154 patents
Page 2 of 8
Utility
Compositions and methods for identifying nucleic acid molecules
20 Dec 22
The present disclosure provides methods and compositions for sequencing nucleic acid molecules and identifying individual sample nucleic acid molecules using Molecular Index Tags (MITs).
Bernhard Zimmermann, Ryan Swenerton, Matthew Rabinowitz, Styrmir Sigurjonsson, George Gemelos, Apratim Ganguly, Himanshu Sethi
Filed: 21 May 19
Utility
Detecting mutations and ploidy in chromosomal segments
20 Dec 22
The invention provides methods, systems, and computer readable medium for detecting ploidy of chromosome segments or entire chromosomes, for detecting single nucleotide variants and for detecting both ploidy of chromosome segments and single nucleotide variants.
Joshua Babiarz, Tudor Pompiliu Constantin, Lane A. Eubank, George Gemelos, Matthew Micah Hill, Huseyin Eser Kirkizlar, Matthew Rabinowitz, Onur Sakarya, Styrmir Sigurjonsson, Bernhard Zimmermann
Filed: 6 May 22
Utility
Methods for detection of donor-derived cell-free DNA
13 Dec 22
The present disclosure provides methods for determining the status of an allograft within a transplant recipient from genotypic data measured from a mixed sample of DNA comprising DNA from both the transplant recipient and from the donor.
Solomon Moshkevich, Bernhard Zimmermann, Tudor Pompiliu Constantin, Huseyin Eser Kirkizlar, Allison Ryan, Styrmir Sigurjonsson, Felipe Acosta Archila, Ryan Swenerton
Filed: 2 Feb 21
Utility
Methods for simultaneous amplification of target loci
13 Dec 22
The invention provides methods for simultaneously amplifying multiple nucleic acid regions of interest in one reaction volume as well as methods for selecting a library of primers for use in such amplification methods.
Matthew Rabinowitz, Matthew Micah Hill, Bernhard Zimmermann, Johan Baner, George Gemelos, Milena Banjevic, Allison Ryan, Styrmir Sigurjonsson, Zachary Demko
Filed: 25 Mar 20
Utility
Compositions and methods for identifying nucleic acid molecules
6 Dec 22
The present disclosure provides methods and compositions for sequencing nucleic acid molecules and identifying individual sample nucleic acid molecules using Molecular Index Tags (MITs).
Bernhard Zimmermann, Ryan Swenerton, Matthew Rabinowitz, Styrmir Sigurjonsson, George Gemelos, Apratim Ganguly, Himanshu Sethi
Filed: 5 Oct 21
Utility
Methods for simultaneous amplification of target loci
6 Dec 22
The invention provides methods for simultaneously amplifying multiple nucleic acid regions of interest in one reaction volume as well as methods for selecting a library of primers for use in such amplification methods.
Matthew Rabinowitz, Matthew Micah Hill, Bernhard Zimmermann, Johan Baner, George Gemelos, Milena Banjevic, Allison Ryan, Styrmir Sigurjonsson, Zachary Demko
Filed: 21 Jul 20
Utility
Methods for Determining Velocity of Tumor Growth
10 Nov 22
The invention provides methods for determining the growth rate of ctDNA, comprising (a) sequencing nucleic acids isolated from a biological sample of a cancer patient to identify patient-specific cancer mutations; (b) quantify the amount of ctDNA in a first liquid biopsy sample collected from the cancer patient by performing a multiplex amplification reaction to amplify target loci from cfDNA isolated from the first liquid biopsy sample, wherein each target locus spans at least one patient-specific cancer mutation, and sequencing the amplified target loci to identify the patient-specific cancer mutations and quantify the amount of ctDNA in the first liquid biopsy sample; (c) quantify the amount of ctDNA in a second liquid biopsy sample collected from the cancer patient by performing a multiplex amplification reaction to amplify target loci from cfDNA isolated from the second liquid biopsy sample, wherein each target locus spans at least one patient-specific cancer mutation, and sequencing the amplified target loci to identify the patient-specific cancer mutations and quantify the amount of ctDNA in the second liquid biopsy sample; and (d) determining the growth rate of the ctDNA between the first and second liquid biopsy samples.
Shruti SHARMA, Bernhard ZIMMERMANN, Himanshu SETHI, Alexey ALESHIN, Svetlana SHCHEGROVA
Filed: 20 Apr 22
Utility
Methods for Simultaneous Amplification of Target Loci
10 Nov 22
The invention provides methods for simultaneously amplifying multiple nucleic acid regions of interest in one reaction volume as well as methods for selecting a library of primers for use in such amplification methods.
Joshua BABIARZ, Tudor Pompiliu CONSTANTIN, Lane A. EUBANK, George GEMELOS, Matthew Micah HILL, Huseyin Eser KIRKIZLAR, Matthew RABINOWITZ, Onur SAKARYA, Styrmir SIGURJONSSON, Bernhard ZIMMERMANN
Filed: 16 Jun 22
Utility
Detecting mutations and ploidy in chromosomal segments
1 Nov 22
The invention provides methods, systems, and computer readable medium for detecting ploidy of chromosome segments or entire chromosomes, for detecting single nucleotide variants and for detecting both ploidy of chromosome segments and single nucleotide variants.
Joshua Babiarz, Tudor Pompiliu Constantin, Lane A. Eubank, George Gemelos, Matthew Micah Hill, Huseyin Eser Kirkizlar, Matthew Rabinowitz, Onur Sakarya, Styrmir Sigurjonsson, Bernhard Zimmermann
Filed: 21 Jun 18
Utility
Methods for characterizing copy number variation using proximity-litigation sequencing
1 Nov 22
Disclosed here is a method for detecting genome rearrangement in a biological sample, comprising: obtaining a contact matrix plotted from proximity ligation sequencing data of at least one chromosome; identifying an abnormal contact pattern in the contact matrix compared to the contact matrix of a reference genome; comparing the abnormal contact pattern in the contact matrix to one or more known patterns associated with genomic rearrangement to identify a type of genomic rearrangement causing the abnormal contact pattern.
Axel Bethke
Filed: 3 Oct 17
Utility
Methods for Assessing Graft Suitability for Transplantation
27 Oct 22
This invention relates to methods and compositions for assessing the suitability of a graft for transplantation by measuring total and/or specific cell-free nucleic acids (such as cf-DNA) and/or cell lysis.
Paula E. NORTH, Michael E. MITCHELL, Aoy T. MITCHELL, Paul G. DAFT, Donna K. MAHNKE
Filed: 21 Sep 20
Utility
Methods for preparing a DNA fraction from a biological sample for analyzing genotypes of cell-free DNA
25 Oct 22
The present disclosure provides methods for determining the ploidy status of a chromosome in a gestating fetus from genotypic data measured from a mixed sample of DNA comprising DNA from both the mother of the fetus and from the fetus, and optionally from genotypic data from the mother and father.
Matthew Rabinowitz, George Gemelos, Milena Banjevic, Allison Ryan, Zachary Demko, Matthew Hill, Bernhard Zimmermann, Johan Baner, Styrmir Sigurjonsson
Filed: 5 Oct 21
Utility
Methods and compositions for determining ploidy
25 Oct 22
The invention provides improved methods, compositions, and kits for detecting ploidy of chromosome regions, e.g. for detecting cancer or a chromosomal abnormality in a gestating fetus.
Huseyin Eser Kirkizlar, Raheleh Salari, Styrmir Sigurjonsson, Bernhard Zimmermann, Allison Ryan, Naresh Vankayalapati
Filed: 10 May 16
Utility
Methods for simultaneous amplification of target loci
4 Oct 22
The invention provides methods for simultaneously amplifying multiple nucleic acid regions of interest in one reaction volume as well as methods for selecting a library of primers for use in such amplification methods.
Matthew Rabinowitz, Matthew Micah Hill, Bernhard Zimmermann, Johan Baner, George Gemelos, Milena Banjevic, Allison Ryan, Styrmir Sigurjonsson, Zachary Demko
Filed: 25 Mar 20
Utility
Methods for Simultaneous Amplification of Target Loci
29 Sep 22
The invention provides methods for simultaneously amplifying multiple nucleic acid regions of interest in one reaction volume as well as methods for selecting a library of primers for use in such amplification methods.
Joshua BABIARZ, Tudor Tudor CONSTANTIN, Lane A. EUBANK, George GEMELOS, Matthew Micah HILL, Huseyin Eser KIRKIZLAR, Matthew RABINOWITZ, Onur SAKARYA, Styrmir SIGURJONSSON, Bernhard ZIMMERMANN
Filed: 3 Mar 22
Utility
Methods for preparing a DNA fraction from a biological sample for analyzing genotypes of cell-free DNA
20 Sep 22
The present disclosure provides methods for determining the ploidy status of a chromosome in a gestating fetus from genotypic data measured from a mixed sample of DNA comprising DNA from both the mother of the fetus and from the fetus, and optionally from genotypic data from the mother and father.
Matthew Rabinowitz, George Gemelos, Milena Banjevic, Allison Ryan, Zachary Demko, Matthew Hill, Bernhard Zimmermann, Johan Baner, Styrmir Sigurjonsson
Filed: 5 Oct 21
Utility
Methods and compositions for determining ploidy
20 Sep 22
The invention provides improved methods, compositions, and kits for detecting ploidy of chromosome regions, e.g. for detecting cancer or a chromosomal abnormality in a gestating fetus.
Huseyin Eser Kirkizlar, Raheleh Salari, Styrmir Sigurjonsson, Bernhard Zimmermann, Allison Ryan, Naresh Vankayalapati
Filed: 10 May 16
Utility
Detecting mutations and ploidy in chromosomal segments
20 Sep 22
The invention provides methods, systems, and computer readable medium for detecting ploidy of chromosome segments or entire chromosomes, for detecting single nucleotide variants and for detecting both ploidy of chromosome segments and single nucleotide variants.
Joshua Babiarz, Tudor Pompiliu Constantin, Lane A. Eubank, George Gemelos, Matthew Micah Hill, Huseyin Eser Kirkizlar, Matthew Rabinowitz, Onur Sakarya, Styrmir Sigurjonsson, Bernhard Zimmermann
Filed: 21 Jun 18
Utility
Detecting Mutations and Ploidy In Chromosomal Segments
8 Sep 22
The invention provides methods, systems, and computer readable medium for detecting ploidy of chromosome segments or entire chromosomes, for detecting single nucleotide variants and for detecting both ploidy of chromosome segments and single nucleotide variants.
Joshua BABIARZ, Tudor Pompiliu CONSTANTIN, Lane A. EUBANK, George GEMELOS, Matthew Micah HILL, Huseyin Eser KIRKIZLAR, Matthew RABINOWITZ, Onur SAKARYA, Styrmir SIGURJONSSON, Bernhard ZIMMERMANN
Filed: 6 May 22
Utility
Detecting mutations and ploidy in chromosomal segments
16 Aug 22
The invention provides methods, systems, and computer readable medium for detecting ploidy of chromosome segments or entire chromosomes, for detecting single nucleotide variants and for detecting both ploidy of chromosome segments and single nucleotide variants.
Joshua Babiarz, Tudor Pompiliu Constantin, Lane A. Eubank, George Gemelos, Matthew Micah Hill, Huseyin Eser Kirkizlar, Matthew Rabinowitz, Onur Sakarya, Styrmir Sigurjonsson, Bernhard Zimmermann
Filed: 20 Mar 19