Evidence map›Paper›PMID 31729369›Full record

SynthesisNature communications2019

Genetic variants of calcium and vitamin D metabolism in kidney stone disease.

Sarah A Howles, Akira Wiberg, Michelle Goldsworthy, Asha L Bayliss, Anna K Gluck, Michael Ng, Emily Grout, Chizu Tanikawa, Yoichiro Kamatani, Chikashi Terao and 6 more

Erratum issuedOpen access · goldAbstract readMeta-Analysis
In one paragraph

Synthesis in Nature communications, 2019. 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 85 papers, 7 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
85citing papers in PubMed, 7 pooled it
11.2field-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

85 citing papers in PubMed, 7 syntheses or guidelines pooled it, 148 citations in OpenAlex.

  1. Pooled it
  2. Pooled it
  3. Genome-Wide Association Study for eGFR in a Taiwanese Population.Clinical journal of the American Society of Nephrology : CJASN · 2022
    Pooled it
  4. Guideline
  5. Pooled it
  6. Pooled it
  7. Pooled it
  8. Article
  9. Review
  10. Article
  11. The Role of Altered Mineral Metabolism in Kidney Stone Disease: Is Vitamin D the Key?American journal of kidney diseases : the official journal of the National Kidney Foundation · 2026
    Article
  12. Article
  13. The effects of elevated phosphate on the kidney - damaging the gatekeeper.Pflugers Archiv : European journal of physiology · 2026
    Review
  14. Article
  15. Article
  16. Observational
  17. Fifty Shades of Risk: Population Studies and the Genetic Architecture of Kidney Diseases.Journal of the American Society of Nephrology : JASN · 2026
    Review
  18. Article
  19. Review
  20. Article

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

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

16 authors at 4 institutions in 2 countries.

Sarah A Howles *Nuffield Department of Surgical Sciences, University of Oxford, Oxford, UK. sarah.howles@nds.ox.ac.uk.ORCID http://orcid.org/0000-0001-6342-0895
Akira Wiberg *Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0003-4944-123X
Michelle GoldsworthyNuffield Department of Surgical Sciences, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0003-1354-7737
Asha L BaylissAcademic Endocrine Unit, Radcliffe Department of Medicine, University of Oxford, Oxford, UK.
Anna K GluckAcademic Endocrine Unit, Radcliffe Department of Medicine, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0003-3459-2764
Michael NgNuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0003-3463-5568
Emily GroutNuffield Department of Surgical Sciences, University of Oxford, Oxford, UK.
Chizu TanikawaLaboratory of Genome Technology, Human Genome Centre, University of Tokyo, Tokyo, Japan.
Yoichiro KamataniRIKEN Centre for Integrative Medical Sciences, Yokohama, Kanagawa, Japan.ORCID http://orcid.org/0000-0001-8748-5597
Chikashi TeraoRIKEN Centre for Integrative Medical Sciences, Yokohama, Kanagawa, Japan.ORCID http://orcid.org/0000-0002-6452-4095
Atsushi TakahashiRIKEN Centre for Integrative Medical Sciences, Yokohama, Kanagawa, Japan.ORCID http://orcid.org/0000-0001-7099-8767
Michiaki KuboRIKEN Centre for Integrative Medical Sciences, Yokohama, Kanagawa, Japan.
Koichi MatsudaLaboratory of Clinical Genome Sequencing, Department of Computational Biology and Medical Sciences, University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0000-0001-7292-2686
Rajesh V ThakkerAcademic Endocrine Unit, Radcliffe Department of Medicine, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0002-1438-3220
Benjamin W TurneyNuffield Department of Surgical Sciences, University of Oxford, Oxford, UK.
Dominic FurnissNuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, University of Oxford, Oxford, UK.ORCID http://orcid.org/0000-0003-2780-7173
University of Oxford · GBRIKEN Center for Integrative Medical Sciences · JPNuffield Orthopaedic Centre · GBThe University of Tokyo · JP

Funding

Medical Research Council MR/N001524/1Wellcome TrustWellcome Trust (Wellcome) 106995/z/15/zWellcome Trust (Wellcome) 204826/z/16/z
6 · The paper itself

Abstract

Kidney stone disease (nephrolithiasis) is a major clinical and economic health burden with a heritability of ~45-60%. We present genome-wide association studies in British and Japanese populations and a trans-ethnic meta-analysis that include 12,123 cases and 417,378 controls, and identify 20 nephrolithiasis-associated loci, seven of which are previously unreported. A CYP24A1 locus is predicted to affect vitamin D metabolism and five loci, DGKD, DGKH, WDR72, GPIC1, and BCR, are predicted to influence calcium-sensing receptor (CaSR) signaling. In a validation cohort of only nephrolithiasis patients, the CYP24A1-associated locus correlates with serum calcium concentration and a number of nephrolithiasis episodes while the DGKD-associated locus correlates with urinary calcium excretion. In vitro, DGKD knockdown impairs CaSR-signal transduction, an effect rectified with the calcimimetic cinacalcet. Our findings indicate that studies of genotype-guided precision-medicine approaches, including withholding vitamin D supplementation and targeting vitamin D activation or CaSR-signaling pathways in patients with recurrent kidney stones, are warranted.

Indexed as

AdultAgedAsian PeopleCalciumDiacylglycerol KinaseFemaleGenetic VariationGenome-Wide Association StudyGenotypeHumansJapanKidney CalculiMaleMiddle AgedPolymorphism, Single NucleotideProspective StudiesCalciumDGKD protein, humanDiacylglycerol KinaseProteinsReceptors, Calcium-SensingVitamin DWDR72 protein, human

Identifiers

PMID31729369
PMCPMC6858460
OpenAlexW2981815988

What OpenQuestion holds

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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 OpenQuestion graph.