ArticleG3 (Bethesda, Md.)2018
Comparison of ChIP-Seq Data and a Reference Motif Set for Human KRAB C2H2 Zinc Finger Proteins.
Article in G3 (Bethesda, Md.), 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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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
16 citing papers in PubMed, 25 citations in OpenAlex.
- Article
- Ribo-Tweezer: Rapid removal of ribosomal proteins reveals additional layers of post-transcriptional gene regulation.Molecular cell · 2026Article
- Evolutionary lineage-specific genomic imprinting at the ZNF791 locus.PLoS genetics · 2025Article
- Quantifying the arms race between LINE-1 and KRAB-zinc finger genes through TECookbook.NAR genomics and bioinformatics · 2023Article
- On the dependent recognition of some long zinc finger proteins.Nucleic acids research · 2023Article
- Article
- Transposable elements are associated with the variable response to influenza infection.Cell genomics · 2023Article
- Mutant KRAS regulates transposable element RNA and innate immunity via KRAB zinc-finger genes.Cell reports · 2022Article
- Article
- ZNF146/OZF and ZNF507 target LINE-1 sequences.G3 (Bethesda, Md.) · 2022Article
- Article
- The geometric influence on the Cys2His2 zinc finger domain and functional plasticity.Nucleic acids research · 2020Article
- Low-Affinity Binding Sites and the Transcription Factor Specificity Paradox in Eukaryotes.Annual review of cell and developmental biology · 2019Review
- Similarity regression predicts evolution of transcription factor sequence specificity.Nature genetics · 2019Article
- Human endogenous retrovirus-K (HML-2): a comprehensive review.Critical reviews in microbiology · 2018Review
- CTCF As an Example of DNA-Binding Transcription Factors Containing Clusters of C2H2-Type Zinc Fingers.Acta naturaeArticle
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
KRAB C2H2 zinc finger proteins (KZNFs) are the largest and most diverse family of human transcription factors, likely due to diversifying selection driven by novel endogenous retroelements (EREs), but the vast majority lack binding motifs or functional data. Two recent studies analyzed a majority of the human KZNFs using either ChIP-seq (60 proteins) or ChIP-exo (221 proteins) in the same cell type (HEK293). The ChIP-exo paper did not describe binding motifs, however. Thirty-nine proteins are represented in both studies, enabling the systematic comparison of the data sets presented here. Typically, only a minority of peaks overlap, but the two studies nonetheless display significant similarity in ERE binding for 32/39, and yield highly similar DNA binding motifs for 23 and related motifs for 34 (MoSBAT similarity score >0.5 and >0.2, respectively). Thus, there is overall (albeit imperfect) agreement between the two studies. For the 242 proteins represented in at least one study, we selected a highest-confidence motif for each protein, utilizing several motif-derivation approaches, and evaluating motifs within and across data sets. Peaks for the majority (158) are enriched (96% with AUC >0.6 predicting peak
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