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Apply Variants Filters/Family-Based Filtering Workflows/X-Linked Recessive Transmission Workflow

X-Linked Recessive Transmission Workflow

A variant is on the X chromosome
The variant is homozygous (1/1) in an affected female subject
The variant is hemizygous (1) in an affected male subject
The variant is heterozygous (0/1) or not present (0/0) in an unaffected female subject
The variant is not present (0) in an unaffected male subject

Typical X-Linked Recessive Transmission Logic

  1. Unaffected
  2. Unaffected carrier
  3. Affected
  4. Variant

X-Linked Recessive Transmission Workflow

Subject

Include

All variants on X

Include

All homozygous variants (1/1) for a female subject or all hemizygous (1) variants for a male subject

Include [Family Only]

All variants that are homozygous (1/1) or hemizygous (1) in affected subjects

Include [Family Only]

All variants that are heterozygous (0/1) or not present in unaffected subjects

Include [Strict Only]

All variants present in the mother

Subtract [Strict Only, Female Subject]

All variants, if the father is unaffected

Filtering results: Deleterious variants