ArticleGenome research2013
Global analysis of Drosophila Cys₂-His₂ zinc finger proteins reveals a multitude of novel recognition motifs and binding determinants.
Article in Genome research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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Who cites it
47 citing papers in PubMed.
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- Crol contributes to PRE-mediated repression and Polycomb group proteins recruitment in Drosophila.Nucleic acids research · 2023Article
- A modERN resource: identification of Drosophila transcription factor candidate target genes using RNAi.Genetics · 2023Article
- Function and Evolution of C1-2i Subclass of C2H2-Type Zinc Finger Transcription Factors in POPLAR.Genes · 2022Article
- Transcriptomic analysis of feminizing somatic stem cells in the Drosophila testis reveals putative downstream effectors of the transcription factor Chinmo.G3 (Bethesda, Md.) · 2021Article
- Cooperative binding between distant transcription factors is a hallmark of active enhancers.Molecular cell · 2021Article
- Regulation of spatiotemporal limits of developmental gene expression via enhancer grammar.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- The geometric influence on the Cys2His2 zinc finger domain and functional plasticity.Nucleic acids research · 2020Article
- Sharing DNA-binding information across structurally similar proteins enables accurate specificity determination.Nucleic acids research · 2020Article
- cis-regulatory variation modulates susceptibility to enteric infection in the Drosophila genetic reference panel.Genome biology · 2020Article
- Extreme divergence between one-to-one orthologs: the structure of N15 Cro bound to operator DNA and its relationship to the λ Cro complex.Nucleic acids research · 2019Article
- Article
- Investigation of the Developmental Requirements of Drosophila HP1 and Insulator Protein Partner, HIPP1.G3 (Bethesda, Md.) · 2019Article
- Glass confers rhabdomeric photoreceptor identity inEvoDevo · 2019Article
- Spatially varying cis-regulatory divergence in Drosophila embryos elucidates cis-regulatory logic.PLoS genetics · 2018Article
- Diversification of transcription factor-DNA interactions and the evolution of gene regulatory networks.Wiley interdisciplinary reviews. Systems biology and medicine · 2018Review
- Cys₂/His₂ Zinc-Finger Proteins in Transcriptional Regulation of Flower Development.International journal of molecular sciences · 2018Review
- Article
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20 authors.
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Abstract
Cys2-His2 zinc finger proteins (ZFPs) are the largest group of transcription factors in higher metazoans. A complete characterization of these ZFPs and their associated target sequences is pivotal to fully annotate transcriptional regulatory networks in metazoan genomes. As a first step in this process, we have characterized the DNA-binding specificities of 129 zinc finger sets from Drosophila using a bacterial one-hybrid system. This data set contains the DNA-binding specificities for at least one encoded ZFP from 70 unique genes and 23 alternate splice isoforms representing the largest set of characterized ZFPs from any organism described to date. These recognition motifs can be used to predict genomic binding sites for these factors within the fruit fly genome. Subsets of fingers from these ZFPs were characterized to define their orientation and register on their recognition sequences, thereby allowing us to define the recognition diversity within this finger set. We find that the characterized fingers can specify 47 of the 64 possible DNA triplets. To confirm the utility of our finger recognition models, we employed subsets of Drosophila fingers in combination with an existing archive of artificial zinc finger modules to create ZFPs with novel DNA-binding specificity. These hybrids of natural and artificial fingers can be used to create functional zinc finger nucleases for editing vertebrate genomes.
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