Evidence map›Paper›PMID 29459677›Full record

ArticleNature genetics2018

A CRISPR-based screen for Hedgehog signaling provides insights into ciliary function and ciliopathies.

David K Breslow, Sascha Hoogendoorn, Adam R Kopp, David W Morgens, Brandon K Vu, Margaret C Kennedy, Kyuho Han, Amy Li, Gaelen T Hess, Michael C Bassik and 2 more

Abstract read
In one paragraph

Article in Nature genetics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 128 papers.

0numbers the graph read from it
0cells of the map it votes in
128citing papers in PubMed
17.9field-weighted citation impact, top 1% of its field
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

128 citing papers in PubMed, 204 citations in OpenAlex.

  1. FAM92A Underlies Nonsyndromic Postaxial Polydactyly in Humans and an Abnormal Limb and Digit Skeletal Phenotype in Mice.Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research · 2019
    Trial
  2. Review
  3. Article
  4. Article
  5. Article
  6. Review
  7. Article
  8. Article
  9. Review
  10. Article
  11. The Role of the Hedgehog Pathway in Alcohol-Induced Birth Defects.Advances in experimental medicine and biology · 2026
    Review
  12. Review
  13. Article
  14. Review
  15. Review
  16. Article
  17. Article
  18. Article
  19. Article
  20. CRISPR Technology and Its Emerging Applications.Genomics, proteomics & bioinformatics · 2025
    Review

68 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

12 authors at 4 institutions in 1 country.

David K Breslow *Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT, USA. david.breslow@yale.edu.ORCID http://orcid.org/0000-0003-0245-3348
Sascha Hoogendoorn *Department of Chemical and Systems Biology, Stanford University School of Medicine, Stanford, CA, USA.ORCID http://orcid.org/0000-0002-1155-8697
Adam R KoppDepartment of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA, USA.
David W MorgensDepartment of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Brandon K VuDepartment of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA, USA.
Margaret C KennedyDepartment of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT, USA.
Kyuho HanDepartment of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Amy LiDepartment of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Gaelen T HessDepartment of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
Michael C BassikDepartment of Genetics, Stanford University School of Medicine, Stanford, CA, USA.
James K ChenDepartment of Chemical and Systems Biology, Stanford University School of Medicine, Stanford, CA, USA. jameschen@stanford.edu.ORCID http://orcid.org/0000-0002-9220-8436
Maxence V NachuryDepartment of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA, USA. maxence.nachury@ucsf.edu.ORCID http://orcid.org/0000-0003-4918-1562
Stanford University · USYale University · USStanford Medicine · USUniversity of California San Francisco Medical Center · US

Funding

Translational Oncology Research Program (Project-005)P30CA124435 · NCI · STANFORD UNIVERSITY · PI Melinda L. Telli · 2007 to 2026
$71.4M
INSTITUTIONAL TRAINING GRANT IN GENOME SCIENCET32HG000044 · NHGRI · STANFORD UNIVERSITY · PI MICHAEL P. SNYDER · 1995 to 2026
$32.2M
TRAINING & OUTREACH COREP50GM107615 · NIGMS · STANFORD UNIVERSITY · PI COVERT, MARKUS W · 2013 to 2017
$10.9M
Quality control of the primary cilium proteomeR01GM089933 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Maxence V Nachury · 2010 to 2026
$5.8M
COMPUTATIONAL METHODS FOR PROTEOMIC ANALYSISK22HG000044 · NHGRI · UNIVERSITY OF UTAH · PI GIDDINGS, MORGAN CORINNE · 2000 to 2005
$1.3M
Gli1-selective inhibitors of the Hedgehog signaling pathwayR01GM113100 · NIGMS · STANFORD UNIVERSITY · PI CHEN, JAMES K · 2015 to 2017
$1.1M
Ciliary control of Gli protein activity in Hedgehog pathway signalingR00HD082280 · NICHD · YALE UNIVERSITY · PI BRESLOW, DAVID KING · 2017 to 2019
$731k
LTQ Orbitrap XL ETD Mass SpectrometerS10RR027425 · NCRR · STANFORD UNIVERSITY · PI WANDLESS, THOMAS JAMES · 2010 to 2010
$500k
Four Laser, 18 Color Cell Sorter in the SSFFS10RR025518 · NCRR · STANFORD UNIVERSITY · PI HERZENBERG, LEONARD A · 2009 to 2009
$500k
LSR-II FLOW CYTOMETER: MOLECULAR MECHANISMS OF HIVS10RR022448 · NCRR · J. DAVID GLADSTONE INSTITUTES · PI BIGOS, MARTY · 2006 to 2006
$314k
Ciliary control of Gli protein activity in Hedgehog pathway signalingK99HD082280 · NICHD · STANFORD UNIVERSITY · PI BRESLOW, DAVID KING · 2015 to 2016
$261k
NCI NIH HHS P30 CA124435NCRR NIH HHS S10 RR022448NCRR NIH HHS S10 RR025518NCRR NIH HHS S10 RR027425NHGRI NIH HHS K22 HG000044NHGRI NIH HHS T32 HG000044NICHD NIH HHS K99 HD082280NICHD NIH HHS R00 HD082280NIGMS NIH HHS P50 GM107615NIGMS NIH HHS R01 GM089933NIGMS NIH HHS R01 GM113100
6 · The paper itself

Abstract

Primary cilia organize Hedgehog signaling and shape embryonic development, and their dysregulation is the unifying cause of ciliopathies. We conducted a functional genomic screen for Hedgehog signaling by engineering antibiotic-based selection of Hedgehog-responsive cells and applying genome-wide CRISPR-mediated gene disruption. The screen can robustly identify factors required for ciliary signaling with few false positives or false negatives. Characterization of hit genes uncovered novel components of several ciliary structures, including a protein complex that contains δ-tubulin and ε-tubulin and is required for centriole maintenance. The screen also provides an unbiased tool for classifying ciliopathies and showed that many congenital heart disorders are caused by loss of ciliary signaling. Collectively, our study enables a systematic analysis of ciliary function and of ciliopathies, and also defines a versatile platform for dissecting signaling pathways through CRISPR-based screening.

Indexed as

AnimalsCiliaCiliopathiesClustered Regularly Interspaced Short Palindromic RepeatsHedgehog ProteinsHEK293 CellsHigh-Throughput Screening AssaysHumansMiceNIH 3T3 CellsSignal TransductionHedgehog Proteins

Identifiers

PMID29459677
PMCPMC5862771
OpenAlexW2789948309

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

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.