Evidence map›Paper›PMID 22729463›Full record

ArticleHuman genetics2012

Traditional and targeted exome sequencing reveals common, rare and novel functional deleterious variants in RET-signaling complex in a cohort of living US patients with urinary tract malformations.

Rajshekhar Chatterjee, Enrique Ramos, Mary Hoffman, Jessica VanWinkle, Daniel R Martin, Thomas K Davis, Masato Hoshi, Stanley P Hmiel, Anne Beck, Keith Hruska and 6 more

Open access · greenAbstract read
In one paragraph

Article in Human genetics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.

0numbers the graph read from it
0cells of the map it votes in
43citing papers in PubMed
3.4field-weighted citation impact, top 7% 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

43 citing papers in PubMed, 90 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Review
  5. Harnessing mechanobiology for kidney organoid research.Frontiers in cell and developmental biology · 2023
    Review
  6. Review
  7. Review
  8. Article
  9. RET receptor signaling: Function in development, metabolic disease, and cancer.Proceedings of the Japan Academy. Series B, Physical and biological sciences · 2022
    Review
  10. Decade in review: a new era for RET-rearranged lung cancers.Translational lung cancer research · 2020
    Review
  11. Article
  12. Article
  13. DYRK1A-related intellectual disability: a syndrome associated with congenital anomalies of the kidney and urinary tract.Genetics in medicine : official journal of the American College of Medical Genetics · 2019
    Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. Medullary Sponge Kidney: Current Perspectives.International journal of nephrology and renovascular disease · 2019
    Article
  19. Article
  20. Article
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

16 authors at 1 institution in 1 country.

Rajshekhar ChatterjeeDepartment of Internal Medicine (Renal Division), Washington University School of Medicine, Box 8126, 660 S. Euclid Ave, St. Louis, MO 63110, USA.
Enrique Ramos
Mary Hoffman
Jessica VanWinkle
Daniel R Martin
Thomas K Davis
Masato Hoshi
Stanley P Hmiel
Anne Beck
Keith Hruska
Doug Coplen
Helen Liapis
Robi Mitra
Todd Druley
Paul Austin
Sanjay Jain
Washington University in St. Louis · US

Funding

Washington University Institute of Clinical and Translational Sciences (UL1)UL1RR024992 · NCRR · WASHINGTON UNIVERSITY · PI EVANOFF, BRADLEY A · 2007 to 2011
$45.4M
Washington University Institute of Clinical and Translational SciencesUL1TR000448 · NCATS · WASHINGTON UNIVERSITY · PI EVANOFF, BRADLEY A · 2012 to 2016
$41.4M
Washington University Center for Kidney Disease ResearchP30DK079333 · NIDDK · WASHINGTON UNIVERSITY · PI HAMMERMAN, MARC RANDALL · 2007 to 2011
$5.1M
NOVEL MECHANISMS REGULATING LOWER URINARY TRACT DEVELOPMENT AND INNERVATIONR01DK082531 · NIDDK · WASHINGTON UNIVERSITY · PI JAIN, SANJAY · 2009 to 2018
$3.3M
DECIPHERING ROLES OF GDNF-GFRA1 RET SIGNALING IN NORMAL AND INJURED KIDNEYR01DK081644 · NIDDK · WASHINGTON UNIVERSITY · PI JAIN, SANJAY · 2009 to 2012
$1.1M
A Novel sequencing-based approach to discovering rare genetic factors for ALL.K08CA140720 · NCI · WASHINGTON UNIVERSITY · PI DRULEY, TODD E · 2010 to 2014
$744k
AGE AND TISSUE-SPECIFIC CHANGES IN GENOME-WIDE MAMMALIAN METHYLATIONF31HG006649 · NHGRI · WASHINGTON UNIVERSITY · PI RAMOS, ENRIQUE IVAN · 2012 to 2015
$102k
NCATS NIH HHS UL1 TR000448NCI NIH HHS K08 CA140720NCRR NIH HHS UL1 RR024992NHGRI NIH HHS F31 HG006649NIDDK NIH HHS DK081644NIDDK NIH HHS DK082531NIDDK NIH HHS P30 DK079333NIDDK NIH HHS P30-DK079333NIDDK NIH HHS R01 DK081644NIDDK NIH HHS R01 DK082531
6 · The paper itself

Abstract

Signaling by the glial cell line-derived neurotrophic factor (GDNF)-RET receptor tyrosine kinase and SPRY1, a RET repressor, is essential for early urinary tract development. Individual or a combination of GDNF, RET and SPRY1 mutant alleles in mice cause renal malformations reminiscent of congenital anomalies of the kidney or urinary tract (CAKUT) in humans and distinct from renal agenesis phenotype in complete GDNF or RET-null mice. We sequenced GDNF, SPRY1 and RET in 122 unrelated living CAKUT patients to discover deleterious mutations that cause CAKUT. Novel or rare deleterious mutations in GDNF or RET were found in six unrelated patients. A family with duplicated collecting system had a novel mutation, RET-R831Q, which showed markedly decreased GDNF-dependent MAPK activity. Two patients with RET-G691S polymorphism harbored additional rare non-synonymous variants GDNF-R93W and RET-R982C. The patient with double RET-G691S/R982C genotype had multiple defects including renal dysplasia, megaureters and cryptorchidism. Presence of both mutations was necessary to affect RET activity. Targeted whole-exome and next-generation sequencing revealed a novel deleterious mutation G443D in GFRα1, the co-receptor for RET, in this patient. Pedigree analysis indicated that the GFRα1 mutation was inherited from the unaffected mother and the RET mutations from the unaffected father. Our studies indicate that 5% of living CAKUT patients harbor deleterious rare variants or novel mutations in GDNF-GFRα1-RET pathway. We provide evidence for the coexistence of deleterious rare and common variants in genes in the same pathway as a cause of CAKUT and discovered novel phenotypes associated with the RET pathway.

Indexed as

AdolescentAdultAmino Acid SequenceBlotting, WesternCells, CulturedCohort StudiesExomeFemaleGlial Cell Line-Derived Neurotrophic Factor ReceptorsHumansMaleMembrane ProteinsMiddle AgedMolecular Sequence DataMutagenesis, Site-DirectedMutationGFRA1 protein, humanGlial Cell Line-Derived Neurotrophic Factor ReceptorsMembrane ProteinsPhosphoproteinsProto-Oncogene Proteins c-retRET protein, humanSPRY1 protein, human

Identifiers

PMID22729463
PMCPMC3551468
OpenAlexW2027740467

What OpenQuestion holds

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Read underepoch 390

Registered trials

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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.