Evidence map›Paper›PMID 23322906›Full record

ArticleScience signaling2013

A genome-wide siRNA screen reveals positive and negative regulators of the NOD2 and NF-κB signaling pathways.

Neil Warner, Aaron Burberry, Luigi Franchi, Yun-Gi Kim, Christine McDonald, Maureen A Sartor, Gabriel Núñez

Abstract read
In one paragraph

Article in Science signaling, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.

0numbers the graph read from it
0cells of the map it votes in
47citing papers in PubMed
4.8field-weighted citation impact, top 4% 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

47 citing papers in PubMed, 70 citations in OpenAlex.

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  6. GWAS reveals genomic associations with swine inflammation and necrosis syndrome.Mammalian genome : official journal of the International Mammalian Genome Society · 2023
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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

7 authors at 3 institutions in 1 country.

Neil WarnerDepartment of Pathology, University of Michigan, Ann Arbor, MI 48109, USA.
Aaron Burberry
Luigi Franchi
Yun-Gi Kim
Christine McDonald
Maureen A Sartor
Gabriel Núñez
University of Michigan–Ann Arbor · USCleveland Clinic Lerner College of Medicine · USMichigan Center for Translational Pathology · US

Funding

MICHIGAN INSTITUTE FOR CLINICAL AND HEALTH RESEARCH (MICHR) (UL1): (BPCA)UL1RR024986 · NCRR · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI SHANLEY, THOMAS P. · 2007 to 2011
$51.2M
Nod2: A Susceptibility Gene for Crohn's DiseaseR01DK061707 · NIDDK · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI NUNEZ, GABRIEL · 2002 to 2017
$4.7M
Cell interactions in the inflammed intestinal mucosaR01DK050984 · NIDDK · CLEVELAND CLINIC LERNER COM-CWRU · PI FIOCCHI, CLAUDIO · 1995 to 2014
$3.1M
Autophagy and Nod2 Function in Crohn's DiseaseR01DK082437 · NIDDK · CLEVELAND CLINIC LERNER COM-CWRU · PI MCDONALD, CHRISTINE L · 2009 to 2013
$1.6M
NCRR NIH HHS UL1 RR024986NCRR NIH HHS UL1RR024986NIDDK NIH HHS 2R01DK61707NIDDK NIH HHS R01 DK050984NIDDK NIH HHS R01DK050984NIDDK NIH HHS R01 DK061707NIDDK NIH HHS R01 DK082437NIDDK NIH HHS R01DK082437
6 · The paper itself

Abstract

The cytoplasmic receptor NOD2 (nucleotide-binding oligomerization domain 2) senses peptidoglycan fragments and triggers host defense pathways, including activation of nuclear factor κB (NF-κB) signaling, which lead to inflammatory immune responses. Dysregulation of NOD2 signaling is associated with inflammatory diseases, such as Crohn's disease and Blau syndrome. We used a genome-wide small interfering RNA screen to identify regulators of the NOD2 signaling pathway. Several genes associated with Crohn's disease risk were identified in the screen. A comparison of candidates from this screen with other "omics" data sets revealed interconnected networks of genes implicated in NF-κB signaling, thus supporting a role for NOD2 and NF-κB pathways in the pathogenesis of Crohn's disease. Many of these regulators were validated in secondary assays, such as measurement of interleukin-8 secretion, which is partially dependent on NF-κB. Knockdown of putative regulators in human embryonic kidney 293 cells followed by stimulation with tumor necrosis factor-α revealed that most of the genes identified were general regulators of NF-κB signaling. Overall, the genes identified here provide a resource to facilitate the elucidation of the molecular mechanisms that regulate NOD2- and NF-κB-mediated inflammation.

Indexed as

Acetylmuramyl-Alanyl-IsoglutamineAnimalsBlotting, WesternBone Marrow CellsCells, CulturedCell SurvivalCrohn DiseaseGene Expression RegulationGene Regulatory NetworksGenome, HumanHEK293 CellsHumansI-kappa B ProteinsMacrophagesMiceMice, KnockoutAcetylmuramyl-Alanyl-IsoglutamineI-kappa B ProteinsMitogen-Activated Protein KinasesNADPH Oxidasesneutrophil cytosolic factor 1NF-kappa BNOD2 protein, humanNod2 Signaling Adaptor ProteinRNA, Small InterferingTumor Necrosis Factor-alpha

Identifiers

PMID23322906
PMCPMC3887559
OpenAlexW2092916183

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.