Bioinformatics Systems, Apparatuses, And Methods Executed On An Integrated Circuit Processing Platform

A structured application-specific integrated circuit (ASIC) for analyzing genetic sequence data from an electronic data source that provides digital signals representing a plurality of reads of genomic data, each of the plurality of reads of genomic data comprising a sequence of nucleotides, and using a memory storing one or more genetic reference sequences associated with genomic data and an index of the one or more genetic reference sequences, the structured ASIC comprising:

• a master slice comprising a plurality of digital logic circuits;
• and
• a plurality of configurable metal layers formed on the master slice, each of the plurality of configurable metal layers having a plurality of wired connections arranged to interconnect a subset of the plurality of digital logic circuits to form a mapping engine and an alignment engine, wherein the mapping engine is configured to access the index of the one or more genetic reference sequences from the memory to map the read to one or more segments of the one or more genetic reference sequences based on the index, and wherein the alignment engine is configured to access the one or more genetic reference sequences from the memory to align the read to one or more positions in the one or more segments of the one or more genetic reference sequences from the mapping engine.

A structured application-specific integrated circuit (ASIC) for analyzing genetic sequence data from an electronic data source that provides digital signals representing a plurality of reads of genomic data, each of the plurality of reads of genomic data comprising a sequence of nucleotides, and using a memory storing one or more genetic reference sequences associated with genomic data and an index of the one or more genetic reference sequences, the structured ASIC comprising:

• a master slice comprising a plurality of digital logic circuits;
• and
• a plurality of configurable metal layers formed on the master slice, each of the plurality of configurable metal layers having a plurality of wired connections arranged to interconnect a first subset of the plurality of digital logic circuits to form a plurality of processing engine comprising a base calling engine, a mapping engine, an alignment engine and a sorting engine.

The structured ASIC according to claim 14 wherein the base calling engine is configured to analyze the genetic sequence data from the electronic data source to determine a most likely nucleotide at each position sequenced by the sequencer, and to estimate a confidence of the most likely nucleotide.