ArticlePloS one2011
Chromatin immunoprecipitation to analyze DNA binding sites of HMGA2.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 34 citations in OpenAlex.
- Binding to the Other Side: The AT-Hook DNA-Binding Domain Allows Nuclear Factors to Exploit the DNA Minor Groove.International journal of molecular sciences · 2024Review
- HMGA2 directly mediates chromatin condensation in association with neuronal fate regulation.Nature communications · 2023Article
- SUPPRESSOR OF PHYTOCHROME B-4 #3 reduces the expression of PIF-activated genes and increases expression of growth repressors to regulate hypocotyl elongation in short days.BMC plant biology · 2022Article
- Interactions of HMGB Proteins with the Genome and the Impact on Disease.Biomolecules · 2021Review
- The Mammalian High Mobility Group Protein AT-Hook 2 (HMGA2): Biochemical and Biophysical Properties, and Its Association with Adipogenesis.International journal of molecular sciences · 2020Review
- Alterations in TGF-β signaling leads to high HMGA2 levels potentially through modulation of PJA1/SMAD3 in HCC cells.Genes & cancer · 2020Article
- A CLK3-HMGA2 Alternative Splicing Axis Impacts Human Hematopoietic Stem Cell Molecular Identity throughout Development.Cell stem cell · 2018Article
- Binding of high mobility group A proteins to the mammalian genome occurs as a function of AT-content.PLoS genetics · 2017Article
- Cell-based high-throughput compound screening reveals functional interaction between oncofetal HMGA2 and topoisomerase I.Nucleic acids research · 2016Article
- Single nucleotide polymorphisms in microRNA genes are associated with cervical cancer susceptibility in a population from Xinjiang Uygur.Oncotarget · 2016Article
- Hmga2 is necessary for Otx2-dependent exit of embryonic stem cells from the pluripotent ground state.BMC biology · 2016Article
- The chromatin-modifying protein HMGA2 promotes atypical teratoid/rhabdoid cell tumorigenicity.Journal of neuropathology and experimental neurology · 2015Article
- The high mobility group A2 protein epigenetically silences the Cdh1 gene during epithelial-to-mesenchymal transition.Nucleic acids research · 2015Article
- HMGA proteins as modulators of chromatin structure during transcriptional activation.Frontiers in cell and developmental biology · 2014Review
- ATM kinase enables the functional axis of YAP, PML and p53 to ameliorate loss of Werner protein-mediated oncogenic senescence.Cell death and differentiation · 2013Article
- HMGA2 and high-grade serous ovarian carcinoma.Journal of molecular medicine (Berlin, Germany) · 2013Review
- Probing into the biological processes influenced by ESC factor and oncoprotein HMGA2 using iPSCs.Stem cell reviews and reports · 2013Article
- HMGA2/TET1/HOXA9 signaling pathway regulates breast cancer growth and metastasis.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Identification of estrogen receptor-related receptor gamma as a direct transcriptional target of angiogenin.PloS one · 2013Article
- Genome-wide analysis of HMGA2 transcription factor binding sites by ChIP on chip in gastric carcinoma cells.Molecular and cellular biochemistry · 2012Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundHMGA2 is an architectonic transcription factor abundantly expressed during embryonic and fetal development and it is associated with the progression of malignant tumors. The protein harbours three basically charged DNA binding domains and an acidic protein binding C-terminal domain. DNA binding induces changes of DNA conformation and hence results in global overall change of gene expression patterns. Recently, using a PCR-based SELEX (Systematic Evolution of Ligands by Exponential Enrichment) procedure two consensus sequences for HMGA2 binding have been identified. METHODOLOGY/PRINCIPAL
findingsIn this investigation chromatin immunoprecipitation (ChIP) experiments and bioinformatic methods were used to analyze if these binding sequences can be verified on chromatin of living cells as well.
conclusionAfter quantification of HMGA2 protein in different cell lines the colon cancer derived cell line HCT116 was chosen for further ChIP experiments because of its 3.4-fold higher HMGA2 protein level. 49 DNA fragments were obtained by ChIP. These fragments containing HMGA2 binding sites have been analyzed for their AT-content, location in the human genome and similarities to sequences generated by a SELEX study. The sequences show a significantly higher AT-content than the average of the human genome. The artificially generated SELEX sequences and short BLAST alignments (11 and 12 bp) of the ChIP fragments from living cells show similarities in their organization. The flanking regions are AT-rich, whereas a lower conservation is present in the center of the sequences.
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