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A condition caused by a 520 kb deletion at 16p12.1. It is characterized by developmental delay, craniofacial dysmorphology and congenital heart defects.
Features include always present findings: Delayed speech and language development and Global developmental delay; and very common findings: Abnormal facial shape. 9 total HPO annotations.
Organ System | Phenotype Count | Example Features |
|---|---|---|
Brain and nerves | 4 | Atypical behavior, Delayed speech and language development, Seizure |
No consensus clinical diagnostic criteria for 16p12.2 recurrent deletion have been published.
The 16p12.2 recurrent deletion should be considered in probands with the following clinical and brain imaging findings and family history.
Clinical findings
Developmental delay often including speech delay
No approved treatments are currently available for chromosome 16p12.1 deletion syndrome, 520kb. The disease remains an area of unmet medical need.
No clinical practice guidelines for 16p12.2 recurrent deletion have been published. In the absence of published guidelines, the following recommendations are based on the authors' personal experience managing individuals with this disorder.
To establish the extent of disease and needs of an individual diagnosed with 16p12.2 recurrent deletion, the evaluations summarized (if not performed as part of the evaluation that led to diagnosis) are recommended.
To monitor existing manifestations, the individual's response to supportive care, and the emergence of new manifestations, the evaluations summarized in are recommended. Table 5. 16p12.2 Recurrent Deletion: Recommended Surveillance
Data assembled from 4 of 12 sources · Last updated Sep 20, 2026, 5:39 PM UTC
Online Mendelian Inheritance in Man
Head and neck
2 |
Microcephaly, Abnormal facial shape |
Muscles | 1 | Low muscle tone (hypotonia) |
Heart and blood vessels | 1 | Hypoplastic left heart |
Growth and development | 1 | Growth delay |
The clinical features reported in individuals with 16p12.2 recurrent deletion include developmental delay, intellectual disability, and neurobehavioral/psychiatric manifestations. Some individuals have epilepsy, microcephaly, growth deficiency, congenital heart defects, and hearing loss . One study included 23 unrelated probands with 16p12.2 recurrent deletion from a postnatal clinical genetic testing cohort . A second study analyzed 141 children with 16p12.2 deletion (median age: 7 years) referred for clinical genetic testing . A third analyzed 124 probands with 16p12.2 recurrent deletion referred for clinical genetic testing and their family members , including individuals reported by . Because of the nature of these cohorts, the frequency of reported features likely reflects an ascertainment bias. Studies of adults with 16p12.2 recurrent deletion in which participants were not ascertained for developmental delays report different phenotypes (e.g., schizophrenia , impaired cognition , autism , epilepsy , and obesity-related features ). Table 2. 16p12.2 Recurrent Deletion: Frequency of Select Features
Feature | % of Persons w/Feature1 | Comments |
|---|---|---|
psychiatric manifestations | Speech delay | 82% |
Global developmental delay | 81% | Mild to profound |
Learning disability | 70% | — |
Intellectual disability | 69% | Mild to profound; cognitive development can be normal |
Expressive language disorder | 65% | — |
Motor delay | 65% | — |
Trouble concentrating | 56% | — |
Autism spectrum disorder | 44% | — |
Sleep disturbance | 41% | — |
Aggression | 39% | — |
ADHD | 38% | — |
Anxiety | 33% | — |
Neurologic | Hypotonia | 39% |
Lack of coordination | 37% | — |
Abnormal gait | 29% | — |
Muscle weakness | 28% | — |
Excessive drooling | 23% | — |
Seizures | 20% | — |
Gastrointestinal | Constipation | 36% |
Feeding difficulty | 31% | — |
Gastroesophageal reflux | 22% | — |
Growth | Microcephaly | 26% |
Growth deficiency | 24% | — |
Other | Pes planus | 29% |
Dental issues | 29% | — |
Dry skin or psoriasis | 23% | — |
Frequent infection | 22% | — |
Undescended testes | 17% | — |
Obesity | 14% | ADHD = attention-deficit/hyperactivity disorder Based on , , 1. Developmental delay can range from mild to profound . Speech delay is common, and some individuals remain nonverbal into childhood and adolescence. Motor milestones can also be delayed and many individuals have global delays. |
Source: GeneReviews — "16p12.2 Recurrent Deletion"
Neurobehavioral and psychiatric manifestations (autism, sleep disturbance, bipolar disorder, depression, and schizophrenia)
Epilepsy
Gastrointestinal manifestations (constipation, feeding difficulty, gastroesophageal reflux)
Microcephaly and growth deficiency
Dental issues
Source: GeneReviews — "16p12.2 Recurrent Deletion"
The differential diagnosis of 16p12.2 recurrent deletion comprises an extensive and broad spectrum of disorders and includes any cause of developmental delay, learning problems, and neurobehavioral/psychiatric manifestations (e.g., autism spectrum disorder, aggression, anxiety, and/or sleep disturbances) without additional distinguishing clinical features. All chromosome anomalies and genes known to be associated with intellectual disability (see OMIM Autosomal Dominant, Autosomal Recessive, Nonsyndromic X-Linked, and Syndromic X-Linked Intellectual Developmental Disorder Phenotypic Series) should be included in the differential diagnosis of 16p12.2 recurrent deletion.
Source: GeneReviews — "16p12.2 Recurrent Deletion"
Table 3.
16p12.2 Recurrent Deletion: Recommended Evaluations Following Initial Diagnosis
System/Concern | Evaluation | Comment
| Developmental assessment | • To incl motor, adaptive, cognitive, speech-language eval
Eval for early intervention/ special education
| Orthopedics/ physical medicine rehab/ PT OT eval | To incl assessment of:
Gross motor fine motor skills
Clubfoot
Mobility, ADL, need for adaptive devices
Need for PT (to improve gross motor skills) /or OT (to improve fine motor skills)
Neurobehavioral/
| Neuropsychiatric eval | • For persons age 12 mos: screening for concerns incl sleep disturbances, ADHD, anxiety, other psychiatric manifestations, /or findings suggestive of ASD
Note: Family history of psychiatric neurodevelopmental disease should be interrogated to assess prognosis in persons w/16p12.2 recurrent deletion, as those w/strong family history of these manifestations are at risk for a more severe phenotype .
| Neurologic eval | Consid...
Source: GeneReviews — "16p12.2 Recurrent Deletion"
View trials for chromosome 16p12.1 deletion syndrome, 520kb
Evaluation |
|---|
Frequency |
|---|
Development | Monitor developmental progress educational needs. | At each visit Developmental assessment |
Cardiovascular | Surveillance per cardiologist | As needed Growth/ Nutrition |
Genitourinary | Surveillance per urologist/nephrologist | As needed |
Hearing | Audiology eval | Annually or as needed |
Dental | Dental exam | Every 6 mos Orthodontics eval |
Family/Community | Assess family need for social work support (e.g., palliative/respite care, home nursing, other local resources), care coordination, or follow-up genetic counseling if new questions arise (e.g., family planning). | At each visit ADHD = attention-deficit/hyperactivity disorder; ASD = autism spectrum disorder; OT = occupational therapy; PT = physical therapy |
Source: GeneReviews — "16p12.2 Recurrent Deletion"
Phenotype severity distribution: 2 always present features, 1 very common feature, 5 common features.