ArticleNature2025
DNA-guided transcription factor interactions extend human gene regulatory code.
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Article in Nature, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 38 papers.
0numbers the graph read from it
0cells of the map it votes in
38citing papers in PubMed
–field-weighted citation impact
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
38 citing papers in PubMed.
- Nucleosomes and IDRs suppress promiscuous GCN4 binding on minichromosomes.Nature structural & molecular biology · 2026Article
- Nonlinearities and Switch-Like Behavior in Gene Expression: From Genetics to Biochemistry and Back.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2026Review
- Multi-omics dissection of FOXA1 reveals cancer-type-specific transcriptional networks and functional risk variants.iScience · 2026Article
- Current Challenges of Transcription Compartmentalization Research.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Review
- Cis- and trans-regulatory factors contributing to divergent activity of the TDH3 promoter in Saccharomyces yeast.Molecular biology and evolution · 2026Article
- Nonconsensus flanking sequence of hundreds of base pairs around in vivo binding sites: statistical beacons for transcription factor scanning.Nucleic acids research · 2026Article
- FABIAN-variant 2026: improved prediction of the effects of DNA variants on transcription factor binding.Nucleic acids research · 2026Article
- Identifying severe COVID-19 risk variants modulating enhancer reporter activity in lung cells.PLoS genetics · 2026Article
- Article
- Stress Responsive bZIP Transcription Factors ATF4 and BACH1 Cooperate With MAF-Family bZIP Protein NRL to Fine-Tune Rod Photoreceptor Gene Expression.Investigative ophthalmology & visual science · 2026Article
- Intelligent design and application of molecular recognition hydrogels in tissue engineering.Materials today. Bio · 2026Review
- Canine Periodontal Disease in an Urban Clinical Setting and Its Relationship with Host Factors and the Subgingival Bacterial Profile in Ecuador.Animals : an open access journal from MDPI · 2026Article
- Combinatorial pioneer transcription factor binding reinforces bivalent epigenetic states to preserve lineage fidelity.bioRxiv : the preprint server for biology · 2026Article
- CT-TADB predicts TAD boundaries without Hi-C by integrating DNA sequences and epigenomic features.NPJ systems biology and applications · 2026Article
- Article
- Pervasive Transcription in the Human Genome Exceeds Background Noise.Genome biology and evolution · 2026Article
- FOXC2 represses NFAT1-dependent transcription through a DNA-facilitated protein-protein interaction.Nucleic acids research · 2026Article
- Transcription factor collaboration enables precise T cell state engineering.bioRxiv : the preprint server for biology · 2026Article
- A single-nucleotide enhancer mutation overrides chromosomal sex to drive XX male development.Nature communications · 2026Article
- Analysis and engineering of quorum sensing-based communications between bacteria and fungi.mBio · 2026Review
Corrections and comments
- Erratum issued
Authors and funding
15 authors.
Zhiyuan Xie *State Key Laboratory of Cardiovascular Diseases and Medical Innovation Center, Shanghai East Hospital, School of Medicine, Tongji University, Shanghai, China.
Ilya Sokolov *Department of Biochemistry, University of Cambridge, Cambridge, UK.ORCID 0000-0002-1258-3632
Maria OsmalaApplied Tumor Genomics Program, Biomedicum, University of Helsinki, Helsinki, Finland.ORCID 0000-0003-0128-4896
Xue YueState Key Laboratory of Cardiovascular Diseases and Medical Innovation Center, Shanghai East Hospital, School of Medicine, Tongji University, Shanghai, China.
Grace BowerDepartment of Developmental and Cell Biology, University of California, Irvine, Irvine, CA, USA.ORCID 0000-0003-1104-604X
J Patrick PettCellular Genetics Programme, Wellcome Sanger Institute, Hinxton, UK.ORCID 0000-0002-5249-444X
Yinan ChenDepartment of Biochemistry, University of Cambridge, Cambridge, UK.ORCID 0000-0002-5543-3976
Kai WangState Key Laboratory of Cardiovascular Diseases and Medical Innovation Center, Shanghai East Hospital, School of Medicine, Tongji University, Shanghai, China.
Ayse Derya CavgaDepartment of Biochemistry, University of Cambridge, Cambridge, UK.
Alexander PopovEuropean Synchrotron Radiation Facility (ESRF), Grenoble, France.ORCID 0000-0002-3058-8912
Sarah A TeichmannDepartment of Medicine and Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.ORCID 0000-0002-6294-6366
Ekaterina MorgunovaDepartment of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden.ORCID 0000-0002-7754-9021
Evgeny Z KvonDepartment of Developmental and Cell Biology, University of California, Irvine, Irvine, CA, USA.ORCID 0000-0002-1562-0945
Yimeng YinState Key Laboratory of Cardiovascular Diseases and Medical Innovation Center, Shanghai East Hospital, School of Medicine, Tongji University, Shanghai, China. yy461@tongji.edu.cn.ORCID 0000-0002-5454-608X
Jussi TaipaleDepartment of Biochemistry, University of Cambridge, Cambridge, UK. jt37@sanger.ac.uk.ORCID 0000-0003-4204-0951
Funding
Deciphering the mechanism of long-range gene regulation in vivoDP2GM149555 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI KVON, EVGENY · 2022 to 2025
$2.4MCharacterizing a mechanism of enhancer-promoter interaction in vivoF31HD112201 · NICHD · UNIVERSITY OF CALIFORNIA-IRVINE · PI BOWER, GRACE CABOT · 2023 to 2025
$136kNICHD NIH HHS F31 HD112201NIGMS NIH HHS DP2 GM149555UK Research and Innovation Medical Research Council
Abstract
In the same way that the mRNA-binding specificities of transfer RNAs define the genetic code, the DNA-binding specificities of transcription factors (TFs) form the molecular basis of the gene regulatory code
Indexed as
DNAGene Expression RegulationGenetic CodeTranscription FactorsBinding SitesHumansNucleotide MotifsProtein BindingSELEX Aptamer TechniqueDNATranscription Factors
Identifiers
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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.