Evidence map›Paper›PMID 40140581›Full record

ArticleNature2025

irCLIP-RNP and Re-CLIP reveal patterns of dynamic protein assemblies on RNA.

Luca Ducoli, Brian J Zarnegar, Douglas F Porter, Robin M Meyers, Weili Miao, Nicholas M Riley, Suhas Srinivasan, Leandra V Jackrazi, Yen-Yu Yang, Zhouxian Li and 4 more

Erratum issuedAbstract read
In one paragraph

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 18 papers.

0numbers the graph read from it
0cells of the map it votes in
18citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

18 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. Article
  5. Article
  6. Review
  7. Nuclear Proteome Map of Mouse Heart Chambers.Molecular & cellular proteomics : MCP · 2026
    Article
  8. Review
  9. Review
  10. Article
  11. Article
  12. Review
  13. Regulation of RNA-binding proteins by small biomolecules.Nature reviews. Molecular cell biology · 2026
    Review
  14. Review
  15. Article
  16. Review
  17. Article
  18. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

14 authors.

Luca Ducoli *Program in Epithelial Biology, Stanford University, Stanford, CA, USA.ORCID 0000-0003-1731-9029
Brian J Zarnegar *Program in Epithelial Biology, Stanford University, Stanford, CA, USA.
Douglas F PorterProgram in Epithelial Biology, Stanford University, Stanford, CA, USA.
Robin M MeyersProgram in Epithelial Biology, Stanford University, Stanford, CA, USA.
Weili MiaoProgram in Epithelial Biology, Stanford University, Stanford, CA, USA.ORCID 0000-0002-7487-8962
Nicholas M RileyDepartment of Chemistry and Sarafan ChEM-H, Stanford University, Stanford, CA, USA.ORCID 0000-0002-1536-2966
Suhas SrinivasanProgram in Epithelial Biology, Stanford University, Stanford, CA, USA.ORCID 0000-0001-8309-9648
Leandra V JackraziProgram in Epithelial Biology, Stanford University, Stanford, CA, USA.
Yen-Yu YangDepartment of Chemistry, University of California, Riverside, CA, USA.
Zhouxian LiDepartment of Chemistry, University of California, Riverside, CA, USA.
Yinsheng WangDepartment of Chemistry, University of California, Riverside, CA, USA.ORCID 0000-0001-5565-283X
Carolyn R BertozziDepartment of Chemistry and Sarafan ChEM-H, Stanford University, Stanford, CA, USA.ORCID 0000-0003-4482-2754
Ryan A FlynnStem Cell Program and Division of Hematology/Oncology, Boston Children's Hospital, Boston, MA, USA.ORCID 0000-0001-5013-0442
Paul A KhavariProgram in Epithelial Biology, Stanford University, Stanford, CA, USA. khavari@stanford.edu.ORCID 0000-0003-0098-4989

Funding

REGULATORS OF EPIDERMAL GENE EXPRESSIONR01AR045192 · NIAMS · STANFORD UNIVERSITY · PI PAUL KHAVARI · 1999 to 2026
$9.9M
Investigating the Surface GlycoproteomeR01CA200423 · NCI · STANFORD UNIVERSITY · PI Carolyn Bertozzi · 2015 to 2026
$3.8M
Regulatory Variants in HUMAN SKIN DISEASESR01AR076965 · NIAMS · STANFORD UNIVERSITY · PI PAUL KHAVARI · 2020 to 2026
$3.6M
SMALL NON-CODING RNA REGULATION OF RAS-GTPase FUNCTION IN EPIDERMAL HOMEOSTASISK01AR071481 · NIAMS · STANFORD UNIVERSITY · PI ZARNEGAR, BRIAN J · 2017 to 2021
$637k
BLRD VA I01 BX001409NCI NIH HHS R01 CA200423NIAMS NIH HHS K01 AR071481NIAMS NIH HHS R01 AR045192NIAMS NIH HHS R01 AR076965
6 · The paper itself

Abstract

RNA-binding proteins (RBPs) control varied processes, including RNA splicing, stability, transport and translation

Indexed as

RibonucleoproteinsRNARNA-Binding ProteinsCell ProliferationCross-Linking ReagentsHeLa CellsHeterogeneous-Nuclear Ribonucleoprotein Group CHumansImmunoprecipitationMass SpectrometryProtein BindingRNA HelicasesRNA, MessengerRNA SplicingTrans-ActivatorsUltraviolet RaysCross-Linking ReagentsHeterogeneous-Nuclear Ribonucleoprotein Group CHNRNPC protein, humanRibonucleoproteinsRNARNA-Binding ProteinsRNA HelicasesRNA, MessengerTrans-ActivatorsUPF1 protein, human

Identifiers

PMID40140581
PMCPMC13020776

What OpenQuestion holds

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Registered trials

None linked

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.