David D Newsom

US Patent:

20130311106, Nov 21, 2013

Filed:

Mar 15, 2013

Appl. No.:

13/838677

Inventors:

David Lawrence Newsom - Dublin OH, US
Yangqiu Hu - Lewis Center OH, US

Assignee:

The Research Institute at Nationwide Children's Hospital - Columbus OH

International Classification:

G06F 19/20
G06F 19/16
G06F 19/18

US Classification:

702 20

Abstract:

Systems and methods for analyzing genetic sequence data involve: (a) obtaining, by a computer system, genetic sequencing data pertaining to a subject; (b) splitting the genetic sequencing data into a plurality of segments; (c) processing the genetic sequencing data such that intra-segment reads, read pairs with both mates mapped to the same data set, are saved to a respective plurality of individual binary alignment map (BAM) files corresponding to that respective segment; (d) processing the genetic sequencing data such that inter-segment reads, read pairs with both mates mapped to different segments, are saved into at least a second BAM file; and (e) processing at least the first plurality of BAM files along parallel processing paths. The plurality of segments may correspond to any given number of genomic subregions and may be selected based upon the number of processing cores used in the parallel processing.

US Patent:

20170220732, Aug 3, 2017

Filed:

Jan 23, 2017

Appl. No.:

15/412503

Inventors:

- COLUMBUS OH, US
David Lawrence NEWSOM - Dublin OH, US

International Classification:

G06F 19/20
C12Q 1/68
G06F 19/22
G06F 19/28

Abstract:

Systems and methods for analyzing genetic sequence data involve: (a) obtaining, by a computer system, genetic sequencing data pertaining to a subject; (b) splitting the genetic sequencing data into a plurality of segments; (c) processing the genetic sequencing data such that intra-segment reads, read pairs with both mates mapped to the same data set, are saved to a respective plurality of individual binary alignment map (BAM) files corresponding to that respective segment; (d) processing the genetic sequencing data such that inter-segment reads, read pairs with both mates mapped to different segments, are saved into at least a second BAM file; and (e) processing at least the first plurality of BAM files along parallel processing paths. The plurality of segments may correspond to any given number of genomic subregions and may be selected based upon the number of processing cores used in the parallel processing.