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eRAM

encyclopedia of Rare Disease Annotation for Precision Medicine



   cleidocranial dysplasia
  

Disease ID 107
Disease cleidocranial dysplasia
Definition
Autosomal dominant syndrome in which there is delayed closing of the CRANIAL FONTANELLES; complete or partial absence of the collarbones (CLAVICLES); wide PUBIC SYMPHYSIS; short middle phalanges of the fifth fingers; and dental and vertebral anomalies.
Synonym
ccd
ccd - cleidocranial dysplasia
clcd
clcd - cleidocranial dysplasia
cleidocranial digital dysostoses
cleidocranial digital dysostosis
cleidocranial dysostoses
cleidocranial dysostosis
cleidocranial dysostosis (disorder)
cleidocranial dysplasia [disease/finding]
cleidocranial dysplasias
craniocleidodysostosis
dysostoses, cleidocranial
dysostoses, cleidocranial digital
dysostosis cleidocranial
dysostosis, cleidocranial
dysostosis, cleidocranial digital
dysplasia, cleidocranial
dysplasias, cleidocranial
marie sainton syndrome
marie-sainton syndrome
osteodental dysplasia
scheuthauer marie sainton syndrome
scheuthauer-marie-sainton syndrome
syndrome, marie-sainton
syndrome, scheuthauer-marie-sainton
Orphanet
OMIM
DOID
UMLS
C0008928
MeSH
SNOMED-CT
Curated Gene
Entrez_id | Symbol | Resource(Total Genes:1)
860  |  RUNX2  |  CLINVAR;CTD_human;GHR;ORPHANET;UNIPROT
Inferring Gene
Entrez_id | Symbol | Resource(Total Genes:1)
860  |  RUNX2  |  CIPHER;CTD_human
Text Mined Gene
Entrez_id | Symbol | Score | Resource(Total Genes:47)
176  |  ACAN  |  1.35  |  DISEASES
103  |  ADAR  |  1.291  |  DISEASES
249  |  ALPL  |  2.087  |  DISEASES
54880  |  BCOR  |  1.507  |  DISEASES
632  |  BGLAP  |  3.248  |  DISEASES
650  |  BMP2  |  1.876  |  DISEASES
865  |  CBFB  |  3.22  |  DISEASES
1435  |  CSF1  |  1.953  |  DISEASES
1499  |  CTNNB1  |  1.342  |  DISEASES
9820  |  CUL7  |  2.45  |  DISEASES
2260  |  FGFR1  |  1.27  |  DISEASES
2263  |  FGFR2  |  1.253  |  DISEASES
2261  |  FGFR3  |  1.262  |  DISEASES
51343  |  FZR1  |  2.577  |  DISEASES
2778  |  GNAS  |  1.442  |  DISEASES
3590  |  IL11RA  |  2.644  |  DISEASES
3665  |  IRF7  |  1.188  |  DISEASES
3980  |  LIG3  |  2.654  |  DISEASES
5606  |  MAP2K3  |  1.413  |  DISEASES
5608  |  MAP2K6  |  1.862  |  DISEASES
5600  |  MAPK11  |  1.846  |  DISEASES
79104  |  MEG8  |  1.254  |  DISEASES
4487  |  MSX1  |  2.295  |  DISEASES
4745  |  NELL1  |  2.275  |  DISEASES
4773  |  NFATC2  |  1.408  |  DISEASES
579  |  NKX3-2  |  4.252  |  DISEASES
5083  |  PAX9  |  1.828  |  DISEASES
26227  |  PHGDH  |  1.064  |  DISEASES
5727  |  PTCH1  |  1.249  |  DISEASES
8643  |  PTCH2  |  1.787  |  DISEASES
5745  |  PTH1R  |  1.143  |  DISEASES
83695  |  RHNO1  |  1.534  |  DISEASES
81847  |  RNF146  |  2.921  |  DISEASES
860  |  RUNX2  |  7.738  |  DISEASES
864  |  RUNX3  |  3.936  |  DISEASES
9353  |  SLIT2  |  1.53  |  DISEASES
6586  |  SLIT3  |  1.398  |  DISEASES
4089  |  SMAD4  |  1.138  |  DISEASES
4090  |  SMAD5  |  1.718  |  DISEASES
6696  |  SPP1  |  1.33  |  DISEASES
6708  |  SPTA1  |  1.014  |  DISEASES
8464  |  SUPT3H  |  3.664  |  DISEASES
6932  |  TCF7  |  2.06  |  DISEASES
202500  |  TCTE1  |  3.285  |  DISEASES
7227  |  TRPS1  |  2.82  |  DISEASES
117581  |  TWIST2  |  1.705  |  DISEASES
25937  |  WWTR1  |  1.637  |  DISEASES
Locus
Symbol | Locus(Total Locus:1)
RUNX2  |  6p21.1
Disease ID 107
Disease cleidocranial dysplasia
Integrated Phenotype
HPO | Name(Total Integrated Phenotypes:55)
HP:0000894  |  Short clavicles
HP:0000670  |  Carious teeth
HP:0011800  |  Midface retrusion
HP:0001810  |  Dystrophic toenail
HP:0000682  |  Abnormality of dental enamel
HP:0000239  |  Large fontanelles
HP:0010751  |  Chin dimple
HP:0004322  |  Short stature
HP:0000246  |  Sinusitis
HP:0008821  |  Hypoplastic inferior ilia
HP:0000365  |  Hearing impairment
HP:0000248  |  Brachycephaly
HP:0005930  |  Abnormality of epiphysis morphology
HP:0002645  |  Wormian bones
HP:0005280  |  Depressed nasal bridge
HP:0000337  |  Broad forehead
HP:0002644  |  Abnormality of pelvic girdle bone morphology
HP:0001156  |  Brachydactyly syndrome
HP:0002205  |  Recurrent respiratory infections
HP:0011219  |  Short face
HP:0000347  |  Micrognathia
HP:0002652  |  Skeletal dysplasia
HP:0000303  |  Mandibular prognathia
HP:0002007  |  Frontal bossing
HP:0003298  |  Spina bifida occulta
HP:0000316  |  Hypertelorism
HP:0001172  |  Abnormality of the thumb
HP:0000164  |  Abnormality of the teeth
HP:0000684  |  Delayed eruption of teeth
HP:0000774  |  Narrow chest
HP:0000772  |  Abnormality of the ribs
HP:0004331  |  Decreased skull ossification
HP:0000175  |  Cleft palate
HP:0005107  |  Abnormality of the sacrum
HP:0000256  |  Macrocephaly
HP:0001163  |  Abnormality of the metacarpal bones
HP:0002650  |  Scoliosis
HP:0000162  |  Glossoptosis
HP:0000389  |  Chronic otitis media
HP:0000939  |  Osteoporosis
HP:0001182  |  Tapered finger
HP:0002757  |  Recurrent fractures
HP:0002857  |  Genu valgum
HP:0004209  |  Clinodactyly of the 5th finger
HP:0200021  |  Down-sloping shoulders
HP:0002705  |  High, narrow palate
HP:0008391  |  Dystrophic fingernails
HP:0002812  |  Coxa vara
HP:0010807  |  Open bite
HP:0000364  |  Hearing abnormality
HP:0010535  |  Sleep apnea
HP:0011069  |  Increased number of teeth
HP:0000882  |  Hypoplastic scapulae
HP:0010669  |  Cheekbone underdevelopment
HP:0000340  |  Sloping forehead
Text Mined Phenotype
HPO | Name | Sentences' Count(Total Phenotypes:7)
Disease ID 107
Disease cleidocranial dysplasia
Manually Symptom
UMLS  | Name(Total Manually Symptoms:4)
C2029884  |  hearing loss
C0040456  |  impacted teeth
C0037928  |  myelopathy
C0020630  |  hypophosphatasia
Text Mined Symptom
UMLS | Name | Sentences' Count(Total Symptoms:1)
C1384666  |  hearing loss  |  1
Manually Genotype(Total Manually Genotypes:2)
Gene Mutation DOI Article Title
RUNX2c.674G>A, p.R225Qdoi:10.1038/gim.2015.129Comprehensive genetic exploration of skeletal dysplasia using targeted exome sequencing
RUNX2c.913delT, p.S305PfsX3doi:10.1038/gim.2015.129Comprehensive genetic exploration of skeletal dysplasia using targeted exome sequencing
Text Mining Genotype(Total Genotypes:0)
(Waiting for update.)
All Snps(Total Genotypes:13)
snpId pubmedId geneId geneSymbol diseaseId sourceId sentence score Year geneSymbol_dbSNP CHROMOSOME POS REF ALT
rs104893988NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645512277GA
rs104893989NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645431963TC,G
rs104893990NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645432011GA
rs10489399124634175860RUNX2umls:C0008928BeFreeRole of the RUNX2 p.R225Q mutation in cleidocranial dysplasia: a rare presentation and an analysis of the RUNX2 protein structure.0.6061486262014RUNX2645438040GA
rs104893991NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645438040GA
rs104893992NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645438039CT
rs104893993NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645437964AG
rs104893994NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645547304GC
rs104893995NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645431945GA,C
rs397515537NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645546910CT
rs397515538NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645422624-C
rs730880313NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645422723GCAGCAACAGCAGCAACAGCAGCAGCAGCAGCAGCAACAGCAGCCG
rs730880315NA860RUNX2umls:C0008928CLINVARNA0.606148626NARUNX2645546967-C
GWASdb Annotation(Total Genotypes:0)
(Waiting for update.)
GWASdb Snp Trait(Total Genotypes:0)
(Waiting for update.)
Mapped by lexical matching(Total Items:23)
HP ID HP Name MP ID MP Name Annotation
HP:0000670Carious teethMP:0004033supernumerary teethoccurrence of more than the usual number of teeth
HP:0002645Wormian bonesMP:0008915fused carpal bonesanomaly of the nine nodular bones of the joint between the forelimb bones and the front paws/hands resulting in some or all the bones being joined together
HP:0005930Abnormality of epiphysis morphologyMP:0013621decreased internal diameter of femurreduced cross-sectional distance that extends from one lateral edge of the femur long bone marrow cavity, through its center and to the opposite lateral edge of the bone marrow cavity through the mid point of the femur
HP:0001172Abnormality of the thumbMP:0006241abnormal placement of pupilsabnormal location of the pupil so that it is not in the center of the iris
HP:0000772Abnormality of the ribsMP:0020010decreased bone mineral density of femurreduction in the quatitative measurment value of mineral content of bone in the long bone of the thigh
HP:0000774Narrow chestMP:0004134abnormal chest morphologyany structural anomaly of the part of the body between the neck and the abdomen
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:0002644Abnormality of pelvic girdle bone morphologyMP:0013620increased internal diameter of femurincreased cross-sectional distance that extends from one lateral edge of the femur long bone marrow cavity, through its center and to the opposite lateral edge of the bone marrow cavity through the mid point of the femur
HP:0004209Clinodactyly of the 5th fingerMP:0011665d-loop transposition of the great arteriescomplete transposition of the great arteries; the d- refers to the dextroposition of the bulboventricular loop (ie, the position of the right ventricle, which is on the right side); in addition, the aorta also tends to be on the right and anterior, and th
HP:0011800Hypoplasia of midfaceMP:0020010decreased bone mineral density of femurreduction in the quatitative measurment value of mineral content of bone in the long bone of the thigh
HP:0001163Abnormality of the metacarpal bonesMP:0012069abnormal horizontal basal cell of olfactory epithelium morphologyany structural anomaly of the flat or angular epithelial cell with condensed nuclei and darkly staining cytoplasm containing numerous intermediate filaments inserted into desmosomes contacting surrounding supporting cells, that lie in contact with the bas
HP:0004331Decreased skull ossificationMP:0020040decreased bone ossificationdecrease 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:0002757Recurrent fracturesMP:0004675rib fracturesa crack or break in the bones forming the bony wall of the chest
HP:0000175Cleft palateMP:0013550abnormal secondary palate morphology
HP:0005107Abnormality of the sacrumMP:0020010decreased bone mineral density of femurreduction in the quatitative measurment value of mineral content of bone in the long bone of the thigh
HP:0003298Spina bifida occultaMP:0005297spina bifida occultadefective closure of the laminae of the vertebral column in the lumbosacral region without hernial protrusion of the spinal cord or meninges; the mildest, most common and often asymptomatic form of spina bifida, identified externally by a skin depression
HP:0000684Delayed eruption of teethMP:0020010decreased bone mineral density of femurreduction in the quatitative measurment value of mineral content of bone in the long bone of the thigh
HP:0000682Abnormality of dental enamelMP:0012069abnormal horizontal basal cell of olfactory epithelium morphologyany structural anomaly of the flat or angular epithelial cell with condensed nuclei and darkly staining cytoplasm containing numerous intermediate filaments inserted into desmosomes contacting surrounding supporting cells, that lie in contact with the bas
HP:0000389Chronic otitis mediaMP:0001850increased susceptibility to otitis mediagreater likelihood of middle ear inflammation, with an accumulation of a thick, mucous-like fluid; usually associated with a viral or bacterial respiratory infection
HP:0010669Hypoplasia of the zygomatic boneMP:0011205excessive folding of visceral yolk sacthe appearance of wrinkles or folds on the surface of the visceral yolk sac
HP:0011069Increased number of teethMP:0020010decreased bone mineral density of femurreduction in the quatitative measurment value of mineral content of bone in the long bone of the thigh
HP:0000164Abnormality of the teethMP:0010382abnormal dosage compensation, by inactivation of X chromosomeanomaly in the process of compensating for the two-fold variation in X-chromosome:autosome ratios between sexes by a global inactivation of all, or most of, the genes on one of the X-chromosomes in the XX sex
HP:0002205Recurrent respiratory infectionsMP:0014182decreased respiratory epithelial sodium ion transmembrane transportdecrease in the directed movement of sodium ions from one side of the respiratory epithelial cell membrane to the other
Mapped by homologous gene(Total Items:54)
HP ID HP Name MP ID MP Name Annotation
HP:0002650ScoliosisMP:0020309increased creatine kinase activityincreased ability of to catalyze the reaction: ATP + creatine = N-phosphocreatine + ADP + 2 H(+).
HP:0002645Wormian bonesMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0005930Abnormality of epiphysis morphologyMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0001172Abnormality of the thumbMP:0014040increased cellular sensitivity to DNA damaging agentsgreater incidence of cell death following exposure to agents that cause DNA damage
HP:0000164Abnormality of the teethMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0000774Narrow chestMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0000303Mandibular prognathiaMP:0020309increased creatine kinase activityincreased ability of to catalyze the reaction: ATP + creatine = N-phosphocreatine + ADP + 2 H(+).
HP:0002205Recurrent respiratory infectionsMP:0020321increased vascular endothelial cell apoptosisincrease in the timing or the number of vascular endothelial cells undergoing programmed cell death
HP:0001810Dystrophic toenailMP:0013241embryo tissue necrosismorphological changes resulting from pathological death of some or all embryo tissue; usually due to irreversible damage
HP:0010751Chin dimpleMP:0013767decreased palatal rugae numberreduced number of transverse folds (ridges) of the mucosa located on the anterior third part of the secondary (hard) palate of most mammalian species
HP:0000882Hypoplastic scapulaeMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0004322Short statureMP: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:0000682Abnormality of dental enamelMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0000347MicrognathiaMP:0020321increased vascular endothelial cell apoptosisincrease in the timing or the number of vascular endothelial cells undergoing programmed cell death
HP:0000364Hearing abnormalityMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0002705High, narrow palateMP:0013600testis degenerationa retrogressive impairment of function or destruction of either or both of the male reproductive glands
HP:0000316HypertelorismMP:0020321increased vascular endothelial cell apoptosisincrease in the timing or the number of vascular endothelial cells undergoing programmed cell death
HP:0000772Abnormality of the ribsMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0001182Tapered fingerMP:0014178increased brain apoptosisincrease in the number of cells of the brain undergoing programmed cell death
HP:0000340Sloping foreheadMP:0020040decreased bone ossificationdecrease 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:0000894Short claviclesMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0008821Hypoplastic inferior iliaMP:0011094embryonic lethality before implantation, complete penetrancedeath of all organisms of a given genotype in a population between fertilization and implantation (Mus: E0 to less than E4.5)
HP:0000248BrachycephalyMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0000337Broad foreheadMP:0020157abnormal behavioral response to alcoholany anomaly in the behavioral response induced by alcohol, such as induced hyperactivity or stereotypic behavior
HP:0005280Depressed nasal bridgeMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0000939OsteoporosisMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0002857Genu valgumMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0001156Brachydactyly syndromeMP:0020157abnormal behavioral response to alcoholany anomaly in the behavioral response induced by alcohol, such as induced hyperactivity or stereotypic behavior
HP:0000670Carious teethMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0002757Recurrent fracturesMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0200021Down-sloping shouldersMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0000175Cleft palateMP: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:0005107Abnormality of the sacrumMP:0020010decreased bone mineral density of femurreduction in the quatitative measurment value of mineral content of bone in the long bone of the thigh
HP:0002812Coxa varaMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0000162GlossoptosisMP:0013292embryonic lethality prior to organogenesisdeath prior to the completion of embryo turning (Mus: E9-9.5)
HP:0000365Hearing impairmentMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0010807Open biteMP:0013696increased granulocyte monocyte progenitor cell numberincrease in the number of a hematopoietic progenitor cell that is committed to the granulocyte and monocyte lineages; these cells are CD123-positive, and do not express Gata1 or Gata2 but do express C/EBPa, and Pu.1
HP:0000246SinusitisMP:0020186altered susceptibility to bacterial infectiona change in the likelihood that an organism will develop ill effects from a bacterial infection or from components of or toxins produced by bacteria
HP:0001163Abnormality of the metacarpal bonesMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0002652Skeletal dysplasiaMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0000684Delayed eruption of teethMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0003298Spina bifida occultaMP:0020137decreased bone mineralizationdecrease in the rate at which minerals are deposited into bone
HP:0004209Clinodactyly of the 5th fingerMP:0020157abnormal behavioral response to alcoholany anomaly in the behavioral response induced by alcohol, such as induced hyperactivity or stereotypic behavior
HP:0000389Chronic otitis mediaMP: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:0000256MacrocephalyMP:0020309increased creatine kinase activityincreased ability of to catalyze the reaction: ATP + creatine = N-phosphocreatine + ADP + 2 H(+).
HP:0011800Hypoplasia of midfaceMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0004331Decreased skull ossificationMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0002644Abnormality of pelvic girdle bone morphologyMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0011069Increased number of teethMP:0020010decreased bone mineral density of femurreduction in the quatitative measurment value of mineral content of bone in the long bone of the thigh
HP:0010669Hypoplasia of the zygomatic boneMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
HP:0002007Frontal bossingMP: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:0010535Sleep apneaMP:0020220decreased tear productiondecreased production of the amount of fluid produced in the eye
HP:0008391Dystrophic fingernailsMP:0013781abnormal mammary gland luminal epithelium morphologyany structural anomaly of the inner cell layer of the mammary epithelium bilayer that lines the luminal surface of mammary gland ducts and alveoli; luminal cells have only limited contact with the underlying basement membrane and surrounding connective ti
HP:0000239Large fontanellesMP:0020254decreased collagen leveldecreased level of the main structural protein of the various connective tissues in animals
Disease ID 107
Disease cleidocranial dysplasia
Case(Waiting for update.)