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GM27641 LCL from B-Lymphocyte

Description:

MENTAL RETARDATION, AUTOSOMAL DOMINANT 40; MRD40
CHROMOSOME ALIGNMENT-MAINTAINING PHOSPHOPROTEIN 1; CHAMP1

Affected:

Yes

Sex:

Male

Age:

10 YR (At Sampling)

  • Overview
  • Characterizations
  • Phenotypic Data
  • External Links
  • Culture Protocols

Overview

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Repository NIGMS Human Genetic Cell Repository
Subcollection Heritable Diseases
PIGI Consented Sample
Biopsy Source Peripheral vein
Cell Type B-Lymphocyte
Tissue Type Blood
Transformant Epstein-Barr Virus
Sample Source LCL from B-Lymphocyte
Race White
Ethnicity Not Hispanic/Latino
Ethnicity Dutch, Indonesian, English
Country of Origin USA
Family Member 1
Family History N
Relation to Proband proband
Species Homo sapiens
Common Name Human
Remarks See Phenotypic Data tab; unaffected mother is GM27642 (lymph).

Characterizations

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IDENTIFICATION OF SPECIES OF ORIGIN Species of Origin Confirmed by LINE assay
 
Gene CHAMP1
Chromosomal Location 13q34
Allelic Variant 1 616327.0005; MENTAL RETARDATION, AUTOSOMAL DOMINANT 40; MRD40
Identified Mutation c.1192C>T (p.R398*); In an 18-year-old boy (family C) of Dutch descent with autosomal dominant mental retardation-40 (MRD40; 616579), Hempel et al. (2015) identified a de novo heterozygous c.1192C-T transition in the CHAMP1 gene, resulting in an arg398-to-ter (R398X) substitution. The mutation, which was found by whole-exome sequencing and confirmed by Sanger sequencing, was not present in the dbSNP (build 136), 1000 Genomes Project, or ExAC databases. Functional studies of the variant were not performed, but the mutation was predicted to result in a truncated protein lacking the functionally important C terminal domain. Hempel et al. (2015) noted that the same de novo R398X mutation was identified by Rauch et al. (2012) in 1 of 51 individuals with severe intellectual disability who underwent trio exome-sequencing. This patient (family E) had a similar phenotype as patient C.

Phenotypic Data

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Demographic Data
Relation to Proband proband
Age at Sampling 10 YR
Sex Male
Age at Diagnosis(If not a control) 8 YR
Hispanic or Latino/Not Hispanic or Latino Not Hispanic/Latino
Racial Category White
Country USA
 
Data Elements
Clinical Element Type: General NIGMS Catalog Remarks
  (Baseline)
Mutation Information
Gene, variant, consequence, and exon number:  EXOME SEQUENCING REVEALED A DE NOVO AUTOSOMAL DOMINANT MUTATION IN THE CHAMP1 GENE: C.1192C>T(P.R398*)
Zygosity:  Heterozygous
Other variants:  HOMOZYGOUS FOR C ALLELE OF C677T POLYMORPHISM IN THE MTHFR GENE (NORMAL VARIANT); HOMOZYGOUS FOR THE MET ALLELE OF VAL158MET (MET/MET) IN THE COMT GENE (REDUCED ACTIVITY); HETEROZYGOUS FOR -1291G>C (C/G) IN THE ADRA2A GENE (TYPICAL RESPONSE); ULTRARAPID METABOLIZER CYP2D6 *2A/*2A (INCREASED ENZYME ACTIVITY); HETEROZYGOUS FOR THE SHORT/LONG (L/S) PROMOTER POLYMORPHISM OF SLC6A4; HLA-B*1502 OR CLOSELY RELATED *15 IS NOT PRESENT; HOMOZYGOUS FOR G ALLELE (G/G) OF -1438G>A OF HTR2A GENE; HOMOZYGOUS FOR A ALLELE (A/A) OF RS1061235 A>T POLYMORPHISM OF HLA-A*3101; CYP1A2 *1/*1; CYP2B6 *1/*1 (NORMAL ALLELE ENZYME ACTIVITY); CYP2C19 *1/*1 (NORMAL ENZYME ACTIVITY); CYP2C9 *1/*1 (NORMAL ENZYME ACTIVITY); CYP3A4 *1/*1 (NORMAL ENZYME ACTIVITY); CYP2D6 *2A/*2A (INCREASED ENZYME ACTIVITY); UGT1A4 *1/*3 (*3 INCREASED ENZYME ACTIVITY); UGT2B15 *2/*2 (REDUCED ENZYME ACTIVITY)
Age of Symptom Onset and Age at Diagnosis
Age of Symptom Onset:  BIRTH
Age at Diagnosis:  8 YEARS; DIAGNOSED BY A GENETICIST
In Utero History Information
Additional Information:  ULTRASOUND SHOWED HYDRONEPHROSIS
Birth History Information
Additional Information:  SPONTANEOUS VAGINAL BIRTH, BORN AT 42 WEEKS GESTATION, PHIMOSIS
Dysmorphic Features
Cleft palate
Additional Information:  LOW HAIRLINE, PALE SKIN, LOW SET EARS, WIDE SET EYES, EYE FOLDS, FLAT NOSE BRIDGE, SUBMUCOSAL CLEFT, PSEUDO-STRABISMUS
Neurological Symptoms
Seizures
Sleep abnormalities
Additional Information:  LOW TONE, DECREASED PAIN
Optical and Audiological Symptoms
Defective hearing
Additional Information:  HEARING LOSS, COLOBOMA, ASTIMATISM, HYPEROPIA
Musculoskeletal Symptoms
Additional Information:  SHORT STATURE, HYPOPLASTIC JOINTS, NO HIP SOCKET, CONGENITAL HIP DISLOCATION, HEMIVERTEBRAE
Developmental Milestones
Global developmental delay
Additional Information:  SPEECH ATAXIA
Gastrointestinal Symptoms
Eating difficulties
Additional Information:  FEEDING DIFFICULTY - OPENING MOUTH
Genitourinary Symptoms
Respiratory and Cardiovascular Symptoms
Cognitive and Behavioral Symptoms
Anxiety
Mood disorder
Autism spectrum disorder
Sleep disturbances
Attention deficit hyperactivity disorder
Additional Information:  OCD, REPETITIVE STIMULATION, FRIENDLY, DECREASED PAIN, SELF INJURIOUS, SCREAMING BEHAVIOR
Additional Information
Uncategorized Symptoms:  ECZEMA, HIGH BMI
Testing Performed
Neurological Testing:  ABNORMAL EEG SHOWED SLOWED FRONTAL WAVES
Cognitive and Behavioral Testing:  PSYCHOLOGICAL EVALUATION DIAGNOSED PDD-NOS, AND LANGUAGE, MOTOR COORDINATION AND INTELLECTUAL DISORDERS
Uncategorized Testing:  SURGERIES: TYMPANOMASTIODECTOMY, EAR TUBES, LACRIMAL DUCT PROBE, CIRCUMCISION WITH CHORDEE REPAIR, SPINE FUSION, ADENOIDECTOMY
Treatments and Assistive Devices
Occupational therapy
Physical therapy
Speech therapy
Orthotics
Service animal
Hearing aid
Communication or learning devices
Additional Testing:  MANAGEMENT: GLASSES, SMO ORTHOTICS, HORSEBACK THERAPY, MUSIC THERAPY, CRANIOSACRAL THERAPY, CHIROPRACTIC
Medications
 SEROQUEL XR, CLONIDINE XR, OXCARBAZIPINE, AMITRIPTYLINE, N-ACETYLCYSTEINE
Family History
 THE CHAMP1 GENE MUTATION WAS NOT FOUND IN EITHER PARENT BY COSEGREGATION ANALYSIS
Remarks See Phenotypic Data tab; unaffected mother is GM27642 (lymph).

External Links

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Gene Cards CHAMP1
NCBI GTR 616327 CHROMOSOME ALIGNMENT-MAINTAINING PHOSPHOPROTEIN 1; CHAMP1
616579 MENTAL RETARDATION, AUTOSOMAL DOMINANT 40; MRD40
OMIM 616327 CHROMOSOME ALIGNMENT-MAINTAINING PHOSPHOPROTEIN 1; CHAMP1
616579 MENTAL RETARDATION, AUTOSOMAL DOMINANT 40; MRD40

Culture Protocols

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Split Ratio 1:6
Temperature 37 C
Percent CO2 5%
Percent O2 AMBIENT
Medium Roswell Park Memorial Institute Medium 1640 with 2mM L-glutamine or equivalent
Serum 15% fetal bovine serum Not Inactivated
Substrate None specified
Subcultivation Method dilution - add fresh medium
Supplement -
Pricing
International/Commercial/For-profit:
$373.00USD
U.S. Academic/Non-profit/Government:
$216.00USD
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