Patents by Inventor Krishna Pant

Krishna Pant 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: 11120369
    Abstract: Techniques, systems, and products for analyzing sparse indicators and sensor data and generating communications are disclosed. The sensors may be associated with or incorporated into devices that may automatically relay sensor data for use in analyses and communication generation.
    Type: Grant
    Filed: July 2, 2020
    Date of Patent: September 14, 2021
    Assignee: COLOR HEALTH, INC.
    Inventors: Ryan Barrett, Nishant Bhat, Huy Hong, Katsuya Noguchi, Wendy McKennon, Krishna Pant, Taylor Sittler, Othman Laraki, Elad Gil
  • Patent number: 10853130
    Abstract: Embodiments in the disclosure are directed to the use of distributed computing to align reads against multiple portions of a reference dataset. Aligned portions of the reference dataset that correspond with an above-threshold alignment score can be assessed for the presence of sparse indicators that can be categorized and used to influence a determination of a state transition likelihood. Various tasks associated with the processing of reads (e.g., alignment, sparse indicator detection, and/or determination of a state transition likelihood) may be able to take advantage of parallel processing and can be distributed among the machines while considering the resource utilization of those machines. Different load-balancing mechanisms can be employed in order to achieve even resource utilization across the machines, and in some cases may involve assessing various processing characteristics that reflect a predicted resource expenditure and/or time profile for each task to be processed by a machine.
    Type: Grant
    Filed: September 19, 2017
    Date of Patent: December 1, 2020
    Assignee: Color Genomics, Inc.
    Inventors: Ryan Barrett, Taylor Sittler, Krishna Pant, Zhenghua Li, Katsuya Noguchi, Nishant Bhat, Othman Laraki, Jeroen Van den Akker, Kurt Smith
  • Publication number: 20200334497
    Abstract: Techniques, systems, and products for analyzing sparse indicators and sensor data and generating communications are disclosed. The sensors may be associated with or incorporated into devices that may automatically relay sensor data for use in analyses and communication generation.
    Type: Application
    Filed: July 2, 2020
    Publication date: October 22, 2020
    Applicant: Color Genomics, Inc.
    Inventors: Ryan Barrett, Nishant Bhat, Huy Hong, Katsuya Noguchi, Wendy McKennon, Krishna Pant, Taylor Sittler, Othman Laraki, Elad Gil
  • Patent number: 10733476
    Abstract: Techniques, systems, and products for analyzing sparse indicators and sensor data and generating communications are disclosed. The sensors may be associated with or incorporated into devices that may automatically relay sensor data for use in analyses and communication generation.
    Type: Grant
    Filed: August 22, 2017
    Date of Patent: August 4, 2020
    Assignee: Color Genomics, Inc.
    Inventors: Ryan Barrett, Nishant Bhat, Huy Hong, Katsuya Noguchi, Wendy McKennon, Krishna Pant, Taylor Sittler, Othman Laraki, Elad Gil
  • Patent number: 9811552
    Abstract: Techniques, systems, and products for analyzing sparse indicators and generating communications based on bucketing of sparse indicators are disclosed.
    Type: Grant
    Filed: April 19, 2016
    Date of Patent: November 7, 2017
    Assignee: COLOR GENOMICS, INC.
    Inventors: Katsuya Noguchi, Krishna Pant, Ryan Barrett, Elad Gil, Othman Laraki
  • Patent number: 9811391
    Abstract: Embodiments in the disclosure are directed to the use of distributed computing to align reads against multiple portions of a reference dataset. Aligned portions of the reference dataset that correspond with an above-threshold alignment score can be assessed for the presence of sparse indicators that can be categorized and used to influence a determination of a state transition likelihood. Various tasks associated with the processing of reads (e.g., alignment, sparse indicator detection, and/or determination of a state transition likelihood) may be able to take advantage of parallel processing and can be distributed among the machines while considering the resource utilization of those machines. Different load-balancing mechanisms can be employed in order to achieve even resource utilization across the machines, and in some cases may involve assessing various processing characteristics that reflect a predicted resource expenditure and/or time profile for each task to be processed by a machine.
    Type: Grant
    Filed: March 3, 2017
    Date of Patent: November 7, 2017
    Assignee: COLOR GENOMICS, INC.
    Inventors: Ryan Barrett, Taylor Sittler, Krishna Pant, Zhenghua Li
  • Patent number: 9813467
    Abstract: Techniques are disclosed for processing and aligning incomplete data. A stream of data is received from a data source including a plurality of reads. While receiving the stream of data and prior to having received all of the plurality of reads, a set of reads is extracted from the plurality of reads. Each of the set of reads is aligned to a corresponding portion of a reference data set. For each particular position of a plurality of particular positions of the reference data set, a subset of reads of the aligned set of reads is identified. A value of a client data set is generated based on the subset of reads. A variable is generated based on the client data set. Data is routed when a condition, based on the variable, is satisfied.
    Type: Grant
    Filed: March 7, 2017
    Date of Patent: November 7, 2017
    Assignee: COLOR GENOMICS, INC.
    Inventors: Ryan Barrett, Taylor Sittler, Krishna Pant, Zhenghua Li, Katsuya Noguchi, Nishant Bhat
  • Patent number: 9811439
    Abstract: Techniques for using functional testing to detect run-time impacts of code modifications. A method includes accessing a workflow including a plurality of stages for processing reads. The stages are defined based on modifiable code and include a first stage for aligning reads with a corresponding portion of a reference data set and a second stage for collectively analyzing data corresponding to the aligned reads. The method includes identifying functional testing specifications to correspond with the workflow, including a definition of which stages are to be performed during functional testing, a reduced reference data set, and a set of reads. The method includes performing the functional testing using the reduced reference data set and the set of reads, detecting a result generated via the performance, and outputting the result.
    Type: Grant
    Filed: April 17, 2017
    Date of Patent: November 7, 2017
    Assignee: COLOR GENOMICS, INC.
    Inventors: Ryan Barrett, Krishna Pant
  • Patent number: 9773031
    Abstract: Techniques for accurately identifying duplications and deletions using depth vectors. A depth vector is generated for each of multiple clients based on a set of reads that is received and aligned to a reference data set. A transformation processing of the depth vectors is performed to produce multiple components. Each of the components is assigned an order based on the extent to which it accounts for cross-client differences in the depth vectors. Each of the components includes an intensity, multiple values, and multiple client weights. A subset of the components is identified based on the order. A sparse indicator and positional data for the sparse indicator can be determined from the components in the subset, and one or more clients can be identified as being associated with the components.
    Type: Grant
    Filed: April 17, 2017
    Date of Patent: September 26, 2017
    Assignee: COLOR GENOMICS, INC.
    Inventors: Krishna Pant, Taylor Sittler, Ryan Barrett
  • Publication number: 20160117444
    Abstract: Methods for interpreting absolute copy number of complex tumors and for determining the copy number of a genomic region at a detection position of a target sequence in a sample are disclosed. In certain aspects, genomic regions of a target sequence in a sample are sequenced and measurement data for sequence coverage is obtained. Sequence coverage bias is corrected and may be normalized against a baseline sample. Hidden Markov Model (HMM) segmentation, scoring, and output are performed, and in some embodiments population-based no-calling and identification of low-confidence regions may also be performed. A total copy number value and region-specific copy number value for a plurality of regions are then estimated.
    Type: Application
    Filed: December 7, 2015
    Publication date: April 28, 2016
    Inventors: Aaron Halpern, Krishna Pant
  • Publication number: 20140229117
    Abstract: Methods for determining the copy number of a genomic region at a detection position of a target sequence in a sample are disclosed. Genomic regions of a target sequence in a sample are sequenced and measurement data for sequence coverage is obtained. Sequence coverage bias is corrected and may be normalized against a baseline sample. Hidden Markov Model (HMM) segmentation, scoring, and output are performed, and in some embodiments population-based no-calling and identification of low-confidence regions may also be performed. A total copy number value and region-specific copy number value for a plurality of regions are then estimated.
    Type: Application
    Filed: April 15, 2014
    Publication date: August 14, 2014
    Applicant: COMPLETE GENOMICS, INC.
    Inventors: Aaron Halpern, Krishna Pant
  • Patent number: 8725422
    Abstract: Methods for determining the copy number of a genomic region at a detection position of a target sequence in a sample are disclosed. Genomic regions of a target sequence in a sample are sequenced and measurement data for sequence coverage is obtained. Sequence coverage bias is corrected and may be normalized against a baseline sample. Hidden Markov Model (HMM) segmentation, scoring, and output are performed, and in some embodiments population-based no-calling and identification of low-confidence regions may also be performed. A total copy number value and region-specific copy number value for a plurality of regions are then estimated.
    Type: Grant
    Filed: October 11, 2011
    Date of Patent: May 13, 2014
    Assignee: Complete Genomics, Inc.
    Inventors: Aaron Halpern, Krishna Pant
  • Publication number: 20130316915
    Abstract: Methods for interpreting absolute copy number of complex tumors and for determining the copy number of a genomic region at a detection position of a target sequence in a sample are disclosed. In certain aspects, genomic regions of a target sequence in a sample are sequenced and measurement data for sequence coverage is obtained. Sequence coverage bias is corrected and may be normalized against a baseline sample. Hidden Markov Model (HMM) segmentation, scoring, and output are performed, and in some embodiments population-based no-calling and identification of low-confidence regions may also be performed. A total copy number value and region-specific copy number value for a plurality of regions are then estimated.
    Type: Application
    Filed: May 6, 2013
    Publication date: November 28, 2013
    Inventors: Aaron HALPERN, Krishna Pant
  • Publication number: 20130110407
    Abstract: After DNA fragments are sequenced and mapped to a reference, various hypotheses for the sequences in a variant region can be scored to find which sequence hypotheses are more likely. A hypothesis can include a specific variable fraction for the plurality of alleles that comprise the sequence hypothesis in the region. A likelihood of each hypothesis can be determined using a probability that accounts for the fraction of the alleles specified in the respective sequence hypothesis. Thus, other hypotheses besides standard homozygous and equal heterozygous (i.e., one chromosome with A and one with B in a cell) can be explored by explicitly including the variable fractions of the alleles as a parameter in the optimization. Also, a variant score can be determined for a variant relative to a reference. The variant score can be used to determine a variant calibrated score indicating a likelihood that the variant call is correct.
    Type: Application
    Filed: September 17, 2012
    Publication date: May 2, 2013
    Applicant: Complete Genomics, Inc.
    Inventors: Jonathan Baccash, Aaron Halpern, Chao Tian, Krishna Pant, Paolo Carnevali
  • Publication number: 20120095697
    Abstract: Methods for determining the copy number of a genomic region at a detection position of a target sequence in a sample are disclosed. Genomic regions of a target sequence in a sample are sequenced and measurement data for sequence coverage is obtained. Sequence coverage bias is corrected and may be normalized against a baseline sample. Hidden Markov Model (HMM) segmentation, scoring, and output are performed, and in some embodiments population-based no-calling and identification of low-confidence regions may also be performed. A total copy number value and region-specific copy number value for a plurality of regions are then estimated.
    Type: Application
    Filed: October 11, 2011
    Publication date: April 19, 2012
    Inventors: Aaron Halpern, Krishna Pant
  • Publication number: 20070148664
    Abstract: The invention provides a collection of polymorphic sites associated with variations in human skin color, and genes containing or proximal to the sites.
    Type: Application
    Filed: September 1, 2006
    Publication date: June 28, 2007
    Applicants: Perlegen Sciences, Inc.
    Inventors: Krishna Pant, Renee Stokowski, David Cox, Martin Green, Franciscus Van Der Ouderaa, Rebecca Ginger, Amelia Fereday, Wendy Filsell, Carl Jarman, Anthony Dadd
  • Publication number: 20070092889
    Abstract: Compositions and methods for use in the therapeutic and preventative treatment, study, diagnosis and prognosis of PD-related disease are disclosed. Also provided are kits and reagents for prognosis and diagnosis of PD-related disease and related conditions.
    Type: Application
    Filed: June 2, 2006
    Publication date: April 26, 2007
    Applicant: Perlegen Sciences, Inc.
    Inventors: David Cox, Demetrius Maraganore, Dennis Ballinger, Krishna Pant, Timothy Lesnick
  • Publication number: 20050003410
    Abstract: The invention provides methods of analyzing genes for differential relative allelic expression patterns. Haplotype blocks throughout the genomes of individuals are analyzed to identify haplotype patterns that are associated with specific differential relative allelic expression patterns. Haplotype blocks that contain associated haplotype patterns may be further investigated to identify genes or variants of genes involved in differential relative allelic expression patterns.
    Type: Application
    Filed: May 12, 2004
    Publication date: January 6, 2005
    Applicant: Perlegen Sciences, Inc.
    Inventors: Kelly Frazer, David Cox, Heng Tao, Krishna Pant, Geoffrey Nilson
  • Publication number: 20040229224
    Abstract: The invention provides methods of analyzing genes for differential relative allelic expression patterns. Haplotype blocks throughout the genomes of individuals are analyzed to identify haplotype patterns that are associated with specific differential relative allelic expression patterns. Haplotype blocks that contain associated haplotype patterns may be further investigated to identify genes or variants of genes involved in differential relative allelic expression patterns.
    Type: Application
    Filed: May 13, 2003
    Publication date: November 18, 2004
    Applicant: Perlegen Sciences, Inc.
    Inventors: Kelly A. Frazer, David R. Cox, Heng Tao, Krishna Pant, Geoffrey Nilsen