Patents by Inventor Jake Kelly Byrnes
Jake Kelly Byrnes has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).
-
Patent number: 11335435Abstract: Identification of inheritance-by-descent haplotype matches between individuals is described. A set of tables including word match, haplotypes and segment match tables are populated. DNA samples are received and stored. A word identification module extracts haplotype values from each sample. The word match table is indexed according to the unique combination of position and haplotype. Each column represents a different sample, and each cell indicates whether that sample includes that haplotype at that position. The haplotypes table includes the raw haplotype data for each sample. The segment match table is indexed by sample identifier, and columns represent other samples. Each cell is populated to indicate for each identified sample pair which position range(s) include matching haplotypes for both samples. The tables are persistently stored in databases of the matching system. As new sample data is received, each table is updated to include the newly received samples, and additional matching takes place.Type: GrantFiled: October 4, 2018Date of Patent: May 17, 2022Assignee: Ancestry.com DNA, LLCInventors: Jake Kelly Byrnes, Aaron Ling, Keith D. Noto, Jeremy Pollack, Catherine Ann Ball, Kenneth Gregory Chahine
-
Publication number: 20220076782Abstract: Disclosed are techniques for characterizing variants of interest and predicting assignments of individuals to communities based on obtained genetic information. To characterize a variant, DNA datasets of reference individuals are accessed and used to generate a cluster with additional individuals. Reference individuals carry a variant at a genetic locus and the additional individuals share IBD with reference individuals. Statistics of genealogical data of the cluster are generated. A result summarizing the characterization of the variant is generated based on the statistics. To determine if an individual belongs to a community, a subset of the individual's haplotypes are inputted into a community-specific model. The model is trained using the training samples that each include haplotypes of reference individuals and a label identifying whether the reference individual belongs to the community. Based on the output of the model, it is determined whether the individual is a member of the community.Type: ApplicationFiled: November 19, 2021Publication date: March 10, 2022Inventors: Jake Kelly Byrnes, Julie M. Granka, Shannon Hateley, Ladan Doroud
-
Patent number: 11238957Abstract: Disclosed are techniques for characterizing variants of interest and predicting assignments of individuals to communities based on obtained genetic information. To characterize a variant, DNA datasets of reference individuals are accessed and used to generate a cluster with additional individuals. Reference individuals carry a variant at a genetic locus and the additional individuals share IBD with reference individuals. Statistics of genealogical data of the cluster are generated. A result summarizing the characterization of the variant is generated based on the statistics. To determine if an individual belongs to a community, a subset of the individual's haplotypes are inputted into a community-specific model. The model is trained using the training samples that each include haplotypes of reference individuals and a label identifying whether the reference individual belongs to the community. Based on the output of the model, it is determined whether the individual is a member of the community.Type: GrantFiled: April 4, 2019Date of Patent: February 1, 2022Assignee: Ancestry.com DNA, LLCInventors: Jake Kelly Byrnes, Julie M. Granka, Shannon Hateley, Ladan Doroud
-
Publication number: 20210057041Abstract: Disclosed are techniques for characterizing variants of interest and predicting assignments of individuals to communities based on obtained genetic information. To characterize a variant, DNA datasets of reference individuals are accessed and used to generate a cluster with additional individuals. Reference individuals carry a variant at a genetic locus and the additional individuals share IBD with reference individuals. Statistics of genealogical data of the cluster are generated. A result summarizing the characterization of the variant is generated based on the statistics. To determine if an individual belongs to a community, a subset of the individuals haplotypes are inputted into a community-specific model. The model is trained using the training samples that each include haplotypes of reference individuals and a label identifying whether the reference individual belongs to the community. Based on the output of the model, it is determined whether the individual is a member of the community.Type: ApplicationFiled: April 4, 2019Publication date: February 25, 2021Inventors: Jake Kelly BYRNES, Julie M. GRANKA, Shannon HATELEY, Ladan DOROUD
-
Publication number: 20200082905Abstract: An input genotype is divided into a plurality of windows, each including a sequence of SNPs. For each window, a diploid HMM is computed based on genotypes and/or phased haplotypes to determine a probability of a haplotype sequence being associated with a particular label. For example, the diploid HMM for a window is used to determine the emission probability that the window corresponds to a set of labels. An inter-window HMM, with a set of states for each window, is computed. Labels are assigned to the input genotype based on the inter-window HMM. Upper and lower bounds are estimated to produce a range of likely percentage values an input can be assigned to a given label. Confidence values are determined indicating a likelihood that an individual inherits DNA from a certain population. Maps are generated with polygons representing regions where a measure of ethnicity of population falls within specific ranges.Type: ApplicationFiled: September 11, 2019Publication date: March 12, 2020Inventors: Shiya Song, David Andrew Turissini, Yong Wang, Jake Kelly Byrnes
-
Publication number: 20190139624Abstract: Identification of inheritance-by-descent haplotype matches between individuals is described. A set of tables including word match, haplotypes and segment match tables are populated. DNA samples are received and stored. A word identification module extracts haplotype values from each sample. The word match table is indexed according to the unique combination of position and haplotype. Each column represents a different sample, and each cell indicates whether that sample includes that haplotype at that position. The haplotypes table includes the raw haplotype data for each sample. The segment match table is indexed by sample identifier, and columns represent other samples. Each cell is populated to indicate for each identified sample pair which position range(s) include matching haplotypes for both samples. The tables are persistently stored in databases of the matching system. As new sample data is received, each table is updated to include the newly received samples, and additional matching takes place.Type: ApplicationFiled: October 4, 2018Publication date: May 9, 2019Inventors: Jake Kelly Byrnes, Aaron Ling, Keith D. Noto, Jeremy Pollack, Catherine Ann Ball, Kenneth Gregory Chahine
-
Patent number: 10114922Abstract: Identification of inheritance-by-descent haplotype matches between individuals is described. A set of tables including word match, haplotypes and segment match tables are populated. DNA samples are received and stored. A word identification module extracts haplotype values from each sample. The word match table is indexed according to the unique combination of position and haplotype. Each column represents a different sample, and each cell indicates whether that sample includes that haplotype at that position. The haplotypes table includes the raw haplotype data for each sample. The segment match table is indexed by sample identifier, and columns represent other samples. Each cell is populated to indicate for each identified sample pair which position range(s) include matching haplotypes for both samples. The tables are persistently stored in databases of the matching system. As new sample data is received, each table is updated to include the newly received samples, and additional matching takes place.Type: GrantFiled: September 17, 2013Date of Patent: October 30, 2018Assignee: Ancestry.com DNA, LLCInventors: Jake Kelly Byrnes, Aaron Ling, Keith D. Noto, Jeremy Pollack, Catherine Ann Ball, Kenneth Gregory Chahine
-
Publication number: 20160026755Abstract: Identification of inheritance-by-descent haplotype matches between individuals is described. A set of tables including word match, haplotypes and segment match tables are populated. DNA samples are received and stored. A word identification module extracts haplotype values from each sample. The word match table is indexed according to the unique combination of position and haplotype. Each column represents a different sample, and each cell indicates whether that sample includes that haplotype at that position. The haplotypes table includes the raw haplotype data for each sample. The segment match table is indexed by sample identifier, and columns represent other samples. Each cell is populated to indicate for each identified sample pair which position range(s) include matching haplotypes for both samples. The tables are persistently stored in databases of the matching system. As new sample data is received, each table is updated to include the newly received samples, and additional matching takes place.Type: ApplicationFiled: September 17, 2013Publication date: January 28, 2016Applicant: Ancestry.com DNA, LLCInventors: Jake Kelly Byrnes, Aaron Ling, Keith D. Noto, Jeremy Pollack, Catherine Ann Ball, Kenneth Gregory Chahine
-
Publication number: 20140067355Abstract: Phased haplotype features are used to infer an individual's ancestry. Reference genomic data is obtained for individuals of known ancestral origin. Haplotype features are identified based on consecutive SNPs from each individual. Sample genomic data is obtained for an individual of unknown ancestral origin. The data is phased and divided into features analogous to the features in the reference data. An admixture estimator then performs an admixture estimation based on the observed feature values in the sample data and the reference data. The estimation indicates a contribution of each of the known populations to the genome of the sample individual.Type: ApplicationFiled: September 6, 2013Publication date: March 6, 2014Applicant: Ancestry.com DNA, LLCInventors: Keith D. Noto, Jake Kelly Byrnes, Catherine Ann Ball, Kenneth Gregory Chahine