Evidence map›Paper›PMID 39478120›Full record

ArticleNature cancer2024

Multiomic analysis of familial adenomatous polyposis reveals molecular pathways associated with early tumorigenesis.

Edward D Esplin, Casey Hanson, Si Wu, Aaron M Horning, Nasim Barapour, Stephanie A Nevins, Lihua Jiang, Kévin Contrepois, Hayan Lee, Tuhin K Guha and 25 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature cancer, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing 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

15 citing papers in PubMed.

  1. Translational cancer research · 2026
    Article
  2. Review
  3. Article
  4. Precancerous microenvironment: A signalling perspective.Current opinion in cell biology · 2026
    Review
  5. Review
  6. Review
  7. Signaling pathways and targeted interventions for precancers.Signal transduction and targeted therapy · 2026
    Review
  8. Review
  9. Article
  10. Review
  11. Article
  12. Review
  13. Review
  14. Review
  15. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

35 authors.

Edward D Esplin *Department of Genetics, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0001-9205-3756
Casey Hanson *Department of Genetics, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0001-7818-6552
Si Wu *Department of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Aaron M Horning *Department of Genetics, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0003-3247-0798
Nasim Barapour *Department of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Stephanie A NevinsDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Lihua JiangDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Kévin ContrepoisDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Hayan LeeDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0003-0571-3192
Tuhin K GuhaDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Zheng HuDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Rozelle LaquindanumDepartment of Medicine, Stanford School of Medicine, Stanford, CA, USA.
Meredith A MillsDepartment of Medicine, Stanford School of Medicine, Stanford, CA, USA.
Hassan ChaibDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Roxanne ChiuDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Ruiqi JianDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Joanne ChanDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Mathew EllenbergerDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Winston R BeckerDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Bahareh BahmaniDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Aziz KhanStanford Cancer Institute, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0002-6459-6224
Basil MichaelDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Annika K WeimerNovo Nordisk Foundation Center for Genomic Mechanisms of Disease, Broad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID 0000-0001-9944-8769
D Glen EsplinAnimal Reference Pathology, Salt Lake City, UT, USA.
Jeanne ShenDepartment of Pathology, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0002-1519-0308
Samuel LancasterDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Emma MonteDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
Thomas V KarathanosDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0003-1754-3872
Uri LadabaumDepartment of Medicine, Stanford School of Medicine, Stanford, CA, USA.
Teri A LongacreDepartment of Pathology, Stanford School of Medicine, Stanford, CA, USA.
Anshul KundajeDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0003-3084-2287
Christina CurtisDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.
William J GreenleafDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0003-1409-3095
James M FordDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA. jmf@stanford.edu.ORCID 0000-0002-2513-7025
Michael P SnyderDepartment of Genetics, Stanford School of Medicine, Stanford, CA, USA. mpsnyder@stanford.edu.ORCID 0000-0003-0784-7987

Funding

PreCancer Atlas of Familial Adenomatous PolyposisU2CCA233311 · NCI · STANFORD UNIVERSITY · PI SNYDER, MICHAEL P. · 2018 to 2023
$11.6M
Cancer Systems Biology Scholars ProgramR25CA180993 · NCI · STANFORD UNIVERSITY · PI PLEVRITIS, SYLVIA KATINA · 2014 to 2018
$2.2M
Ultra high throughput sequencer for sustaining and enhancing multi-scale genomic studiesS10OD025212 · OD · STANFORD UNIVERSITY · PI SNYDER, MICHAEL P. · 2018 to 2018
$600k
NCI NIH HHS R25 CA180993NCI NIH HHS U2C CA233311NIH HHS S10 OD025212U.S. Department of Health & Human Services | National Institutes of Health (NIH) S10OD025212U.S. Department of Health & Human Services | NIH | National Cancer Institute (NCI) U2CCA233311
6 · The paper itself

Abstract

Familial adenomatous polyposis (FAP) is a genetic disease causing hundreds of premalignant polyps in affected persons and is an ideal model to study transitions of early precancer states to colorectal cancer (CRC). We performed deep multiomic profiling of 93 samples, including normal mucosa, benign polyps and dysplastic polyps, from six persons with FAP. Transcriptomic, proteomic, metabolomic and lipidomic analyses revealed a dynamic choreography of thousands of molecular and cellular events that occur during precancerous transitions toward cancer formation. These involve processes such as cell proliferation, immune response, metabolic alterations (including amino acids and lipids), hormones and extracellular matrix proteins. Interestingly, activation of the arachidonic acid pathway was found to occur early in hyperplasia; this pathway is targeted by aspirin and other nonsteroidal anti-inflammatory drugs, a preventative treatment under investigation in persons with FAP. Overall, our results reveal key genomic, cellular and molecular events during the earliest steps in CRC formation and potential mechanisms of pharmaceutical prophylaxis.

Indexed as

Adenomatous Polyposis ColiCarcinogenesisCell Transformation, NeoplasticColorectal NeoplasmsFemaleGene Expression ProfilingGene Expression Regulation, NeoplasticHumansMalePrecancerous ConditionsProteomicsTranscriptome

Identifiers

PMID39478120
PMCPMC11584401

What Socratic holds

Textmetadata
LicenceCC BY
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 Socratic graph.