The GPC3 gene is associated with X-linked recessive Simpson-Golabi-Behmel syndrome (MedGen UID: 162917).
Order this gene as a single gene test.
Invitae tests that include this gene:
An estimated 40%-70% of Simpson-Golabi-Behmel syndrome is caused by pathogenic variants identified in the GPC3 gene.
The GPC3 gene encodes a cell-surface protein that can both positively (stabilize interactions) and negatively (prevent interactions) to regulate cellular growth signaling pathways, such as Wnt and Hedgehog. These pathways are important in development.
MedGen UID: 162917
The GPC3 gene is a well established cause of Simpson-Golabi-Behmel syndrome (SGBS). SGBS is a congenital genetic overgrowth syndrome with highly variable clinical features including characteristic facies, cognitive impairment, pre- and postnatal overgrowth, macrosomia, and skeletal, genitourinary, cardiac and renal anomalies. There is additionally an increased risk for certain cancers (PMID: 20301398, 25238977, 23606591).
Head, ears, eyes, nose, throat
Cystic hygroma, macrosomia, esotropia, cataracts, optic disc coloboma, ocular nerve palsies, strabismus, hypertelorism, preauricular ear tags, fistulas, ear lobule creases, and helical dimples are features of SGBS. Clefting and conductive hearing loss has been described (PMID: 20301398, 25238977, 23606591).
Skeletal anomalies include advanced bone age, vertebral fusion, scoliosis, pectus excavatum, rib anomalies, winged scapula, congenital hip dislocation, small sciatic notches, and flared iliac wings. Digital anomalies include large hands, broad thumbs, brachydactyly, syndactyly, clinodactyly, and postaxial polydactyly. Striking index finger hypoplasia with congenital abnormalities of the proximal phalanx has been reported. Nail dysplasia, hypoplasia, and hypoconvexity are common (PMID: 20301398, 25238977, 23606591).
GI anomalies include pyloric ring, Meckel’s diverticulum, intestinal malrotation, hepatosplenomegaly, pancreatic hyperplasia of islets of Langerhans, choledochal cysts of the pancreatic duct, and polysplenia (PMID: 20301398, 25238977, 23606591).
Nephromegaly, multicystic kidneys, hydronephrosis, hydroureter, duplicated ureters, hypospadias, bifid scrotum, cryptorchidism, hydrocele, and inguinal and diaphragmatic hernia are described (PMID: 20301398, 25238977, 23606591).
Congenital heart defects are variable and include pulmonic stenosis, aortic coarctation, transposition of the great vessels, patent ductus arteriosus, and patent foramen ovale. Cardiac conduction defects and arrhythmias are also reported in affected individuals (PMID: 20301398, 25238977, 23606591).
Central nervous system
The incidence of developmental delay is unclear. Most affected individuals have low-to-normal IQ scores, although intelligence can range from normal to moderate cognitive impairment with language delay being very common. There is a possible association between SGBS and behavioral problems including attention deficit hyperactivity disorder (ADHD) (PMID: 26692054, 10424824, 18619000). Hypotonia, absent primitive reflexes, a neonatal high-pitched cry, seizures, and EEG abnormalities have been reported. Neuroradiologic findings are variable and include agenesis of the corpus callosum, Chiari malformation, hydrocephalus, and aplasia of the cerebellar vermis (PMID: 20301398, 25238977, 23606591).
While specific risk figures are not yet well established, SGBS is associated with the development of embryonal tumors such as Wilms, gonadoblastoma, hepatoblastoma, and hepatocellular carcinoma (PMID: 11477610, 20301398, 23606591).
There is also preliminary evidence suggesting an association between GPC3 pathogenic variants and neuroblastoma, and GPC3 is therefore available as a “preliminary evidence” gene on Invitae’s Nervous System/Brain Cancer panel (PMID: 22893378, 16010678, 1605222). Preliminary evidence genes are selected from an extensive review of the literature and expert recommendations, but the association between the gene and the specific condition has not been completely established. This uncertainty may be resolved as new information becomes available and therefore clinicians may continue to order these preliminary evidence genes.
The GPC3 gene encodes a cell-surface protein that can both positively and negatively regulate cellular growth signaling pathways, such as Wnt and Hedgehog. These pathways are important in development (PMID: 18505598). If there is a pathogenic variant in this gene that prevents it from normally functioning, there may be an increased risk to develop certain types of cancers.
The GPC3 gene, which causes SGBS, is located on the X chromosome. Females have two copies of the X chromosome, while males have one X and one Y. Because SGBS is an X-linked condition, all males are expected to have features of the condition; however, there is variability in the clinical severity. A female who inherits a pathogenic variant in GPC3 may or may not have symptoms of SGBS because females have a second X chromosome that may compensate. Due to skewed inactivation of the X chromosome, some females may manifest symptoms (PMID: 25238977). Regardless, women who carry this variant can pass it on to their children. Daughters of a carrier female have a 50% chance of inheriting the variant (making them a carrier like their mother). Sons of carrier females have a 50% chance of inheriting the pathogenic variant and having SGBS. Affected males cannot pass the condition on to their sons (because they must pass on the Y chromosome to have a male child), but all daughters of an affected male will be carriers.
Medical management guidelines and surveillance recommendations
Management of SGBS in the neonatal period includes evaluations for hypoglycemia, airway and feeding problems, abdominal ultrasounds of liver, adrenals, and kidneys, and appropriate surgical management as needed.
An individual’s cancer risk and medical management are not determined by genetic test results alone. Overall cancer risk assessment incorporates additional factors including personal medical history, family history as well as available genetic information that may result in a personalized plan for cancer prevention and surveillance.
It is advantageous to know if a GPC3 pathogenic variant is present as medical management recommendations can be implemented. At-risk relatives can be identified, allowing pursuit of a diagnostic evaluation. In addition, the available information regarding hereditary cancer susceptibility genes is constantly evolving and more clinically relevant GPC3 data is likely to become available in the near future. Awareness of this cancer predisposition allows patients and their providers to be vigilant in maintaining close and regular contact with their local genetics clinic in anticipation of new information, inform at-risk family members, and diligently follow condition-specific screening protocols.
Review date: August 2016
Invitae is a College of American Pathologists (CAP)-accredited and Clinical Laboratory Improvement Amendments (CLIA)-certified clinical diagnostic laboratory performing full-gene sequencing and deletion/duplication analysis using next-generation sequencing technology (NGS).
Our sequence analysis covers clinically important regions of each gene, including coding exons, +/- 10 base pairs of adjacent intronic sequence, and select noncoding variants. Our assay provides a Q30 quality-adjusted mean coverage depth of 350x (50x minimum, or supplemented with additional analysis). Variants classified as pathogenic or likely pathogenic are confirmed with orthogonal methods, except individual variants that have high quality scores and previously validated in at least ten unrelated samples.
Our analysis detects most intragenic deletions and duplications at single exon resolution. However, in rare situations, single-exon copy number events may not be analyzed due to inherent sequence properties or isolated reduction in data quality. If you are requesting the detection of a specific single-exon copy number variation, please contact Client Services before placing your order.
|Gene||Transcript reference||Sequencing analysis||Deletion/Duplication analysis|