn-like. Development (2008) 1.76
The prickle-related gene in vertebrates is essential for gastrulation cell movements. Curr Biol (2003) 1.76
Improved genome assembly and evidence-based global gene model set for the chordate Ciona intestinalis: new insight into intron and operon populations. Genome Biol (2008) 1.75
Cinnamoyl-CoA reductase, a key enzyme in lignin biosynthesis, is an effector of small GTPase Rac in defense signaling in rice. Proc Natl Acad Sci U S A (2005) 1.75
A cDNA resource from the basal chordate Ciona intestinalis. Genesis (2002) 1.65
Long-range neural and gap junction protein-mediated cues control polarity during planarian regeneration. Dev Biol (2009) 1.62
Toll-like receptor-2 modulates ventricular remodeling after myocardial infarction. Circulation (2003) 1.62
Risk of malignancies in IgG4-related disease. Mod Rheumatol (2011) 1.61
The evolutionary position of nematodes. BMC Evol Biol (2002) 1.60
Diversity of preferred nucleotide sequences around the translation initiation codon in eukaryote genomes. Nucleic Acids Res (2007) 1.52
SOX2 is overexpressed in stem-like cells of human lung adenocarcinoma and augments the tumorigenicity. Lab Invest (2011) 1.52
Serum levels of pigmentation markers are elevated in patients undergoing hemodialysis. Blood Purif (2007) 1.46
Need for preoperative computed tomography-guided localization in video-assisted thoracoscopic surgery pulmonary resections of metastatic pulmonary nodules. Ann Thorac Surg (2010) 1.46
Comparative sequencing of human and chimpanzee MHC class I regions unveils insertions/deletions as the major path to genomic divergence. Proc Natl Acad Sci U S A (2003) 1.43
Tophaceous gout in the cervical spine. Intern Med (2012) 1.40
The GTOP database in 2009: updated content and novel features to expand and deepen insights into protein structures and functions. Nucleic Acids Res (2008) 1.39
Cutoff Values of Serum IgG4 and Histopathological IgG4+ Plasma Cells for Diagnosis of Patients with IgG4-Related Disease. Int J Rheumatol (2012) 1.39
The Human Anatomic Gene Expression Library (H-ANGEL), the H-Inv integrative display of human gene expression across disparate technologies and platforms. Nucleic Acids Res (2005) 1.39
Origin and evolutionary process of the CNS elucidated by comparative genomics analysis of planarian ESTs. Proc Natl Acad Sci U S A (2003) 1.38
Activation of a Rac GTPase by the NLR family disease resistance protein Pit plays a critical role in rice innate immunity. Cell Host Microbe (2010) 1.38
Deficiency of Long Pentraxin PTX3 Promoted Neointimal Hyperplasia after Vascular Injury. J Atheroscler Thromb (2014) 1.38
A combination of plaque components analyzed by integrated backscatter intravascular ultrasound and serum pregnancy-associated plasma protein a levels predict the no-reflow phenomenon during percutaneous coronary intervention. Catheter Cardiovasc Interv (2014) 1.38
Rapid evolution of major histocompatibility complex class I genes in primates generates new disease alleles in humans via hitchhiking diversity. Genetics (2006) 1.37
Whole genome association study of rheumatoid arthritis using 27 039 microsatellites. Hum Mol Genet (2005) 1.36
Preferential involvement of Tim-3 in the regulation of hepatic CD8+ T cells in murine acute graft-versus-host disease. J Immunol (2006) 1.35
The clinical course of patients with IgG4-related kidney disease. Kidney Int (2013) 1.35
Loss of PTEN expression is associated with colorectal cancer liver metastasis and poor patient survival. BMC Gastroenterol (2008) 1.34
Large-scale identification and characterization of alternative splicing variants of human gene transcripts using 56,419 completely sequenced and manually annotated full-length cDNAs. Nucleic Acids Res (2006) 1.34
Biological databases at DNA Data Bank of Japan in the era of next-generation sequencing technologies. Adv Exp Med Biol (2010) 1.34
High serum level of pentosidine, an advanced glycation end product (AGE), is a risk factor of patients with heart failure. J Card Fail (2007) 1.33
Pulmonary surfactant protein A augments the phagocytosis of Streptococcus pneumoniae by alveolar macrophages through a casein kinase 2-dependent increase of cell surface localization of scavenger receptor A. J Biol Chem (2004) 1.33
Value of serum IgG4 in the diagnosis of IgG4-related disease and in differentiation from rheumatic diseases and other diseases. Mod Rheumatol (2011) 1.33
Genome-wide association study identifies TNFSF15 and POU2AF1 as susceptibility loci for primary biliary cirrhosis in the Japanese population. Am J Hum Genet (2012) 1.32
Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees. Nucleic Acids Res (2007) 1.32
Genome-wide binding profiles of the Bacillus subtilis transition state regulator AbrB and its homolog Abh reveals their interactive role in transcriptional regulation. Nucleic Acids Res (2010) 1.30
Chromosome engineering allows the efficient isolation of vertebrate neocentromeres. Dev Cell (2013) 1.30
Evolution of complex structures: minicollagens shape the cnidarian nematocyst. Trends Genet (2008) 1.29
Investigation of protein functions through data-mining on integrated human transcriptome database, H-Invitational database (H-InvDB). Gene (2005) 1.27