Diagnosis and treatment for cardiac conditions based on sequencing data for lpagene

A non-transitory computer readable medium embodying programmed instructions which, when executed by a processor, are operable for performing a method for selecting a patient for intervention relating to genetically predicted lipoprotein (a) (“Lp(a)”) levels, the method comprising:

• obtaining or having obtained a biological sample from the patient;
• performing or having performed sequencing on the biological sample, comprising:
• acquiring reads for the patient;
• and
• masking at least one portion of a gene LPA at a reference genome to facilitate alignment of the reads to a reference genome;
• determining a pseudocount of copy number within the gene LPA at a genome of the patient;
• in an event that the pseudocount is not an expected amount, selecting the patient for the intervention;
• and
• in an event that the pseudocount is an expected amount, omitting selection of the patient for the intervention.

A system for selecting a patient for intervention relating to genetically predicted lipoprotein (a) (“Lp(a)”) levels, the system comprising:

• a genomics server, comprising:
• an interface configured to acquire reads for a patient;
• and
• a controller configured to acquire reads for the patient, and mask at least one portion of a gene LPA at a reference genome to facilitate alignment of the reads to a reference genome,
• the controller further configured to determine a pseudocount of copy number within the gene LPA at a genome of the patient;
• and
• in an event that the pseudocount is not an expected amount, the controller is configured to select the patient for the intervention;
• and
• in an event that the pseudocount is an expected amount, the controller is configured to omit selection of the patient for the intervention.