Cited by 30Ion channel regulation and functionGenetic Associations and EpidemiologyIon Channels and Receptors

A common haplotype containing functional CACNA1H variants is frequently coinherited with increased TPSAB1 copy number

Open access
Lyons, Jonathan J., Stotz, Stephanie C., Chovanec, Jack, Liu, Yihui, Lewis, Katie L., Nelson, Celeste, DiMaggio, Thomas, Jones, Nina +5 more·2018·Genetics in Medicine

Abstract

PurposeCa V 3.2 signaling contributes to nociception, pruritus, gastrointestinal motility, anxiety, and blood pressure homeostasis. This calcium channel, encoded by CACNA1H, overlaps the human tryptase locus, wherein increased TPSAB1 copy number causes hereditary α-tryptasemia. Germ-line CACNA1H variants may contribute to the variable expressivity observed with this genetic trait.MethodsTryptase-encoding sequences at TPSAB1 and TPSB2, and TPSG1 and CACNA1H variants were genotyped in 46 families with hereditary α-tryptasemia syndrome. Electrophysiology was performed on tsA201 HEK cells transfected with wild-type or variant CACNA1H constructs. Effects on clinical phenotypes were interrogated in families with TPSAB1 duplications and in volunteers from the ClinSeq cohort.ResultsThree nonsynonymous variants in CACNA1H (rs3751664, rs58124832, and rs72552056) cosegregated with TPSAB1 duplications in 32/46 families and were confirmed to be in linkage disequilibrium (LD). In vitro, variant Ca V 3.2 had functional effects: reducing current densities, and altering inactivation and deactivation properties. No clinical differences were observed in association with the CACNA1H haplotype.ConclusionA previously unrecognized haplotype containing three functional CACNA1H variants is relatively common among Caucasians, and is frequently coinherited on the same allele as additional TPSAB1 copies. The variant CACNA1H haplotype, which in vitro imparts partial gain of function, does not result in detectable phenotypic differences in the heterozygous state.

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1038/gim.2017.136

Cites

29 of 29 references verified0 citation errors · 0 not checkable

Statistics

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

  • About 3-5% of healthy people carry duplications or multiple copies of the TPSAB1 gene that encodes alpha-tryptase.

    “an estimated 3–5% of healthy individuals exhibit duplications or multiple copies of the TPSAB1 gene encoding for alpha-tryptase”

    From Why the 20% + 2 Tryptase Formula Is a Diagnostic Gold Standard for Severe Systemic Mast Cell Activation and Mast Cell Activation Syndrome (2019) · cites this paper as [30]

    The Results report increased α-tryptase-encoding TPSAB1 copies, and the section on the ClinSeq cohort describes identifying such copies in some healthy adults. But the reported 3.0% frequency refers to a coinherited variant haplotype, not TPSAB1 duplications; the paper says duplications could not be assessed by that method. These passages do not establish the claimed 3–5% prevalence among healthy people (page numbers unavailable). (LLM, conf=0.86)

    Experimental — accuracy not yet measured
  • Serum tryptase baseline concentrations differ according to the underlying disease and the person's genetic makeup.

    “the baseline level of tryptase varies depending on the underlying disease and the genetic background.”

    From Why the 20% + 2 Tryptase Formula Is a Diagnostic Gold Standard for Severe Systemic Mast Cell Activation and Mast Cell Activation Syndrome (2019) · cites this paper as [30]

    The Introduction (page unavailable) links increased TPSAB1 copy number to elevated basal serum tryptase and describes a gene-dose effect in hereditary α-tryptasemia. This supports variation with genetic makeup, but the paper does not establish that baseline levels vary across underlying diseases generally. (LLM, conf=0.83)

    Experimental — accuracy not yet measured
  • Several genetic, inflammatory, and neoplastic conditions are linked to raised basal serum tryptase.

    “Thus, a number of genetic, inflammatory, and neoplastic conditions are associated with an increased basal serum tryptase level.”

    From Why the 20% + 2 Tryptase Formula Is a Diagnostic Gold Standard for Severe Systemic Mast Cell Activation and Mast Cell Activation Syndrome (2019) · cites this paper as [30]

    The Introduction (page unavailable) links increased TPSAB1 copy number, a genetic condition, to elevated basal serum tryptase. The paper does not link inflammatory or neoplastic conditions to elevated basal serum tryptase, so it supports only the genetic part of the claim. (LLM, conf=0.88)

    Experimental — accuracy not yet measured
  • Hereditary alpha-tryptasemia is an autosomal dominant condition defined by germline replications, usually duplications or triplications, of the TPSAB1 gene encoding alpha-tryptase.

    “hereditary alpha-tryptasemia, an autosomal dominant condition defined by germline replications (usually duplications or triplications) of the TPSAB1 gene encoding alpha-tryptase (64-67).”

    From Proposed Diagnostic Algorithm for Patients with Suspected Mast Cell Activation Syndrome (2019) · cites this paper as [66]

    The Introduction (page unavailable) identifies hereditary α-tryptasemia with extra germline copies of α-tryptase-encoding TPSAB1, and the Results (page unavailable) refer to TPSAB1 duplications or triplications. The Results also describe affected families with increased copy number on one allele, but our copy does not explicitly establish autosomal-dominant inheritance or show that duplications and triplications are the usual forms. (LLM, conf=0.81)

    Experimental — accuracy not yet measured
  • These conditions include tryptase gene replications such as hereditary alpha tryptasemia, chronic infections such as helminth infections, renal insufficiency especially in hemodialysis patients, and myeloid neoplasms including myelodysplastic syndromes, systemic mastocytosis, acute myeloid leukemia, chronic myeloid leukemia, and chronic eosinophilic leukemia.

    “These include tryptase gene replications such as hereditary alpha tryptasemia; chronic infections, such as helminth infections; renal insufficiency – especially hemodialysis patients; and myeloid neoplasms, including myelodysplastic syndromes, SM, acute myeloid leukemia, chronic myeloid leukemia (CML), and chronic eosinophilic leukemia [25–33].”

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Cites

Flagged first, then by citations

Cited by

Sorted by citations

Authors
Lyons, J. J., Stotz, S. C., Chovanec, J., Liu, Y., Lewis, K. L., Nelson, C., DiMaggio, T., Jones, N., Stone, K. D., Sung, H., Biesecker, L. G., Colicos, M. A., & Milner, J. D.
Affiliations
  • National Institutes of Health (US)
  • University of Calgary (CA)
  • Leidos Biomedical Research Inc. (United States) (US)
Corresponding author
  • Colicos, Michael A.
  • Milner, Joshua D.
Venue
Genetics in Medicine
Publisher
Elsevier BV
Published
2018-05
Volume
20
Issue
5
Pages
503-512
ISSN
1098-3600 (ISSN-L)
OpenAlex
W2756566263
Cited by
30
References
29
Citations by year
2026: 1 · 2025: 4 · 2024: 2 · 2023: 4 · 2022: 3 · 2021: 5 · 2020: 2 · 2019: 7 · 2018: 2
FWCI
1.23
Type
journal article
Language
en
Open access
Locations
  • Genetics in Medicine (publishedVersion)
  • PubMed (publishedVersion)
Funders
  • U.S. Department of Health and Human Services (HHSN261200800001E)
  • Mastocytosis Society
  • National Institutes of Health (#HHSN261200800001E, HG200359 08, HG200359)
  • Canadian Institutes of Health Research
  • National Human Genome Research Institute (HG200359, HHSN261200800001E, HG200387, ZIAHG200387)
  • National Cancer Institute (HHSN261200800001E))
  • National Institute of Allergy and Infectious Diseases (HHSN261200800001E)
  • NHLBI Division of Intramural Research (HHSN261200800001E)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Ion channel regulation and function
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Associations and Epidemiology
  • Life Sciences › Neuroscience › Sensory Systems › Ion Channels and Receptors
Keywords
CACNA1H, TPSAB1, hereditary alpha-tryptasemia, non-synonymous mutations, linkage disequilibrium, gain-of-function, tryptase, variable expressivity, heterozygous carriers
MeSH terms
Cell Line, Gene Frequency, Haplotypes, Humans, Mutation, Phenotype, Linkage Disequilibrium, Sequence Analysis, DNA, Gene Duplication, Calcium Channels, T-Type, Inheritance Patterns, Tryptases, Genetic Loci, Genetic Association Studies, DNA Copy Number Variations, Genotyping Techniques

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review