Genetics-Genes-Heredity All About You Need To Knows

Genetics is the scientific study of genes and heredity—of how certain qualities or traits are passed from parents to offspring as a result of changes in DNA sequence. A gene is a segment of DNA that contains instructions for building one or more molecules that help the bodywork. DNA is shaped like a corkscrew-twisted ladder, called a double helix. The two ladder rails are called backbones, and the rungs are pairs of four building blocks (adenine, thymine, guanine, and cytosine) called bases. The sequences of these bases provide the instructions for building molecules, most of which are proteins. Researchers estimate that humans have about 20,000 genes.

All of an organism’s genetic material, including its genes and other elements that control the activity of those genes, is its genome. An organism’s entire genome is found in nearly all of its cells. In human, plant, and animal cells, the genome is housed in a structure called the nucleus. The human genome is mostly the same in all people with just small variations

Division of Genetics and Molecular, Cellular, and Developmental Biology

The division supports research to understand the structure and function of cells and cellular components and the cellular and molecular mechanisms that underlie inheritance, gene expression, and development. In most cases, research whose overall goal is to gain knowledge about a specific organ or organ system or the pathophysiology, treatment, or cure of a specific disease or condition is not supported by GMCDB.

The division consists of three branches:

Cell Biology Branch

This branch supports studies on the molecular basis of cellular function in a wide range of cell types and research organisms. Research topics include:

  • plasma and intracellular membrane systems and functions
  • protein processing, membrane trafficking, and intracellular transport
  • cellular aspects of protein folding
  • organelle biogenesis, inheritance, and dynamics
  • cell division
  • cytoskeletal structure and function
  • cellular organization, motility, and mechanics
  • cell adhesion and signaling
  • cell-cell junctions and interactions
  • mechanisms of cell death
  • cellular signaling in growth

Developmental and Cellular Processes Branch

This branch supports studies on the genetic and biochemical pathways that cells utilize in development and in normal physiological processes. Research topics include:

  • stem cell biology
  • developmental genetics
  • developmental signaling
  • genetics of behavior and circadian biology
  • chromosome structure and epigenetic regulation of gene expression
  • population genetics and evolution
  • adaptive responses to stress and nutrients
  • microbiome, biofilms, and quorum sensing
  • organismal response to the environment​

Genetic Mechanisms Branch

This branch supports studies on the mechanism and regulation of basic molecular processes and the interactions among these processes. Research topics include:

  • DNA and RNA metabolism (i.e., replication, modification, processing, and repair)
  • transcription and gene regulatory networks
  • coding and noncoding RNA mechanisms of action and function
  • protein synthesis
  • the genetic basis of human biology
  • chromosomal and genome stability

Genetics-Genes-Heredity All About You Need To Know

allele

One version of a  at a given location () along a 

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allele frequency

The proportion of individuals in a population who have inherited a specific variant

allelic heterogeneity

Synonym: molecular heterogeneity

Presence of different pathogenic variants in the same  and at the same   that causes a single disease 

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alternate maternity

Synonym: non-maternity

The situation in which the presumed mother of a particular individual is not the biological mother

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alternate paternity

Synonym: non-paternity

The situation in which the presumed father of a particular individual is not the biological father

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analyte

A chemical substance of interest; a biological component whose properties (e.g., concentration, presence, absence) can be indicators of human disease; in inherited conditions properties of analytes of interest are often measured in a biochemical/metabolic specialty laboratory to identify abnormalities in a metabolic pathway.

aneuploidy

The occurrence of one or more extra or missing chromosomes leading to an unbalanced  complement, or any chromosome number that is not an exact multiple of the  number

anticipation

The tendency in certain genetic disorders for individuals in successive generations to present at an earlier age and/or with more severe manifestations; is often observed in disorders resulting from the expression of a  expansion that tends to increase in size and have a more significant effect when passed from one generation to the next

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Ashkenazi Jewish

Synonym: Eastern European Jewish

The Eastern European Jewish population was primarily from Germany, Poland, and Russia, in contrast to the Sephardic Jewish population primarily from Spain, parts of France, Italy, and North Africa

autosomal

Referring to any of the chromosomes other than the sex-determining chromosomes (i.e., the X and Y) or the genes on these chromosomes

autosomal dominant

Referring to a trait or disorder in which the  can be expressed in individuals who have one copy of a  at a particular  (heterozygotes); specifically refers to a  on one of the 22 pairs of autosomes (non-sex chromosomes)

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autosomal recessive

Referring to a trait or disorder requiring the presence of  pathogenic variants (i.e.,  or  variants) at a particular  to express an observable ; specifically refers to genes on one of the 22 pairs of autosomes (non-sex chromosomes)

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B

background risk

The proportion of individuals in a given population who are affected with a particular disorder or who have pathogenic variants in a certain ; is often discussed in the  process as a comparison to the ‘s risk given his/her family history or other circumstances

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base pair

Synonym: bp

Two nitrogenous bases are paired together in double-stranded DNA by weak bonds; the specific pairing of these bases (adenine with thymine and guanine with cytosine) facilitates accurate DNA replication; when quantified (e.g., 8 bp), refers to the physical length of a sequence of nucleotides

benign variant

Synonym: 

An alteration in DNA (distinct from the reference sequence) that is not associated with an abnormal  or increased disease risk. A benign variant meets the criteria to be classified as benign according to the five-tier system of describing the clinical significance of genetic variants (See related terms).

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biallelic

Referring to both alleles of a . Biallelic variants may be  or .

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C

carrier

An individual with a recessive  at a particular  on one  of a pair who is not expected to develop manifestations of the related condition; may also refer to an individual with a balanced chromosome rearrangement. Note regarding  disorders: While the terms “” and “carrier” are often used synonymously in the literature, GeneReviews does not consider a heterozygote (who has – or is at risk of developing – manifestations of a disorder) to be a carrier.

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carrier rate

Synonym:  frequency

The proportion of individuals in a population who have a single copy of a recessive variant that is pathogenic for a specific condition

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carrier testing

Synonym:  detection

Testing is used in the course of reproductive counseling to identify (typically) asymptomatic individuals who are  for a  associated with a specific  or  disorder

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cDNA

Complementary DNA; is the reverse-transcribed . The cDNA sequence of a  differs from the  sequence of the gene in that it does not include the introns; cDNA does not occur in nature but can be synthesized from mRNA using a series of chemical reactions and may be analyzed to determine mRNA sequence. The nomenclature system used to annotate sequence variants in the context of the coding sequence is based on complementary DNA.

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chromosomal microarray

Synonym: CMA

A term that refers to methods used to detect copy number variants (losses or gains of material), which may be benign, pathogenic, or of uncertain clinical significance. A far more sensitive method than traditional karyotyping, CMA detects both large and small copy number variants. Depending on the method used, CMA may involve scanning of the whole genome (also referred to as cytogenetic CMA), targeted regions of the genome, or a specific chromosome or chromosome segment. The CMA methods used most commonly in clinical practice include oligo (oligonucleotide) array, SNP (single-nucleotide ) array, and oligo/SNP combination array.

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chromosome

A physical structure consists of a large DNA molecule organized into genes and supported by proteins called chromatin

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chromosome breakage studies

Cytogenetic testing to detect an increased rate of  breakage or rearrangement in metaphase cells by exposing cell cultures to clastogenic agents such as diepoxybutane (DEB) or mitomycin C (MMC); cell cultures not exposed to the DNA clastogenic agent are used as controls to measure the spontaneous rate of chromosome breakage or rearrangement.

cis

Synonyms: cis configuration, coupling

Referring to two variants on the same  (typically used to describe variants within the same )

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coding region

Synonyms: , ORF

DNA sequence that has the potential to be transcribed into RNA and translated into protein; must include a start codon and termination codon

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codominant

Referring to two phenotypes being expressed at the same time from the same ; for example, the AB blood groups in humans

comparative genomic hybridization

The method in which two DNA samples (a control and a test sample), labeled in different fluorescent colors, are hybridized to a single target to assay for relative losses (deletions) or gains (duplications) in the DNA of the test sample compared to the control

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compound heterozygous

Referring to two  variants present in  configuration within the same  region of interest (typically within the same )

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congenital

Present at birth; not necessarily genetic

consanguineous

Referring to reproductive partners who have a relatively close genetic relationship (e.g., cousins)

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consanguinity

See .

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constitutional variant

A variant that is present in all somatic and  cells and thus has the potential to be passed to subsequent generations; may be used synonymously with “

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contiguous gene deletion

Deletion of a  segment that encompasses two or more adjacent genes

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contiguous gene deletion syndrome

A constellation of clinical findings caused by  of a  segment that encompasses two or more adjacent genes

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copy number variant

Synonym: CNV

Duplication or  of a section of DNA. CNVs can be benign (normal), pathogenic, or of uncertain clinical significance. The method used to detect a CNV varies based on its size (see ).

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critical region

The specific portion of a  or a  that, when altered in some way (deleted, duplicated, or otherwise mutated), produces the characteristic set of phenotypic abnormalities associated with a particular syndrome or disorder

custom prenatal testing

Prenatal testing is offered to families in which (a) (s) have been identified in an affected family member in either a research or clinical laboratory; testing is not otherwise clinically available for .

custom testing

Testing is offered to families in which (a) (s) have been identified in an affected family member in either a research or clinical laboratory; testing is not otherwise clinically available.

cytogenetic

Referring to  abnormalities such as aneuploidies, deletions, duplications, and translocations

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D

de novo

Referring to a genetic variant that is present for the first time in one family member

deletion

The absence of a segment of DNA; may be as small as a single base or as large as one or more genes. The method used to detect a deletion depends on the size of the deletion.

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deletion/duplication analysis

Synonym: copy number analysis

Testing that identifies deletions/duplications not routinely detectable by  of the coding and flanking  regions of  DNA; included in the variety of methods that may be used are , multiplex ligation-dependent probe amplification (MLPA), and  (CMA) that includes the / segment of interest.

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deletion syndrome

Synonym: 

A recognizable  is caused by a   that spans one or more genes and may be too small to be detected using conventional  methods; the deletion is typically detected by  (CMA). Depending on the size of the deletion, other techniques including  and  can sometimes be employed to identify the deletion.

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digenic

Referring to the expression of a  that requires the presence of pathogenic variants in two different genes

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domain

A specific region or amino acid sequence in a protein associated with a particular function or corresponding segment of DNA

dominant-negative

Referring to a single,   that produces a protein that interferes with (i.e., dimerizes or combines with, or blocks) the normal protein produced by the other , adversely affecting protein function. In cases of polymeric molecules, such as collagen, dominant-negative variants are often more deleterious than variants resulting in no  ( variants).

double heterozygosity

The presence in an individual of a  variant in two different  regions of interest (typically, a heterozygous variant in each of two different genes). The clinical consequences of double heterozygosity depend on the related disorder(s) and the model(s) of inheritance of the disorder(s).

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duplication

The presence of one or more additional copies of a segment of DNA; may be as small as a single base or as large as one or more genes. The method used to detect a duplication depends on the size of the duplication.

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dysmorphic

Referring to visible morphologic findings that differ from those commonly seen in the general population or that are expected from the family background

E

epigenetic

Referring to chemical alterations to DNA nucleotides or proteins that control  expression but do not alter the DNA sequence

epimutation

A heritable change in  activity that is not associated with a DNA variant but rather with gain or loss of DNA  or other heritable modifications of chromatin

(Reprinted from Trends in Genetics, 30:519-20. Oey H, Whitelaw E. On the meaning of the word “epimutation.” Copyright 2014, with permission from Elsevier.)

exome

The part of the genome that includes all coding nuclear DNA sequences. The human exome comprises approximately 180,000 exons that are transcribed into mature RNA.

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exome array

A microarray designed to determine -level copy number for as many genes associated with the disease as possible regardless of  or clinical features associated with the genes

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exome sequencing

Sequence analysis of the exons of protein-coding genes in the genome is typically performed by target enrichment or capture of exons followed by  (NGS). Exome sequencing techniques have non-standardized, highly variable coverage; of particular note are regions of the  refractory to accurate sequencing by this method (including genes with a , highly repetitive coding regions, and large deletions and duplications). Laboratories may also include  of some noncoding regions of the genome (e.g., promoters, highly conserved regulatory sequences). Note that the term “exome sequencing” is preferred over the formerly used term “” because coverage of the exome is less than 100%, and thus the “whole” exome is not sequenced.

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exon

The coding sequence of DNA present in mature messenger RNA

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F

familial

Referring to a condition or variant that occurs in more than one family member

first-degree relative

A parent, full-sib, or child of an individual

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FISH

Fluorescent in situ hybridization; is a technique used to identify the presence of specific chromosomes or chromosomal regions through hybridization (attachment) of fluorescently labeled DNA probes to denatured chromosomal DNA. Examination under fluorescent lighting detects the presence of the hybridized fluorescent signal (and hence the presence of the material) or the absence of the hybridized fluorescent signal (and hence the absence of the chromosome material).

With interphase FISH, probes are introduced directly to the interphase cell. Interphase FISH is often used for rapid detection of specific types of  in fetal cells and the detection of certain deletions, duplications, and other abnormalities in tumor cells. In contrast to metaphase FISH, interphase FISH does not permit visualization of the actual chromosomes; therefore, certain structural rearrangements or aneuploidy will not be detected.

With metaphase FISH, cells progress through the division process until metaphase, when chromosomes are condensed and can be individually distinguished. In contrast to interphase FISH, metaphase FISH permits visualization of the actual chromosomes as well as the general location of the abnormality on the .

Related term: 

fluorescent in situ hybridization

See .

founder effect

The higher-than-average frequency of a rare  in a population  over time by geography, language, and/or culture, resulting from the presence of the allele in an early member or members (“founders”) of that group. For example, a founder effect accounts for the high incidence of Huntington’s disease in the Lake Maracaibo region of Venezuela.

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founder variant

is observed in high frequency in a specific population due to the presence of the variant in a single ancestor or a small number of ancestors

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frameshift variant

Synonyms: out-of-frame variant, out-of-frame 

, or  within an  involving several base pairs that are not a multiple of three, consequently disrupting the triplet reading frame and usually leading to the creation of a premature termination (stop) codon and subsequent loss of normal protein product

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full-penetrance allele

In , and  disorders caused by  expansion, an abnormally large  that is associated with disease manifestations

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G

gain-of-function

Referring to a  variant associated with one of the following abnormalities: an increase in one or more functions of the ; a novel function of the gene product; a change in timing of gene expression

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gDNA

Genomic DNA. The DNA in a cell is chromosomal DNA. Genomic DNA does not include mitochondrial DNA.

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gene

The basic unit of heredity, consists of a segment of DNA arranged linearly along a . A gene codes for a specific protein, a segment of protein, or .

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gene conversion

The transfer of DNA sequences between two very similar genes, most often by  during meiosis; can be a mechanism for the mutation if the transfer of material disrupts the coding sequence of the  or if the transferred material itself contains one or more pathogenic variants

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gene product

Most genes are transcribed into segments of RNA (ribonucleic acid), which are translated into proteins. Both RNA and proteins are products expressed by the .

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gene-targeted array

A microarray designed to determine the -level copy number for a  or set of genes associated with a  or specific clinical feature

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gene therapy

Treatment of a genetic disorder by replacing or manipulating an abnormal 

genetic counseling

The process of providing individuals and families with information on the nature, inheritance, and implications of genetic disorders to help them make informed medical and personal decisions. Genetic counseling deals with risk assessment and the use of family history and testing to clarify the genetic status of family members.

genome sequencing

Sequence analysis of the genome including coding and non-coding regions typically performed by  (NGS) of sheared  DNA; genome sequencing techniques have non-standardized, highly variable coverage. Note that “genome sequencing” is preferred over the formerly used term “” because coverage of the genome is less than 100%, and thus the “whole” genome is not sequenced.

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genomic

Referring to the human genome, which comprises the DNA in all chromosomes and mitochondria

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genotype

Commonly, the  or set of alleles at a single ; less commonly, the set of alleles at multiple or all loci

genotype-phenotype correlations

Associations between an individual’s  and the resulting pattern of clinical findings, or 

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genotyping

A molecular assay is designed to detect the presence or absence of a specific variant (or variants) in DNA; variants in DNA not targeted by the assay will not be detected.

germline

The cell line from which egg or sperm cells (gametes) are derived

germline mosaicism

Synonym: 

Two or more cell lines with a different genetic composition are confined to the precursor () cells of the egg or sperm

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germline variant

A variant that is presumed to be present in all germ (egg and sperm) cells and somatic cells. Unlike a somatic variant (i.e., a variant that arises spontaneously in a somatic cell), a germline variant can be transmitted to offspring.

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gonadal mosaicism

See .

H

haploid

Half the diploid or normal number of chromosomes in a somatic cell; the number of chromosomes in a gamete (egg or sperm) cell, which in humans is 23 chromosomes, one  from each chromosome pair

haploinsufficiency

A cause of disease in which the protein product from a single normal  is insufficient — given the presence of a   on the other allele — to prevent the appearance of an abnormal 

hemizygous

Referring to a  normally present in only a single copy; usually an  gene in a male

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heteroplasmic

See .

heteroplasmy

The presence within a single cell of both normal and mutated mitochondrial DNA (mtDNA); the proportion of normal to mutated mtDNA (i.e., the mutant load) may vary in different tissues and is a critical factor in the expression and severity of disease caused by mutation of mtDNA.

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heterozygote

An individual with two different alleles at a particular  (one on each  of a pair), of which is usually pathogenic. The risk that an individual who is  for a  will have manifestations of the related  depends on the specific disorder and the  of the disorder.

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heterozygous

See .

histone

A member of the family of proteins (referred to as histones) around which nuclear DNA is wrapped to facilitate condensation into chromosomes and access for transcription. Eight histone proteins form a single histone core.

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homoplasmic

Characterized by 

homoplasmy

The presence of identical alleles at all mitochondrial loci within a single cell or organism

homozygous

Denoting a variant (distinct from the reference sequence) that is present on both alleles of a given 

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hot spot

A DNA sequence that is highly susceptible to mutation because of some inherent instability, a tendency toward , or chemical predisposition to single-nucleotide substitutions; a region where pathogenic variants are observed with greater frequency

hypomorphic

Referring to a variant characterized by partial loss of  activity (including a reduction in protein production or function)

I

idiopathic

Relating to or denoting a disease or condition for which the cause is unknown

imprinted

See .

imprinting

The process by which maternally and paternally derived chromosomes are uniquely chemically modified (usually by ), leading to different expressions of a certain  or genes on those chromosomes depending on their parental origin. Patterns of gene expression and repression vary between  regions.

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inactivating

See .

indel

Abbreviation for an  (i.e., ) or a  of nucleotides, typically within a  or 

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in-frame

Referring to a variant (usually a small  or ) that does not cause a shift in the triplet reading frame. Such variants can be pathogenic when they lead to the synthesis of an abnormal protein product (i.e., one with one or more missing or inserted amino acids).

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insertion

The presence of extra DNA in a  or other DNA region; may be as small as a single base or as large as one or more genes; if the insertion occurs in a , it may potentially disrupt gene function. An insertion is considered a  when the inserted DNA is a perfect match to the adjacent DNA.

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interfamilial variability

Variability in the clinical presentation of a particular disorder among affected individuals from different families

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intrafamilial variability

Variability in the clinical presentation of a particular disorder among affected individuals within the same immediate or extended family

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intron

The noncoding sequence of DNA removed from mature messenger RNA before translation

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intronic

Referring to DNA or variants in DNA within an 

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isoelectric focusing

The method by which proteins migrate in a matrix according to the pH; an amino acid substitution can change the isoelectric point of a protein.

isoforms

Similar forms of a protein produced by different versions of messenger RNA resulting from the use of different promoters, skipping of exons, or differences in ; may be tissue-specific.

isolated

Referring to a finding that occurs in the absence of other systemic involvement

K

karyotype

A photographic representation of the chromosomes of a single cell, cut and arranged in pairs based on their size and banding pattern according to a standard classification

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L

likely benign

Refers to an alteration in a  (distinct from the reference sequence) that is very unlikely to be associated with an abnormal  or increased disease risk. A likely benign variant meets most, but not all, criteria to be classified as benign according to the five-tier system for describing the clinical significance of genetic variants (see Related terms).

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likely pathogenic

Refers to an alteration in a  (distinct from the reference sequence) that is likely to be associated with an abnormal  or increased disease risk. A likely pathogenic variant meets most but not all criteria to be classified as pathogenic according to the five-tier system for describing the clinical significance of genetic events. A likely pathogenic variant is considered diagnostic and can be used for clinical decision-making (see Related terms).

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locus

The physical site or location of a specific  on a . OMIM (http://omim.org) is the standard reference used for locus information included in GeneReviews.

locus name

An informally assigned abbreviation is used in the process of mapping to designate a putative before gene identification; once the gene is identified, the locus name is generally replaced by a formally assigned gene symbol (which often differs from the locus name).

loss-of-function

Referring to a variant associated with partial or total loss of the function of a 

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loss of heterozygosity

Synonym: LOH

Loss of one of the two alleles at a  or multiple loci leads to a  or  state. LOH can be caused by a variety of genetic mechanisms including  loss, and mitotic crossing over.

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M

manifesting heterozygote

An individual who has at a particular  a  on one  and a wild-type  on the other chromosome, and who has findings of the disorder; generally refers to a clinically affected female with a  pathogenic variant in an  . The  is usually less severe than in a  male with the same pathogenic variant.

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methylation

The attachment of methyl groups to DNA at cytosine bases; is correlated with reduced transcription of the and is thought to be the principal mechanism in  and 

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methylation analysis

Testing that evaluates the  status of a  (attachment of methyl groups to DNA cytosine bases). Genes that are methylated are not expressed.

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microdeletion syndrome

See .

microsatellite

Synonyms: satellite DNA, short tandem repeats

A segment of DNA two to five nucleotides in length (di-, tri-, tetra-, or pentanucleotide repeats) is typically repeated five to 50 times or more. Microsatellite DNA is dispersed throughout the genome in noncoding regions between genes or within genes (i.e., in introns). Microsatellite DNA is inherently unstable and susceptible to mutation.

misattributed parentage

Refers to the situation in which a person reported to be the biological father or mother of a child is not the biological parent. Factors that may result in misattributed parentage include assisted reproduction (i.e., use of donor sperm, donor egg, or donor embryo), undisclosed adoption, and .

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mismatch repair

The DNA “proofreading” system identifies, excises, and corrects errors in the pairing of the bases during DNA replication. Mutation of the genes encoding mismatch repair proteins can result in susceptibility to some cancers.

missense

Referring to a single base-pair substitution that results in the translation of a different amino acid at that position; can be pathogenic or benign

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mitochondrial inheritance

Synonym: maternal inheritance

Mitochondria – cytoplasmic organelles that produce the energy source ATP for most chemical reactions in the body – contain their distinct genome; pathogenic variants in mitochondrial genes are responsible for several recognized syndromes and are always maternally inherited because mitochondria are transmitted by the ova, not the sperm.

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mode of inheritance

Synonyms: inheritance pattern, the pattern of inheritance

How a particular genetic condition is passed from one generation to the next. Autosomal dominant, , and  are examples.

molecular combing

Technique in which  () probes of known sequence are hybridized to uniformly stretched long fragments of DNA to determine the content of and distance between targeted sequence with high resolution. Used to assess repetitive regions of DNA not amenable to .

molecular genetic testing

A term widely used in clinical genetics encompasses the diverse techniques used to identify the molecular basis of genetic disease. Examples of molecular genetic tests include:  to detect specific pathogenic variants; sequencing of a  to detect pathogenic variants; amplification or hybridization methods (e.g., qPCR, array CGH, MLPA) to detect copy number variants involving one or more genes; -specific techniques to detect  changes that influence gene expression; and  and .

monosomy

The presence of only one  from a pair; partial monosomy refers to the presence of only one copy of a segment of a chromosome

mosaicism

Within a single individual or tissue, the occurrence of two or more cell lines with a different genetic or chromosomal composition. Mosaicism may involve somatic cells,  cells, and/or tumor cells.

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mRNA

Messenger RNA

multifactorial

Referring to the combined contribution of one or more often unspecified genes and environmental factors, often unknown, in the causation of a particular finding

multigene panel

Simultaneous molecular testing of multiple genes associated with the same or similar clinical phenotypes. The genes included in the panel and the diagnostic  of the testing used for each  vary by laboratory and over time. Methods used may include , or other non-sequencing-based tests.

N

next-generation sequencing (NGS)

Synonyms: massively parallel sequencing (MPS), high-throughput sequencing

Referring to several different technologies, all of which allow simultaneous  of millions of DNA fragments. NGS can detect variations as small as a single-base substitution; depending on the methods used, NGS may detect copy number variants (CNVs). NGS is used primarily for multigene panels and genome, , and transcriptome sequencing. NGS may also be used for single- testing (e.g., targeting of a single gene on a multi-gene panel or sequencing of a large multiexon gene). Results from NGS may require confirmation by an alternative sequencing method.

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nonallelic homologous recombination

Synonym: NAHR

The result of a process in which segmental duplications (low copy repeats) flanking a region misalign during meiosis, followed by  between the segmental duplications. The process can produce gametes with the  or reciprocal recurrent .

Related term: 

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noncoding RNA

Functional RNA (transcribed from a ) that is not translated into protein

nonsense

Referring to a variant in which a codon is changed from one that specifies an amino acid to one that specifies a termination (stop)

normal variant

See .

nucleosome

The functional unit of a  consists of the length of DNA and the core of  proteins around which DNA is wrapped. The nucleosome is the building block of the chromosome.

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nucleotide repeat

The sequence of n nucleotides repeated several times in tandem; can occur within or near a . The size of nucleotide repeats varies: smaller numbers of repeats are common and not associated with phenotypic abnormalities; abnormally large numbers of repeats may be associated with phenotypic abnormalities and are classified as (in increasing order): mutable normal alleles, permutations, reduced- alleles, and full-penetrance alleles.

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null

Referring to a  that results in either no , no protein, or a nonfunctional protein

O

obligate heterozygote

An individual who must be  for a variant based on analysis of the family history; applies to disorders inherited in an  or  manner. The term “obligate heterozygote” can also refer to individuals with an  disorder whose position in a  indicates that they must be heterozygous even though they do not manifest the .

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oligogenic

Referring to a  expressed only in the presence of pathogenic variants in more than one ; may be referred to (with less precision) as multigenic or 

Related terms: 

open reading frame

See .

P

pathogenic variant

An alteration in a  (distinct from the reference sequence) that is associated with an abnormal  or increased disease risk. A pathogenic variant meets the criteria to be classified as pathogenic according to the five-tier system for describing the clinical significance of genetic variants (see Related terms).

Related terms: 

PCR

Synonym: 

A procedure that produces millions of copies of a short segment of DNA through repeated cycles of (1) denaturation, (2) annealing, and (3) elongation. PCR is commonly used either: (a) to generate a sufficient quantity of DNA to perform a test (e.g., ); or (b) as a test in and of itself (e.g., -specific amplification,  quantification).

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pedigree

A diagram of the genetic relationships and medical history of a family using standard symbols and terminology

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penetrance

The proportion of individuals with a  causing a particular disorder who exhibit clinical findings of that disorder; most often refers to  conditions.

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phenotype

The observable characteristics of the expression of a ; the clinical presentation of an individual with a particular 

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polygenic

Referring to a condition caused by the additive contributions of variants in multiple genes at different loci

polymerase chain reaction

See .

polymorphism

A natural variation in a , DNA sequence, protein, or  that has no adverse effect on the individual

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post-zygotic

Referring to a  or abnormality in  replication// that occurs after fertilization of the ovum by the sperm, often leading to  (two or more genetically distinct cell lines within the same organism)

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preimplantation genetic diagnosis

See .

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preimplantation genetic testing

Synonyms: PGT, preimplantation testing

Genetic testing of one or more cells removed from early embryos conceived by in vitro fertilization and transferred to the mother’s uterus only those embryos determined not to have the (s)/ anomaly(ies) of concern

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premutation

An  in which a tandemly repeated nucleotide sequence within or near a  contains more repeats than a normal allele. A premutation allele can expand into a  (repeat size associated with disease) when passed through the . Although premutation alleles are not typically associated with disease, in rare instances they are; the best example is premutation FMR1 alleles, which are associated with disease phenotypes distinct from fragile X syndrome (which is caused by full-penetrance FMR1 alleles).

prenatal diagnosis

See .

prenatal testing

Testing was performed during pregnancy. Prenatal testing may be used to determine if a fetus is affected by a particular disorder. Invasive procedures such as chorionic villus sampling (CVS), amniocentesis, or periumbilical blood sampling (PUBS) are used to obtain a sample for testing; imaging (e.g., ultrasound, MRI) is used to evaluate fetal anatomy.

private

Referring to a variant that does not have appreciable  in the general population; a private variant may be benign or pathogenic; historically used to describe a variant thought to occur in a single family

proband

Synonyms: propositus, the index case

The affected individual through whom a family with a genetic disorder is ascertained; may or may not be the individual presenting for 

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promoter region

A region of DNA (just upstream of a ) that acts as a binding site for transcription factors and RNA polymerase to initiate transcription

pseudodominant inheritance

An  condition present in individuals in two or more generations of a family, thereby appearing to follow a dominant inheritance pattern; occurs as a result of reproduction between an affected individual and a  partner

pseudogene

A copy of a  that is transcriptionally or translationally inactive due to the accumulation of  variants. Pseudogenes are classified as either non-processed (includes introns) or processed (does not include introns).

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Q

quantitative PCR

Synonyms: kinetic quantitative PCR, real-time quantitative PCR

A form of  used to determine the relative amount of DNA or RNA in a sample; commonly used to detect  deletions and duplications

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R

recombination

The exchange of a segment of DNA between two homologous chromosomes during meiosis leads to a novel combination of genetic material in the gamete

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recurrence risk

The likelihood that a trait or disorder present in one family member will occur again in other family members in the same or subsequent generations

recurrent deletion

Deletion of a specific size – usually mediated by  (NAHR) – occurs multiple times in the general population

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reduced-penetrance allele

An alteration in a  (distinct from the reference sequence) that is associated with an abnormal  or increased disease risk in some (not all) individuals who have the alteration

revertant mosaicism

Presence of two or more cell lines in one individual that has different genetic compositions – one or more cell lines having a   and the other(s) derived from spontaneous somatic correction of the germline pathogenic variant to the normal () state

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Robertsonian translocation

The joining of two acrocentric chromosomes at the centromeres with the loss of their short arms form a single abnormal ; in acrocentric chromosomes, the centromere is located near the end of the chromosome. Acrocentric chromosomes are 13, 14, 15, 21, and 22.

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S

Sanger sequencing

A method of DNA sequencing that uses DNA polymerase to copy single-stranded DNA templates by adding nucleotides to form a complementary strand. Its use is limited to  of a single region of DNA (maximum ~1000 bp) – in contrast to massively parallel sequencing, in which millions of fragments of DNA can be sequenced simultaneously.

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second-degree relative

A relative who shares one-quarter of an individual’s genes is shared (i.e., grandparent, grandchild, uncle, aunt, nephew, niece, half-sib)

segregation

The separation of the homologous chromosomes and their random distribution to the gametes at meiosis

sensitivity

The frequency with which testing yields a positive result when the individual being tested either (a) is affected (clinical sensitivity) or (b) has a  detected by  (analytic sensitivity)

sequence alteration

Synonym: variant

Any alteration in a  from its natural state; may be benign (may be referred to as a ““), pathogenic, or of 

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sequence analysis

Synonym: sequencing

The process by which the nucleotide sequence for a segment of DNA is determined

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simplex

Referring to a single occurrence of a disorder in a family

single-nucleotide variant

Synonyms: SNV, point mutation

An alteration in DNA sequence caused by a single-nucleotide base change, , or ; can be benign, pathogenic, or of 

sister chromatid exchange

Synonym: SCE

Exchange of genetic material between the two chromatids of a single  during the cell division process; is similar to crossing over (), except that the exchange involves the two sister chromatids of a single chromosome, whereas crossing over refers to the exchange of genetic material between the two homologous chromosomes of a chromosome pair

SNP array

The method used in a given individual to  single-nucleotide polymorphisms (SNPs) across the genome to identify: (1) copy number variants; (2) regions of ; (3) evidence of parental 

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somatic mosaicism

Two or more cell lines with a different genetic composition within the cells of an individual (may or may not include the  cells)

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somatic pathogenic variant

Variant resulting from a mutation that occurs during embryonic development (i.e., that is not inherited from a parent)

Southern blot

Synonyms: Southern analysis, Southern blot analysis

The technique used to detect differences in the lengths of DNA fragments occurring as a result of a variant or  rearrangement

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splice site

The junction between an  and an  in a DNA sequence; is the site of intron/exon . A variant in the splice site can cause abnormal removal of introns and splice together of exons such that one or more introns remaining in the can potentially disrupt the generation of the protein product.

splicing

The process by which introns (non-coding regions) are excised out of the primary messenger RNA transcript and exons (i.e., coding regions) are joined together to generate mature messenger RNA

sporadic

Referring to the chance occurrence of a disorder or abnormality that is not expected to recur in a family

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syndromic

In GeneReviews: refers to a disorder characterized by a constellation of phenotypic features that either: (1) specifically suggest the diagnosis (which can be confirmed by ); or (2) allow diagnosis of the disorder in the absence of confirmatory molecular genetic findings

T

targeted analysis for pathogenic variants

Testing for specific variants known to cause disease. Examples include (1) one or more specific pathogenic variants (e.g., Glu6Val for sickle cell anemia, a panel of pathogenic variants for cystic fibrosis); (2) a  expansion (e.g., the  expansion associated with Huntington disease); and (3) common deletions (e.g., population-specific alpha-globin  deletions).

targeted mutation analysis

See .

trans

Synonym: trans configuration

Referring to two  variants on opposite homologous chromosomes (typically used to describe variants within the same )

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transcription factor

A protein that binds to DNA and either activates or represses transcription of one or more genes

translocation

Synonym:  rearrangement

 alteration in which a whole chromosome or segment of a chromosome becomes attached to or interchanged with another whole chromosome or segment

Balanced translocations (in which there is no apparent net loss or gain of  material) are usually not associated with phenotypic abnormalities, although  disruptions at the breakpoints of the translocation can, in some cases, cause adverse effects, including some known genetic disorders.

Unbalanced translocations (in which there is loss or gain of  material) are nearly always associated with an abnormal .

Balanced and unbalanced translocations can be visualized by  analysis;  (CMA) cannot detect balanced translocations.

transgenic

Referring to the expression of a  that requires the presence of pathogenic variants in three different genes

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trinucleotide repeat

Sequences of three nucleotides repeated several times in tandem within a

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trisomy rescue

The phenomenon in which a fertilized ovum initially contains 47 chromosomes (i.e., one  is trisomic), but loses one of the trisomic chromosomes in the process of cell division such that the resulting daughter cells and their descendants contain 46 chromosomes, the normal number

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U

uncertain significance

A variant of uncertain significance (VOUS, VUS) is an alteration in a  (distinct from the reference sequence) that may or may not be disease-causing or associated with increased risk of an abnormal ; the identification of a variant of uncertain significance neither confirms nor rules out a diagnosis. A variant of uncertain significance does not meet the criteria to be classified as pathogenic or benign according to the five-tier system for describing the clinical significance of genetic variants (see Related terms). Sequence analysis may identify multiple variants of uncertain significance in a given gene or hundreds to thousands in the human .

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unequal crossing over

Exchange of DNA during meiosis between improperly aligned segments of DNA can result in a gain or loss of DNA. Circumstances that predispose to unequal crossing over are misalignment of (1) highly homologous segment duplications (low copy repeats) referred to as which results in recurrent deletions or duplications; and (2) a  and its  in tandem on a  (e.g., CYP21 and its pseudogene CYP21PGBA and its pseudogene GBAP) which result in  pathogenic variants.

See .

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uniparental disomy

Synonym: UPD

The situation in which both copies of a  pair (or chromosome pair segment) are from one parent (i.e., no copy is from the other parent). The individual may have two identical copies of one of the pair of parental chromosomes (termed ) or may have one copy of each of the parental chromosome pair (termed ). Uniparental disomy can result in an abnormal  in some instances.

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uniparental heterodisomy

The situation in which an individual inherits both copies of a  pair (or chromosome pair segment) from one parent; no copy is inherited from the other parent (compare ).

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uniparental isodisomy

The situation in which an individual inherits two identical copies of one of a  pair (or chromosome pair segment) from one parent; no copy is inherited from the other parent (compare ).

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unknown significance

See .

V

variable expressivity

Variation in clinical features (type and severity) of a genetic disorder between affected individuals, even within the same family

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W

whole-exome sequencing

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whole-genome sequencing

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wild-type

Referring to a normal, fully functional  or 

X

X-chromosome inactivation

Synonym: lyonization

In females, the phenomenon by which one X  (either maternally or paternally derived) is randomly inactivated in early embryonic cells, with fixed inactivation in all descendant cells; was first described by the geneticist Mary F Lyon, Ph.D.

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X-linked

Referring to a  on the X  or to the  in which the causative  is on the X chromosome;  males will be affected;  females may or may not be affected depending on the disorder and factors influencing .

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X-linked dominant

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X-linked recessive