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NM_004360.5(CDH1):c.2520del (p.Glu841fs) AND Hereditary diffuse gastric adenocarcinoma

Germline classification:
Likely pathogenic (1 submission)
Last evaluated:
Aug 1, 2022
Review status:
1 star out of maximum of 4 stars
criteria provided, single submitter
Somatic classification
of clinical impact:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of oncogenicity:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Record status:
current
Accession:
RCV003229747.2

Allele description [Variation Report for NM_004360.5(CDH1):c.2520del (p.Glu841fs)]

NM_004360.5(CDH1):c.2520del (p.Glu841fs)

Gene:
CDH1:cadherin 1 [Gene - OMIM - HGNC]
Variant type:
Deletion
Cytogenetic location:
16q22.1
Genomic location:
Preferred name:
NM_004360.5(CDH1):c.2520del (p.Glu841fs)
HGVS:
  • NC_000016.10:g.68833370del
  • NG_008021.1:g.101079del
  • NM_001317184.2:c.2337del
  • NM_001317185.2:c.972del
  • NM_001317186.2:c.555del
  • NM_004360.5:c.2520delMANE SELECT
  • NP_001304113.1:p.Glu780fs
  • NP_001304114.1:p.Glu325fs
  • NP_001304115.1:p.Glu186fs
  • NP_004351.1:p.Glu841Lysfs
  • NP_004351.1:p.Glu841fs
  • LRG_301t1:c.2520del
  • LRG_301:g.101079del
  • LRG_301p1:p.Glu841Lysfs
  • NC_000016.9:g.68867273del
  • NM_004360.3:c.2520delC
  • NM_004360.4:c.2520del
Protein change:
E186fs
Molecular consequence:
  • NM_001317184.2:c.2337del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001317185.2:c.972del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001317186.2:c.555del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_004360.5:c.2520del - frameshift variant - [Sequence Ontology: SO:0001589]
Observations:
1

Condition(s)

Name:
Hereditary diffuse gastric adenocarcinoma (HDGC)
Synonyms:
Hereditary diffuse gastric cancer
Identifiers:
MONDO: MONDO:0007648; MedGen: C1708349; Orphanet: 26106; OMIM: 137215

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV003926960European Reference Network on Genetic Tumour Risk Syndromes (ERN-GENTURIS), i3s - Instituto de Investigação e Inovação em Saúde, University of Porto - ERN GENTURIS
criteria provided, single submitter

(Lee et al. (Hum Mutat. 2018))		Likely pathogenic
(Aug 1, 2022) 		germlineclinical testing

PubMed (2)
[See all records that cite these PMIDs]

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyesnot provided1not providednot providednot providedclinical testing

Citations

PubMed

Specifications of the ACMG/AMP variant curation guidelines for the analysis of germline CDH1 sequence variants.

Lee K, Krempely K, Roberts ME, Anderson MJ, Carneiro F, Chao E, Dixon K, Figueiredo J, Ghosh R, Huntsman D, Kaurah P, Kesserwan C, Landrith T, Li S, Mensenkamp AR, Oliveira C, Pardo C, Pesaran T, Richardson M, Slavin TP, Spurdle AB, Trapp M, et al.

Hum Mutat. 2018 Nov;39(11):1553-1568. doi: 10.1002/humu.23650.

PubMed [citation]
PMID:
30311375
PMCID:
PMC6188664

Genotype-first approach to identify associations between CDH1 germline variants and cancer phenotypes: a multicentre study by the European Reference Network on Genetic Tumour Risk Syndromes.

Garcia-Pelaez J, Barbosa-Matos R, Lobo S, Dias A, Garrido L, Castedo S, Sousa S, Pinheiro H, Sousa L, Monteiro R, Maqueda JJ, Fernandes S, Carneiro F, Pinto N, Lemos C, Pinto C, Teixeira MR, Aretz S, Bajalica-Lagercrantz S, Balmaña J, Blatnik A, Benusiglio PR, et al.

Lancet Oncol. 2023 Jan;24(1):91-106. doi: 10.1016/S1470-2045(22)00643-X. Epub 2022 Nov 24. Erratum in: Lancet Oncol. 2023 Jan;24(1):e10. doi: 10.1016/S1470-2045(22)00761-6.

PubMed [citation]
PMID:
36436516
PMCID:
PMC9810541

Details of each submission

From European Reference Network on Genetic Tumour Risk Syndromes (ERN-GENTURIS), i3s - Instituto de Investigação e Inovação em Saúde, University of Porto - ERN GENTURIS, SCV003926960.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (2)

Description

"1 family fulfilling 2020 HDGC criteria-Familial history of gastric cancer"

PubMed [ID: 36436516]

Description

PVS1_Moderate; PS4_Supporting; PM2 (PMID: 30311375)

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot providednot providednot provided1not provided

Last Updated: Jun 23, 2024