NC_000017.10:g.(?_16842861)_(18218092_?)dup AND Birt-Hogg-Dube syndrome

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Oct 17, 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:: RCV003120781.4

Allele description [Variation Report for NC_000017.10:g.(?_16842861)_(18218092_?)dup]

NC_000017.10:g.(?_16842861)_(18218092_?)dup

Genes:

NT5M:5',3'-nucleotidase, mitochondrial [Gene - OMIM - HGNC]
ATPAF2:ATP synthase mitochondrial F1 complex assembly factor 2 [Gene - OMIM - HGNC]
COPS3:COP9 signalosome subunit 3 [Gene - OMIM - HGNC]
TOP3A:DNA topoisomerase III alpha [Gene - OMIM - HGNC]
FLII:FLII actin remodeling protein [Gene - OMIM - HGNC]
GID4:GID complex subunit 4 homolog [Gene - OMIM - HGNC]
LLGL1:LLGL scribble cell polarity complex component 1 [Gene - OMIM - HGNC]
TNFRSF13B:TNF receptor superfamily member 13B [Gene - OMIM - HGNC]
ALKBH5:alkB homolog 5, RNA demethylase [Gene - OMIM - HGNC]
DRG2:developmentally regulated GTP binding protein 2 [Gene - OMIM - HGNC]
DRC3:dynein regulatory complex subunit 3 [Gene - OMIM - HGNC]
FLCN:folliculin [Gene - OMIM - HGNC]
MED9:mediator complex subunit 9 [Gene - OMIM - HGNC]
MIR33B:microRNA 33b [Gene - OMIM - HGNC]
MIEF2:mitochondrial elongation factor 2 [Gene - OMIM - HGNC]
MYO15A:myosin XVA [Gene - OMIM - HGNC]
MPRIP:myosin phosphatase Rho interacting protein [Gene - OMIM - HGNC]
PEMT:phosphatidylethanolamine N-methyltransferase [Gene - OMIM - HGNC]
PLD6:phospholipase D family member 6 [Gene - OMIM - HGNC]
RASD1:ras related dexamethasone induced 1 [Gene - OMIM - HGNC]
RAI1:retinoic acid induced 1 [Gene - OMIM - HGNC]
SREBF1:sterol regulatory element binding transcription factor 1 [Gene - OMIM - HGNC]
TOM1L2:target of myb1 like 2 membrane trafficking protein [Gene - OMIM - HGNC]

Variant type:

Duplication

Cytogenetic location:

17p11.2

Genomic location:

Chr17: 16842861 - 18218092 (on Assembly GRCh37)

Preferred name:

NC_000017.10:g.(?_16842861)_(18218092_?)dup

HGVS:

NC_000017.10:g.(?_16842861)_(18218092_?)dup

Condition(s)

Name:: Birt-Hogg-Dube syndrome
Synonyms:: BHD syndrome; Birt Hogg Dubé syndrome
Identifiers:: MONDO: MONDO:0800444; MedGen: C0346010; Orphanet: 122; OMIM: PS135150

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV003796394	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Oct 17, 2022)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV003796394

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Oct 17, 2022)

germline

clinical testing

PubMed (1)
[See all records that cite this PMID]

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group, Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]

PMID:: 28492532
PMCID:: PMC5632818

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV003796394.2

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (1)

Description

A copy number gain of the genomic region encompassing the full coding sequence of the FLCN gene has been identified. The boundaries of this event are unknown as they extend beyond the assayed region for this gene and therefore may encompass additional genes. As the precise location of this event is unknown, it may be in tandem or it may be located elsewhere in the genome. This variant has not been reported in the literature in individuals affected with FLCN-related conditions. Experimental studies and prediction algorithms are not available or were not evaluated, and the functional significance of this variant is currently unknown. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Sep 29, 2024

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