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encyclopedia of Rare Disease Annotation for Precision Medicine



   fraser syndrome
  

Disease ID 348
Disease fraser syndrome
Definition
Rare autosomal recessive congenital malformation syndrome characterized by cryptophthalmos, SYNDACTYLY and UROGENITAL ABNORMALITIES. Other anomalies of bone, ear, lung, and nose are common. Mutations on FRAS1 and FREM2 are associated with the syndrome.
Synonym
cryptophthalmos syndactyly syndrome
cryptophthalmos syndrome
cryptophthalmos syndrome (disorder)
cryptophthalmos with other malformations
cryptophthalmos, defect of auricle and genital anomaly
cryptophthalmos-syndactyly syndrome
cryptophthalmos-syndactyly syndromes
fraser syndrome (disorder)
fraser syndrome [disease/finding]
fraser's syndrome
syndrome, fraser
Orphanet
OMIM
UMLS
C0265233
MeSH
SNOMED-CT
Comorbidity
UMLS | Disease | Sentences' Count(Total Sentences:1)
C0158699  |  renal agenesis  |  1
Curated Gene
Entrez_id | Symbol | Resource(Total Genes:3)
341640  |  FREM2  |  CLINVAR;CTD_human;ORPHANET;UNIPROT
23426  |  GRIP1  |  CLINVAR;ORPHANET
80144  |  FRAS1  |  CLINVAR;CTD_human;ORPHANET;UNIPROT
Inferring Gene(Waiting for update.)
Text Mined Gene
Entrez_id | Symbol | Score | Resource(Total Genes:14)
257  |  ALX3  |  2.15  |  DISEASES
2138  |  EYA1  |  3.444  |  DISEASES
158326  |  FREM1  |  7.219  |  DISEASES
166752  |  FREM3  |  6.454  |  DISEASES
2668  |  GDNF  |  1.809  |  DISEASES
23426  |  GRIP1  |  4.432  |  DISEASES
256158  |  HMCN2  |  5.497  |  DISEASES
8516  |  ITGA8  |  3.233  |  DISEASES
3980  |  LIG3  |  1.656  |  DISEASES
4868  |  NPHS1  |  1.017  |  DISEASES
7827  |  NPHS2  |  1.336  |  DISEASES
255743  |  NPNT  |  3.407  |  DISEASES
56034  |  PDGFC  |  2.277  |  DISEASES
64220  |  STRA6  |  2.657  |  DISEASES
Locus
Symbol | Locus(Total Locus:3)
GRIP1  |  12q14.3
FREM2  |  13q13.3
FRAS1  |  4q21.21
Disease ID 348
Disease fraser syndrome
Integrated Phenotype
HPO | Name(Total Integrated Phenotypes:58)
HP:0000028  |  Cryptorchidism
HP:0004112  |  Midline nasal groove
HP:0002089  |  Pulmonary hypoplasia
HP:0000568  |  Microphthalmia
HP:0002023  |  Anal atresia
HP:0000068  |  Urethral atresia
HP:0002777  |  Tracheal stenosis
HP:0010720  |  Abnormal hair pattern
HP:0001126  |  Cryptophthalmos
HP:0001770  |  Toe syndactyly
HP:0000218  |  High palate
HP:0000678  |  Dental crowding
HP:0005280  |  Depressed nasal bridge
HP:0008736  |  Hypoplasia of penis
HP:0000047  |  Hypospadias
HP:0006101  |  Finger syndactyly
HP:0000618  |  Blindness
HP:0002101  |  Abnormal lung lobation
HP:0001537  |  Umbilical hernia
HP:0002564  |  Malformation of the heart and great vessels
HP:0007993  |  Malformed lacrimal ducts
HP:0001362  |  Skull defect
HP:0000316  |  Hypertelorism
HP:0000204  |  Cleft upper lip
HP:0007925  |  Lacrimal duct aplasia
HP:0001522  |  Death in infancy
HP:0003183  |  Wide pubic symphysis
HP:0010297  |  Bifid tongue
HP:0000062  |  Ambiguous genitalia
HP:0001602  |  Laryngeal stenosis
HP:0000413  |  Atresia of the external auditory canal
HP:0002025  |  Anal stenosis
HP:0000148  |  Vaginal atresia
HP:0000003  |  Multicystic kidney dysplasia
HP:0003191  |  Cleft ala nasi
HP:0000252  |  Microcephaly
HP:0000528  |  Anophthalmia
HP:0001539  |  Omphalocele
HP:0000046  |  Scrotal hypoplasia
HP:0000813  |  Bicornuate uterus
HP:0002475  |  Myelomeningocele
HP:0000089  |  Renal hypoplasia
HP:0000370  |  Abnormality of the middle ear
HP:0000431  |  Wide nasal bridge
HP:0000405  |  Conductive hearing impairment
HP:0001249  |  Intellectual disability
HP:0000202  |  Oral cleft
HP:0006610  |  Wide intermamillary distance
HP:0010458  |  Female pseudohermaphroditism
HP:0000142  |  Abnormality of the vagina
HP:0003422  |  Vertebral segmentation defect
HP:0000368  |  Low-set, posteriorly rotated ears
HP:0001607  |  Subglottic stenosis
HP:0002084  |  Encephalocele
HP:0008572  |  External ear malformation
HP:0000689  |  Dental malocclusion
HP:0004397  |  Ectopic anus
HP:0000430  |  Underdeveloped nasal alae
Text Mined Phenotype
HPO | Name | Sentences' Count(Total Phenotypes:7)
HP:0001126  |  Cryptophthalmos  |  2
HP:0010958  |  Bilateral renal agenesis  |  1
HP:0005950  |  Laryngeal webs  |  1
HP:0000589  |  Ocular coloboma  |  1
HP:0000104  |  Renal agenesis  |  1
HP:0000528  |  Absence of eyeballs  |  1
HP:0001159  |  Webbed fingers or toes  |  1
Disease ID 348
Disease fraser syndrome
Manually Symptom(Waiting for update.)
Text Mined Symptom(Waiting for update.)
Manually Genotype(Total Text Mining Genotypes:0)
(Waiting for update.)
Text Mining Genotype(Total Genotypes:0)
(Waiting for update.)
All Snps(Total Genotypes:15)
snpId pubmedId geneId geneSymbol diseaseId sourceId sentence score Year geneSymbol_dbSNP CHROMOSOME POS REF ALT
rs120074156NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478481962CT
rs120074157NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478496859CT
rs120074158NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478387525CT
rs120074159NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478407804CG
rs121434355NA341640FREM2umls:C0265233CLINVARNA0.563528744NAFREM21338784709GA
rs121434356NA341640FREM2umls:C0265233CLINVARNA0.563528744NAFREM21338784703GA
rs377046630NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478252452CT
rs397514485NA23426GRIP1umls:C0265233CLINVARNA0.320814326NAGRIP11266392676CG
rs397514486NA23426GRIP1umls:C0265233CLINVARNA0.320814326NAGRIP11266455423TCTT-
rs730882178NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478438954TTCTCT-
rs730882179NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478464518-GG
rs730882180NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478472331GT
rs794727195NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478317479G-
rs794727365NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478364055GA
rs797044696NA80144FRAS1umls:C0265233CLINVARNA0.444071628NAFRAS1478379803-T
GWASdb Annotation(Total Genotypes:0)
(Waiting for update.)
GWASdb Snp Trait(Total Genotypes:0)
(Waiting for update.)
Mapped by lexical matching(Total Items:29)
HP ID HP Name MP ID MP Name Annotation
HP:0000430Underdeveloped nasal alaeMP:0004471short nasal bonereduced length of either of two rectangular bone plates forming the bridge of the nose
HP:0000431Wide nasal bridgeMP:0006292abnormal nasal placode morphologyany structural anomaly in the paired ectodermal placodes that come to lie in the bottom of the olfactory pits as the pits are deepened by the growth of the surrounding medial and lateral nasal processes; the nasal placode gives rise to the olfactory epith
HP:0006101Finger syndactylyMP:0000564syndactylyany degree of webbing or fusion of the digits, may involve only soft tissues or also can include bone
HP:0002101Abnormal lung lobationMP:0010975abnormal lung lobe morphologyany structural anomaly of any of the anatomically and functionally distinct subunits (lobes) comprising the left or right lung, where each lobe receives air from its own secondary bronchus and is separated from it neighbors by one or more fissures (walls
HP:0005280Depressed nasal bridgeMP:0013582abnormal lateral nasal gland morphologyany structural anomaly of the lateral nasal glands (the largest nasal secretory glands in rodents) which surround the maxillary sinus located in the lateral wall adjacent to each nasal passage and are characterized by cytologic features similar to those d
HP:0001770Toe syndactylyMP:0000564syndactylyany degree of webbing or fusion of the digits, may involve only soft tissues or also can include bone
HP:0003422Vertebral segmentation defectMP:0010412atrioventricular septal defectdefects in the thin membranous structure between the right atrium and left ventricle that arise from faulty development of the embryonic endocardial cushions; the spectrum ranges from a primum atrial septal defect and cleft mitral valve, known as a partia
HP:0001362Skull defectMP:0010418perimembraneous ventricular septal defectabnormal communications between the two lower chambers of the heart, occurring in the membranous septum with defects in the adjacent muscular portion of the septum; it is generally located in the LV outflow tract just below the aortic valve, associated wi
HP:0000689Dental malocclusionMP:0000120malocclusionperturbations in the normal patterned arrangement of the teeth or alignment of the jaw, resulting in the incorrect position of biting or chewing surfaces of the upper and lower teeth
HP:0000062Ambiguous genitaliaMP:0009202small external male genitaliareduced size of the external masculine genital organs
HP:0000148Vaginal atresiaMP:0009510cecal atresiacongenital blockage or absence of the lumen of the cecum
HP:0000202Oral cleftMP:0009890cleft secondary palatecongenital fissure of the tissues normally uniting to form the secondary palate
HP:0000218High palateMP:0011615submucous cleft palatea cleft of the palate with cardinal signs including a bifid uvula, a V-shaped notch at the back of the hard palate, and/or a translucent line in the midline of the soft palate and a short palate
HP:0000405Conductive hearing impairmentMP:0006325impaired hearingreduced ability to perceive auditory stimuli
HP:0001537Umbilical herniaMP:0010146umbilical herniaan outward bulging (protrusion) of the abdominal lining or part of the abdominal organ(s) through the area around the umbilicus; occurs when the muscle through which blood vessels pass to feed the developing fetus fails to completely close
HP:0000142Abnormality of the vaginaMP:0004502decreased incidence of tumors by chemical inductionlower than normal frequency of tumor incidence induced by one or more chemical carcinogens or mutagens
HP:0000046Scrotal hypoplasiaMP:0006226iris hypoplasiaunderdevelopment or reduced size of the iris, usually due to a reduced number of cells
HP:0000370Abnormality of the middle earMP:0010465aberrant origin of the right subclavian arterythe right subclavian artery arises from an atypical location on the aortic arch or the proximal descending aorta
HP:0000003Multicystic kidney dysplasiaMP:0011376abnormal kidney corticomedullary boundary morphologyany structural anomaly of the region demarcating the renal medulla from the surrounding cortex; end-stage renal failure may be associated with loss of the normal corticomedullary boundary
HP:0002023Anal atresiaMP:0006130pulmonary valve atresiacongenital closure of the pulmonary valve
HP:0008572External ear malformationMP:0006286inner ear hypoplasiaunderdevelopment or reduced size of inner ear structures, usually due to decreased cell number
HP:0010297Bifid tongueMP:0009907decreased tongue sizereduced size of the mobile mass of muscular tissue and surrounding epithelial tissue occupying the cavity of the mouth and forming part of the floor
HP:0001522Death in infancyMP:0000790abnormal stratification in cerebral cortexabnormal formation or pattern of the layers of the cerebral cortex
HP:0000089Renal hypoplasiaMP:0012085midface hypoplasiaunderdevelopment of the midfacial region comprising the nasal, maxillary, and zygomatic bones, leading to a concave-looking face
HP:0000813Bicornuate uterusMP:0003558absent uterusabsence of the female muscular organ of gestation
HP:0000413Atresia of the external auditory canalMP:0013283failure of ventral body wall closurefailure of the lateral body wall folds (a combination of mesoderm and ectoderm arising on each side of the embryo) to progress ventrally and meet in the midline and/or fuse to close the ventral body wall; normally, this closure is aided by growth of the h
HP:0000204Cleft upper lipMP:0005170cleft upper lipdefect in the upper lip where the maxillary prominence fails to merge with the merged medial nasal prominences
HP:0002089Pulmonary hypoplasiaMP:0013193sebaceous gland hypoplasiaunderdevelopment and decreased size of the sebum secreting glands of the hair shaft, usually due to a decrease in the number of cells
HP:0008736Hypoplasia of penisMP:0013283failure of ventral body wall closurefailure of the lateral body wall folds (a combination of mesoderm and ectoderm arising on each side of the embryo) to progress ventrally and meet in the midline and/or fuse to close the ventral body wall; normally, this closure is aided by growth of the h
Mapped by homologous gene(Total Items:56)
HP ID HP Name MP ID MP Name Annotation
HP:0000528AnophthalmiaMP:3000003abnormal Ebner's gland morphologyany structural anomaly of the serous salivary glands which reside adjacent to the moats surrounding the circumvallate and foliate papillae just anterior to the posterior third of the tongue, anterior to the terminal sulcus; these exocrine glands secrete l
HP:0004112Midline nasal grooveMP:0011961abnormal cornea thicknessincreased or decreased width of the cornea in the center plane
HP:0003422Vertebral segmentation defectMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0001362Skull defectMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0000689Dental malocclusionMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0000370Abnormality of the middle earMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0001522Death in infancyMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0000046Scrotal hypoplasiaMP:0014198absent pituitary infundibular stalkabsence of the apical portion of the tubular structure extending from the hypothalamus to the posterior lobe of the pituitary gland
HP:0006610Wide intermamillary distanceMP:0014185cerebellum atrophyacquired diminution of the size of the cerebellum associated with wasting as from death and reabsorption of cells, diminished cellular proliferation, decreased cellular volume, pressure, ischemia, malnutrition, reduced function or malfunction, or hormonal
HP:0002101Abnormal lung lobationMP:0013785abnormal mammary gland bud morphologyany structural anomaly of the morphologically distinct bulb of epithelial cells formed once each mammary placode expands and invaginates into the underlying mesenchyme; in mouse embryos at E12.5, each epithelial bud with its contiguous mesenchyme is eleva
HP:0000142Abnormality of the vaginaMP:0013367parotid gland inflammationlocal accumulation of fluid, plasma proteins, and leukocytes in either of the largest of the major salivary glands situated below and in front of each ear
HP:0000148Vaginal atresiaMP:0014152absent exorbital lacrimal glandabsence of the large extra-orbital lacrimal gland that, in mice, is normally located subcutaneously at the anteroventral base of the ear adjacent to the parotid gland
HP:0007993Malformed lacrimal ductsMP:0011961abnormal cornea thicknessincreased or decreased width of the cornea in the center plane
HP:0000062Ambiguous genitaliaMP:0014198absent pituitary infundibular stalkabsence of the apical portion of the tubular structure extending from the hypothalamus to the posterior lobe of the pituitary gland
HP:0000316HypertelorismMP:0020321increased vascular endothelial cell apoptosisincrease in the timing or the number of vascular endothelial cells undergoing programmed cell death
HP:0000047HypospadiasMP:3000003abnormal Ebner's gland morphologyany structural anomaly of the serous salivary glands which reside adjacent to the moats surrounding the circumvallate and foliate papillae just anterior to the posterior third of the tongue, anterior to the terminal sulcus; these exocrine glands secrete l
HP:0000618BlindnessMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0001770Toe syndactylyMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0001602Laryngeal stenosisMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0000413Atresia of the external auditory canalMP:0020039increased bone ossificationincrease in the formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance
HP:0000003Multicystic kidney dysplasiaMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0002475MyelomeningoceleMP:0013309adrenal gland cystpresence of fluid-filled usually benign growths in the adrenal gland
HP:0008572External ear malformationMP:3000003abnormal Ebner's gland morphologyany structural anomaly of the serous salivary glands which reside adjacent to the moats surrounding the circumvallate and foliate papillae just anterior to the posterior third of the tongue, anterior to the terminal sulcus; these exocrine glands secrete l
HP:0004397Ectopic anusMP:0014152absent exorbital lacrimal glandabsence of the large extra-orbital lacrimal gland that, in mice, is normally located subcutaneously at the anteroventral base of the ear adjacent to the parotid gland
HP:0002023Anal atresiaMP:0020039increased bone ossificationincrease in the formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance
HP:0000028CryptorchidismMP:3000003abnormal Ebner's gland morphologyany structural anomaly of the serous salivary glands which reside adjacent to the moats surrounding the circumvallate and foliate papillae just anterior to the posterior third of the tongue, anterior to the terminal sulcus; these exocrine glands secrete l
HP:0000204Cleft upper lipMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0001539OmphaloceleMP:0020169increased thyroid gland weighthigher than average weight of the thyroid gland
HP:0001607Subglottic stenosisMP:0013785abnormal mammary gland bud morphologyany structural anomaly of the morphologically distinct bulb of epithelial cells formed once each mammary placode expands and invaginates into the underlying mesenchyme; in mouse embryos at E12.5, each epithelial bud with its contiguous mesenchyme is eleva
HP:0002084EncephaloceleMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0005280Depressed nasal bridgeMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0000813Bicornuate uterusMP:0013545cleft hard palatecleft in the anterior portion of the palate consisting of bone and mucous membranes; the hard palate is formed from bony processes of the maxilla, premaxilla and palatine bones
HP:0006101Finger syndactylyMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0000405Conductive hearing impairmentMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0007925Lacrimal duct aplasiaMP:0011961abnormal cornea thicknessincreased or decreased width of the cornea in the center plane
HP:0000568MicrophthalmiaMP:3000003abnormal Ebner's gland morphologyany structural anomaly of the serous salivary glands which reside adjacent to the moats surrounding the circumvallate and foliate papillae just anterior to the posterior third of the tongue, anterior to the terminal sulcus; these exocrine glands secrete l
HP:0001249Intellectual disabilityMP:0020316decreased vascular endothelial cell proliferationdecrease in the expansion rate of any vascular endothelial cell population by cell division
HP:0000218High palateMP:0020321increased vascular endothelial cell apoptosisincrease in the timing or the number of vascular endothelial cells undergoing programmed cell death
HP:0003191Cleft ala nasiMP:0011961abnormal cornea thicknessincreased or decreased width of the cornea in the center plane
HP:0010297Bifid tongueMP:0013956decreased colon lengthreduced length of the portion of the large intestine between the cecum and the rectum
HP:0003183Wide pubic symphysisMP:0020010decreased bone mineral density of femurreduction in the quatitative measurment value of mineral content of bone in the long bone of the thigh
HP:0002025Anal stenosisMP:0014164abnormal ciliary process morphology any structural anomaly of any of the pigmented processes that radiate from the ciliary muscle and give attachments to ligaments supporting the lens of the eye; these processes increase in thickness as they advance from the orbiculus ciliaris to the exter
HP:0000368Low-set, posteriorly rotated earsMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0001537Umbilical herniaMP:0020321increased vascular endothelial cell apoptosisincrease in the timing or the number of vascular endothelial cells undergoing programmed cell death
HP:0000202Oral cleftMP:0014198absent pituitary infundibular stalkabsence of the apical portion of the tubular structure extending from the hypothalamus to the posterior lobe of the pituitary gland
HP:0000430Underdeveloped nasal alaeMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0010458Female pseudohermaphroditismMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0000678Dental crowdingMP:0020309increased creatine kinase activityincreased ability of to catalyze the reaction: ATP + creatine = N-phosphocreatine + ADP + 2 H(+).
HP:0008736Hypoplasia of penisMP:3000003abnormal Ebner's gland morphologyany structural anomaly of the serous salivary glands which reside adjacent to the moats surrounding the circumvallate and foliate papillae just anterior to the posterior third of the tongue, anterior to the terminal sulcus; these exocrine glands secrete l
HP:0000089Renal hypoplasiaMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0002089Pulmonary hypoplasiaMP:0020214susceptible to malignant hyperthermiaincreased susceptibility to hyperthermia triggered by exposure to certain drugs used for general anesthesia, specifically the volatile anesthetic agents and the neuromuscular blocking agent, succinylcholine
HP:0001126CryptophthalmosMP:0013389Meibomian gland hypoplasiaunderdevelopment or reduced size of the meibum-secreting modified lobulated sebaceous glands located at the rim of the eyelids inside the tarsal plate, usually due to a reduced number of cells
HP:0000431Wide nasal bridgeMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0000252MicrocephalyMP:3000003abnormal Ebner's gland morphologyany structural anomaly of the serous salivary glands which reside adjacent to the moats surrounding the circumvallate and foliate papillae just anterior to the posterior third of the tongue, anterior to the terminal sulcus; these exocrine glands secrete l
HP:0000068Urethral atresiaMP:0012739abnormal anterior primitive streak morphologyany structural anomaly of the anterior region of the vertebrate primitive streak which gives rise to the axial and paraxial mesoderm, the definitive endoderm, the primitive groove, and the primitive node
HP:0002777Tracheal stenosisMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
Disease ID 348
Disease fraser syndrome
Case(Waiting for update.)