ArticleGenome research2007
Computational identification and functional validation of regulatory motifs in cartilage-expressed genes.
Article in Genome research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
19 citing papers in PubMed, 30 citations in OpenAlex.
- TIGERi: modeling and visualizing the responses to perturbation of a transcription factor network.BMC bioinformatics · 2017Article
- Protective effects of baicalin on rabbit articular chondrocytesExperimental and therapeutic medicine · 2017Article
- ConBind: motif-aware cross-species alignment for the identification of functional transcription factor binding sites.Nucleic acids research · 2016Article
- Effect of Longan polysaccharides on proliferation and phenotype maintenance in rabbit articular chondrocytes in vitro.Medical & biological engineering & computing · 2016Article
- Protocatechuic acid benefits proliferation and phenotypic maintenance of rabbit articular chondrocytes: AnExperimental and therapeutic medicine · 2015Article
- Effect of epigallocatechin-3-gallate on proliferation and phenotype maintenance in rabbit articular chondrocytesExperimental and therapeutic medicine · 2015Article
- CaMKII plays a part in the chondrogenesis of bone marrow-derived mesenchymal stem cells.International journal of clinical and experimental pathology · 2015Article
- A Novel Synthesized Sulfonamido-Based Gallate-JEZ-C as Potential Therapeutic Agents for Osteoarthritis.PloS one · 2015Article
- Andrographolide enhances proliferation and prevents dedifferentiation of rabbit articular chondrocytes: an in vitro study.Evidence-based complementary and alternative medicine : eCAM · 2015Article
- Effect of JEZTC, a synthetic compound, on proliferation and phenotype maintenance of rabbit articular chondrocytes in vitro.In vitro cellular & developmental biology. Animal · 2014Article
- Minor fibrillar collagens, variable regions alternative splicing, intrinsic disorder, and tyrosine sulfation.Protein & cell · 2012Review
- Rose hip and its constituent galactolipids confer cartilage protection by modulating cytokine, and chemokine expression.BMC complementary and alternative medicine · 2011Article
- CCAAT/enhancer-binding protein β and NF-κB mediate high level expression of chemokine genes CCL3 and CCL4 by human chondrocytes in response to IL-1β.The Journal of biological chemistry · 2010Article
- Resistin induces expression of proinflammatory cytokines and chemokines in human articular chondrocytes via transcription and messenger RNA stabilization.Arthritis and rheumatism · 2010Article
- Sequence features that drive human promoter function and tissue specificity.Genome research · 2010Article
- Computational design and application of endogenous promoters for transcriptionally targeted gene therapy for rheumatoid arthritis.Molecular therapy : the journal of the American Society of Gene Therapy · 2009Article
- A new cis-acting regulatory element driving gene expression in the zebrafish pineal gland.Bioinformatics (Oxford, England) · 2009Article
- Identification of neuronal target genes for CCAAT/enhancer binding proteins.Molecular and cellular neurosciences · 2009Article
- Exuberant expression of chemokine genes by adult human articular chondrocytes in response to IL-1beta.Osteoarthritis and cartilage · 2008Article
Corrections and comments
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Authors and funding
8 authors at 2 institutions in 1 country.
Funding
Abstract
Chondrocyte gene regulation is important for the generation and maintenance of cartilage tissues. Several regulatory factors have been identified that play a role in chondrogenesis, including the positive transacting factors of the SOX family such as SOX9, SOX5, and SOX6, as well as negative transacting factors such as C/EBP and delta EF1. However, a complete understanding of the intricate regulatory network that governs the tissue-specific expression of cartilage genes is not yet available. We have taken a computational approach to identify cis-regulatory, transcription factor (TF) binding motifs in a set of cartilage characteristic genes to better define the transcriptional regulatory networks that regulate chondrogenesis. Our computational methods have identified several TFs, whose binding profiles are available in the TRANSFAC database, as important to chondrogenesis. In addition, a cartilage-specific SOX-binding profile was constructed and used to identify both known, and novel, functional paired SOX-binding motifs in chondrocyte genes. Using DNA pattern-recognition algorithms, we have also identified cis-regulatory elements for unknown TFs. We have validated our computational predictions through mutational analyses in cell transfection experiments. One novel regulatory motif, N1, found at high frequency in the COL2A1 promoter, was found to bind to chondrocyte nuclear proteins. Mutational analyses suggest that this motif binds a repressive factor that regulates basal levels of the COL2A1 promoter.
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What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.