ArticleNature communications2019
Ulcerative colitis mucosal transcriptomes reveal mitochondriopathy and personalized mechanisms underlying disease severity and treatment response.
Registry-linked trialOpen access · goldAbstract read
In one paragraph
Article in Nature communications, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It is linked to trial NCT05561738 (Nicotinamide Riboside in Ulcerative Colitis), which is not on this map. Cited by 225 papers, 4 of them syntheses that pooled it.
0numbers the graph read from it
0cells of the map it votes in
225citing papers in PubMed, 4 pooled it
19.9field-weighted citation impact, top 1% of its field
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.
Nicotinamide Riboside in Ulcerative Colitis
Who cites it
225 citing papers in PubMed, 4 syntheses or guidelines pooled it, 371 citations in OpenAlex.
- Mucosal Genes Encoding Clock, Inflammation and Their Mutual Regulators Are Disrupted in Pediatric Patients with Active Ulcerative Colitis.International journal of molecular sciences · 2024Pooled it
- Role of Mitochondria in Inflammatory Bowel Diseases: A Systematic Review.International journal of molecular sciences · 2023Pooled it
- Gut microbiome-associated predictors as biomarkers of response to advanced therapies in inflammatory bowel disease: a systematic review.Gut microbes · 2023Pooled it
- Meta-analysis of gene expression disease signatures in colonic biopsy tissue from patients with ulcerative colitis.Scientific reports · 2021Pooled it
- Metabolism and response to stress gene signatures reveal ulcerative colitis heterogeneity and identify patients with increased response to therapy.Journal of Crohn's & colitis · 2025Trial
- The Safety, Tolerability, Pharmacokinetics, and Clinical Efficacy of the NLRX1 agonist NX-13 in Active Ulcerative Colitis: Results of a Phase 1b Study.Journal of Crohn's & colitis · 2024Trial
- Randomised clinical trial: a phase 1b study of GB004, an oral HIF-1α stabiliser, for treatment of ulcerative colitis.Alimentary pharmacology & therapeutics · 2022Trial
- IL-10-STAT3 axis preserves epithelial mitochondrial homeostasis during bacterial challenge.Gut microbes · 2026Article
- Mapping mitochondria-associated research in inflammatory bowel disease: A bibliometric and network analysis.Medicine · 2026Article
- Tuft cells protect against intestinal inflammation through histone deacetylase 3.Mucosal immunology · 2026Article
- Coal Dust-Mimetic Carbon Nanoparticles Induce Colonic Epithelial Cell Senescence via p16/p21 Dual Pathways and Promote Colonic Inflammatory Response.Journal of gastroenterology and hepatology · 2026Article
- Natural polysaccharides targeting mitochondrial function for colorectal cancer prevention and treatment: mechanisms and nano-delivery strategies.Chinese medicine · 2026Review
- Article
- TREM1 signaling amplifies neutrophil-mediated inflammation in inflammatory bowel disease.Nature communications · 2026Article
- Mitochondrial Dysfunction in Ulcerative Colitis: Pathogenic Mechanisms and Novel Therapeutics.Journal of biochemical and molecular toxicology · 2026Review
- Role of mitochondrial translation in modulating inflammatory disease outcome: Current knowledge and future perspectives.The Journal of biological chemistry · 2026Review
- A comparative study of dextran sodium sulfate-induced and spleen-kidney syndrome-based ulcerative colitis models.Biochemistry and biophysics reports · 2026Article
- OTOP2 proton channel couples luminal pH sensing to intestinal immune homeostasis.The Journal of biological chemistry · 2026Article
- Colonic epithelial regeneration shapes susceptibility tobioRxiv : the preprint server for biology · 2026Article
- B3GNT7 regulates mucin glycosylation and protects against colitis and infection.bioRxiv : the preprint server for biology · 2026Article
165 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
42 authors at 20 institutions in 3 countries.
Yael HabermanCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA.ORCID http://orcid.org/0000-0003-2680-1570
Rebekah KarnsCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA.
Phillip J DexheimerCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA.ORCID http://orcid.org/0000-0003-3965-6894
Melanie SchirmerBroad Institute of MIT and Harvard University, Cambridge, 02142, MA, USA.
Judith SomekhFaculty of Medicine, Technion, Haifa, 3109601, Israel.
Ingrid JurickovaCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA.
Tzipi BraunSheba Medical Center, Tel Hashomer, affiliated with the Tel Aviv University, Tel Aviv, 5265601, Israel.
Elizabeth NovakChildren's Hospital of Pittsburgh, Pittsburgh, 15224, PA, USA.
Laura BaumanCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA.
Margaret H CollinsCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA.ORCID http://orcid.org/0000-0002-0756-5974
Angela MoGeorgia Institute of Technology, Atlanta, 30332, GA, USA.
Michael J RosenCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA.
Erin BonkowskiCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA.ORCID http://orcid.org/0000-0003-4798-1347
Nathan GotmanCollaborative Studies Coordinating Center, University of North Carolina, Chapel Hill, 27516, NC, USA.
Alison MarquisCollaborative Studies Coordinating Center, University of North Carolina, Chapel Hill, 27516, NC, USA.
Mason NistelCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA.
Paul A RufoHarvard-Children's Hospital Boston, Boston, 02115, MA, USA.
Susan S BakerWomen & Children's Hospital of Buffalo WCHOB, Buffalo, 14222, NY, USA.
Cary G SauerEmory University, Atlanta, 30322, GA, USA.
James MarkowitzCohen Children's Medical Center of New York, 11040, New Hyde Park, NY, USA.
Marian D PfefferkornRiley Hospital for Children, Indianapolis, 46202, IN, USA.
Joel R RoshGoryeb Children's Hospital-Atlantic Health, Morristown, 07960, NJ, USA.
Brendan M BoyleNationwide Children's Hospital, Columbus, 43205, OH, USA.
David R MackChildren's Hospital of East Ontario, Ottawa, Ontario, K1P 1J1, Canada.
Robert N BaldassanoThe Children's Hospital of Philadelphia, Philadelphia, 19104, PA, USA.
Sapana ShahChildren's Hospital of Pittsburgh of UPMC, Pittsburgh, 15224, PA, USA.
Neal S LeleikoHasbro Children's Hospital, Providence, 02903, RI, USA.
Melvin B HeymanUniversity of California at San Francisco, San Francisco, 94143, CA, USA.ORCID http://orcid.org/0000-0001-7988-0220
Anne M GrifithsHospital for Sick Children, Toronto, M5G 1X8, Canada.
Ashish S PatelUT Southwestern, Dallas, 75390, TX, USA.
Joshua D NoeMedical College of Wisconsin, Milwaukee, 53226, WI, USA.
Bruce J AronowCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA.
Subra KugathasanEmory University, Atlanta, 30322, GA, USA.ORCID http://orcid.org/0000-0002-8686-4189
Thomas D WaltersHospital for Sick Children, Toronto, M5G 1X8, Canada.
Greg GibsonGeorgia Institute of Technology, Atlanta, 30332, GA, USA.ORCID http://orcid.org/0000-0002-5352-5877
Sonia Davis ThomasCollaborative Studies Coordinating Center, University of North Carolina, Chapel Hill, 27516, NC, USA.
Kevin MollenChildren's Hospital of Pittsburgh, Pittsburgh, 15224, PA, USA.
Shai Shen-OrrFaculty of Medicine, Technion, Haifa, 3109601, Israel.ORCID http://orcid.org/0000-0002-6991-7736
Curtis HuttenhowerBroad Institute of MIT and Harvard University, Cambridge, 02142, MA, USA.ORCID http://orcid.org/0000-0002-1110-0096
Ramnik J XavierBroad Institute of MIT and Harvard University, Cambridge, 02142, MA, USA.ORCID http://orcid.org/0000-0002-5630-5167
Jeffrey S HyamsConnecticut Children's Medical Center, Hartford, 06106, CT, USA.
Lee A DensonCincinnati Children's Hospital Medical Center, and the University of Cincinnati College of Medicine, 45229, Cincinnati, OH, USA. lee.denson@cchmc.org.ORCID http://orcid.org/0000-0001-8045-7198
Cincinnati Children's Hospital Medical Center · USBroad Institute · USChildren's Hospital of Pittsburgh · USEmory University · USGeorgia Institute of Technology · USHospital for Sick Children · CATechnion – Israel Institute of Technology · ILThe Coordinating Center · USBoston Children's Hospital · USChildren's Hospital of Eastern Ontario · CAChildren's Hospital of Philadelphia · USCohen Children's Medical Center · USConnecticut Children's Medical Center · USGoryeb Children's Hospital · USMedical College of Wisconsin · USNationwide Children's Hospital · USProvidence College · USRiley Hospital for Children · USRTI International · USSouthwestern Medical Center · US
Funding
Pilot & Feasibility ProgramP30DK043351 · NIDDK · MASSACHUSETTS GENERAL HOSPITAL · PI Ramnik J Xavier · 1991 to 2026
$35.3MStem Cell/Organoid and Genome Editing CoreP30DK078392 · NIDDK · CINCINNATI CHILDRENS HOSP MED CTR · PI Alexander Miethke · 2007 to 2026
$24.4MPEDIATRIC GASTROENTEROLOGY AND NUTRITION TRAINING GRANTT32DK007727 · NIDDK · CINCINNATI CHILDRENS HOSP MED CTR · PI Phillip P Minar · 1995 to 2026
$11.3MPredicting Response to Standardized Pediatric Colitis Therapy: PROTECT StudyU01DK095745 · NIDDK · CONNECTICUT CHILDREN'S MEDICAL CENTER · PI DENSON, LEE ARMISTEAD, HYAMS, JEFFREY SAMUEL · 2012 to 2016
$10.4MIdentification and characterization of gut microbial bioactive molecules that determine predisposition to autoimmune disease and atopyR01AT009708 · NCCIH · HARVARD MEDICAL SCHOOL · PI CLARDY, JON, XAVIER, RAMNIK J · 2017 to 2021
$3.3MMitonuclear Communication During the Pathogenesis of Inflammatory Bowel DiseaseR01DK120986 · NIDDK · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI Kevin P Mollen · 2020 to 2026
$3.0MType 2 cytokines and innate lymphoid cells in pediatric ulcerative colitisR01DK117119 · NIDDK · STANFORD UNIVERSITY · PI ROSEN, MICHAEL J · 2018 to 2022
$2.5MMitochondrial Failure in the Pathogenesis of Inflammatory Bowel DiseaseK08DK101753 · NIDDK · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI MOLLEN, KEVIN P · 2014 to 2018
$764kPGC1a Downregulation Contributes to the Pathogenesis of Inflammatory Bowel DiseaseR03DK114464 · NIDDK · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI MOLLEN, KEVIN P · 2018 to 2019
$156kNCCIH NIH HHS R01 AT009708NIDDK NIH HHS K08 DK101753NIDDK NIH HHS P30 DK043351NIDDK NIH HHS P30 DK078392NIDDK NIH HHS R01 DK117119NIDDK NIH HHS R01 DK120986NIDDK NIH HHS R03 DK114464NIDDK NIH HHS T32 DK007727NIDDK NIH HHS U01 DK095745
Abstract
Molecular mechanisms driving disease course and response to therapy in ulcerative colitis (UC) are not well understood. Here, we use RNAseq to define pre-treatment rectal gene expression, and fecal microbiota profiles, in 206 pediatric UC patients receiving standardised therapy. We validate our key findings in adult and paediatric UC cohorts of 408 participants. We observe a marked suppression of mitochondrial genes and function across cohorts in active UC, and that increasing disease severity is notable for enrichment of adenoma/adenocarcinoma and innate immune genes. A subset of severity genes improves prediction of corticosteroid-induced remission in the discovery cohort; this gene signature is also associated with response to anti-TNFα and anti-α
Indexed as
AdolescentAdultAnti-Inflammatory Agents, Non-SteroidalChildColitis, UlcerativeFecesFemaleGene Expression ProfilingGenes, MitochondrialGlucocorticoidsHumansIntegrinsIntestinal MucosaMaleMesalamineMicrobiotaAnti-Inflammatory Agents, Non-SteroidalGlucocorticoidsintegrin alpha4beta7IntegrinsMesalamineTNF protein, humanTumor Necrosis Factor-alpha
Identifiers
What OpenQuestion holds
Textmetadata
LicenceCC BY
Read underepoch 390
Registered trials
NCT05561738ClinicalTrials.gov
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.