Data based cancer research and treatment systems and methods

A system for conducting genomic sequencing, comprising:

• a computer including a processing device, the processing device configured to:
• store a set of user application programs wherein each of the programs requires an application specific subset of data to perform application processes and generates a respective genomic variant characterization;
• and
• for each of a plurality of subjects that have cancerous cells and that receive cancer treatment:
• a. obtain clinical records data in original forms where the clinical records data includes cancer state information, treatment types and treatment efficacy information;
• b. for each subject, use a next generation genomic sequencer to generate genomic sequencing data for the subject's cancerous cells and normal cells;
• c. shape at least a subset of the genomic sequencing data to generate system structured data;
• d. store the system structured data in a first database;
• and
• e. for each user application program;
• i. select the application specific subset of data from the first database;
• ii. store the application specific subset of data in a structure optimized for application program interfacing in a second database;
• iii. receive the respective genomic variant characterization from the user application program for each subject of the respective plurality of subjects;
• and
• iv. store the respective genomic variant characterization received from the user application program for each subject of the respective plurality of subjects in a third database.

A non-transitory computer-readable storage medium having stored thereon program code instructions that, when executed by a processor, cause the processor to:

• store a set of user application programs wherein each of the programs requires an application specific subset of data to perform application processes and generates a respective genomic variant characterization;
• and
• for each of a plurality of subjects that have cancerous cells and that receive cancer treatment:
• a. obtain clinical records data in original forms where the clinical records data includes cancer state information, treatment types and treatment efficacy information;
• b. for each subject, use a next generation genomic sequencer to generate genomic sequencing data for the subject's cancerous cells and normal cells;
• c. shape at least a subset of the genomic sequencing data to generate system structured data;
• d. store the system structured data in a first database;
• and
• e. for each user application program;
• i. select the application specific subset of data from the first database;
• ii. store the application specific subset of data in a structure optimized for application program interfacing in a second database;
• iii. receive the respective genomic variant characterization from the user application program for each subject of the respective plurality of subjects;
• and
• iv. store the respective genomic variant characterization received from the user application program for each subject of the respective plurality of subjects in a third database.