Suppose that a patient is diagnosed with a new disease caused by the build up of waste material in the bodys cells which organelle is most likely malfunctioning in the patients cells

The Vacuole. It is the vacuole that isolates and exports both unwanted material and waste from the cell (when possible). 

The gens present in the dna in the nucleus of the cell in the body

Mitochondria is the cell organelle that produced the energy that is needed in the body system in form of atp, that is why it is called the power house of the cell. energy is needed by the living organisms to carry out the activities which sustain life.  if the mitochondria is destroyed atp will not be produced. if the mitochondria is destroyed, energy production will stop and the affected living organism will not have the energy to carry out the necessary life processes; this will lead to the death of the organism.