Patents by Inventor Filip Karlsson

Filip Karlsson 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: 12252738
    Abstract: Described herein is a complex comprising multiple nucleic acid molecules that are hybridized together, each comprising, from 5? to 3?, a first complementary sequence, a spacer sequence and a second complementary sequence, and either/or a 5? end sequence that is 5? of the first complementary sequence and terminates in a 5? phosphate and a 3? end sequence that is 3? of the second complementary sequence and terminates in a 3? hydroxyl. In this complex: the first complementary sequence of one molecule is directly or indirectly hybridized with the second complementary sequence of another molecule in the complex and the spacer sequence and the 3? and/or 5? end sequences are single-stranded. Methods of making and using the complex are also provided.
    Type: Grant
    Filed: March 29, 2022
    Date of Patent: March 18, 2025
    Assignee: PIXELGEN TECHNOLOGIES AB
    Inventors: Simon Fredriksson, Filip Karlsson
  • Publication number: 20250011846
    Abstract: Provided herein is probe system comprising: a population of nucleic acid molecules that have an extendible end, a first set of barcoded particles that each have a nucleotide sequence comprising: (i) a binding sequence that is complementary to the extendible end of the nucleic acid molecules, (ii) a unique particle identifier sequence, and (iii) a first template sequence, and a second set of barcoded particles that each have a nucleotide sequence comprising: (i) the first template sequence and (ii) a unique particle identifier sequence. In use, extension of the nucleic acid molecules using the first set of barcoded particles of as a template produces extensions products that contain the complement of a unique particle identifier sequence of a particle and the complement of the first template sequence. Methods of using the probe system to map binding events in or on a cellular sample are also provided.
    Type: Application
    Filed: September 17, 2024
    Publication date: January 9, 2025
    Inventors: Simon FREDRIKSSON, Filip KARLSSON
  • Patent number: 12123050
    Abstract: Provided herein is probe system comprising: a population of nucleic acid molecules that have an extendible end, a first set of barcoded particles that each have a nucleotide sequence comprising: (i) a binding sequence that is complementary to the extendible end of the nucleic acid molecules, (ii) a unique particle identifier sequence, and (iii) a first template sequence, and a second set of barcoded particles that each have a nucleotide sequence comprising: (i) the first template sequence and (ii) a unique particle identifier sequence. In use, extension of the nucleic acid molecules using the first set of barcoded particles of as a template produces extensions products that contain the complement of a unique particle identifier sequence of a particle and the complement of the first template sequence. Methods of using the probe system to map binding events in or on a cellular sample are also provided.
    Type: Grant
    Filed: March 29, 2022
    Date of Patent: October 22, 2024
    Assignee: PIXELGEN TECHNOLOGIES AB
    Inventors: Simon Fredriksson, Filip Karlsson
  • Publication number: 20240336959
    Abstract: Provided herein is a method for making a physical map of a population of barcoded particles. In some embodiments, the method may involve: producing a complex comprising: i. a population of barcoded particles, wherein the barcoded particles are uniquely barcoded by surface-tethered oligonucleotides that have unique particle identifier sequences; and ii. a population of bridging moieties that comprises oligonucleotide sequences; wherein the bridging moieties are hybridized directly or indirectly to complementary sites in the surface-tethered oligonucleotides; performing a ligation, polymerization and/or a gap-fill/ligation reaction on the complex, thereby producing reaction products that comprise pairs of unique particle identifier sequences or complements thereof from adjacent barcoded particles: sequencing the reaction products, analyzing the sequences to making one or more physical maps of the barcoded particles. Systems for practicing the method are also provided.
    Type: Application
    Filed: December 17, 2021
    Publication date: October 10, 2024
    Inventors: Simon FREDRIKSSON, Filip KARLSSON
  • Publication number: 20240301471
    Abstract: Described herein is a complex comprising multiple nucleic acid molecules that are hybridized together, each comprising, from 5? to 3?, a first complementary sequence, a spacer sequence and a second complementary sequence, and either/or a 5? end sequence that is 5? of the first complementary sequence and terminates in a 5? phosphate and a 3? end sequence that is 3? of the second complementary sequence and terminates in a 3? hydroxyl. In this complex: the first complementary sequence of one molecule is directly or indirectly hybridized with the second complementary sequence of another molecule in the complex and the spacer sequence and the 3? and/or 5? end sequences are single-stranded. Methods of making and using the complex are also provided.
    Type: Application
    Filed: March 29, 2022
    Publication date: September 12, 2024
    Inventors: Simon FREDRIKSSON, Filip KARLSSON
  • Publication number: 20240175078
    Abstract: Provided herein is probe system comprising: a population of nucleic acid molecules that have an extendible end. a first set of barcoded particles that each have a nucleotide sequence comprising: (i) a binding sequence that is complementary to the extendible end of the nucleic acid molecules. (ii) a unique particle identifier sequence. and (iii) a first template sequence. and a second set of barcoded particles that each have a nucleotide sequence comprising: (i) the first template sequence and (ii) a unique particle identifier sequence. In use. extension of the nucleic acid molecules using the first set of barcoded particles of as a template produces extensions products that contain the complement of a unique particle identifier sequence of a particle and the complement of the first template sequence. Methods of using the probe system to map binding events in or on a cellular sample are also provided.
    Type: Application
    Filed: March 29, 2022
    Publication date: May 30, 2024
    Inventors: Simon FREDRIKSSON, Filip KARLSSON
  • Publication number: 20230159991
    Abstract: This disclosure provides, inter alia, a probe system probe system for analyzing a nucleic acid sample. In some embodiments, the probe system may comprise: a set of identifier oligonucleotides of sequence B, a set of splint oligonucleotides of formula X?-A?-B?-Z?, wherein sequence A? is complementary to a genomic fragment and sequence B? is complementary to at least one member of the set of identifier oligonucleotides, and one or more probe sequences comprising X and Z. Each splint oligonucleotide is capable of hybridizing to the probe sequences, a member of the set of identifier oligonucleotides and a genomic fragment, thereby producing a ligatable complex of formula X-A-B-Z. The probe system can be used to identify a chromosome aneuploidy in cell free DNA, for example.
    Type: Application
    Filed: January 20, 2023
    Publication date: May 25, 2023
    Inventors: Carl Oscar Fredrik Dahl, Olof John Ericsson, Filip Karlsson, Fredrik Roos
  • Patent number: 11591639
    Abstract: This disclosure provides, inter alia, a probe system probe system for analyzing a nucleic acid sample. In some embodiments, the probe system may comprise: a set of identifier oligonucleotides of sequence B, a set of splint oligonucleotides of formula X?-A?-B?-Z?, wherein sequence A? is complementary to a genomic fragment and sequence B? is complementary to at least one member of the set of identifier oligonucleotides, and one or more probe sequences comprising X and Z. Each splint oligonucleotide is capable of hybridizing to the probe sequences, a member of the set of identifier oligonucleotides and a genomic fragment, thereby producing a ligatable complex of formula X-A-B-Z. The probe system can be used to identify a chromosome aneuploidy in cell free DNA, for example.
    Type: Grant
    Filed: September 30, 2020
    Date of Patent: February 28, 2023
    Assignee: VANADIS DIAGNOSTICS
    Inventors: Carl Oscar Fredrik Dahl, Olof John Ericsson, Filip Karlsson, Fredrik Roos
  • Publication number: 20210024976
    Abstract: This disclosure provides, inter alia, a probe system probe system for analyzing a nucleic acid sample. In some embodiments, the probe system may comprise: a set of identifier oligonucleotides of sequence B, a set of splint oligonucleotides of formula X?-A?-B?-Z?, wherein sequence A? is complementary to a genomic fragment and sequence B? is complementary to at least one member of the set of identifier oligonucleotides, and one or more probe sequences comprising X and Z. Each splint oligonucleotide is capable of hybridizing to the probe sequences, a member of the set of identifier oligonucleotides and a genomic fragment, thereby producing a ligatable complex of formula X-A-B-Z. The probe system can be used to identify a chromosome aneuploidy in cell free DNA, for example.
    Type: Application
    Filed: September 30, 2020
    Publication date: January 28, 2021
    Inventors: Carl Oscar Fredrik Dahl, Olof John Ericsson, Filip Karlsson, Fredrik Roos
  • Patent number: 10822640
    Abstract: This disclosure provides, inter alia, a probe system probe system for analyzing a nucleic acid sample. In some embodiments, the probe system may comprise: a set of identifier oligonucleotides of sequence B, a set of splint oligonucleotides of formula X?-A?-B?-Z?, wherein sequence A? is complementary to a genomic fragment and sequence B? is complementary to at least one member of the set of identifier oligonucleotides, and one or more probe sequences comprising X and Z. Each splint oligonucleotide is capable of hybridizing to the probe sequences, a member of the set of identifier oligonucleotides and a genomic fragment, thereby producing a ligatable complex of formula X-A-B-Z. The probe system can be used to identify a chromosome aneuploidy in cell free DNA, for example.
    Type: Grant
    Filed: November 8, 2019
    Date of Patent: November 3, 2020
    Assignee: VANADIS DIAGNOSTICS
    Inventors: Carl Oscar Fredrik Dahl, Olof John Ericsson, Filip Karlsson, Fredrik Roos
  • Publication number: 20200071744
    Abstract: This disclosure provides, inter alia, a probe system probe system for analyzing a nucleic acid sample. In some embodiments, the probe system may comprise: a set of identifier oligonucleotides of sequence B, a set of splint oligonucleotides of formula X?-A?-B?-Z?, wherein sequence A? is complementary to a genomic fragment and sequence B? is complementary to at least one member of the set of identifier oligonucleotides, and one or more probe sequences comprising X and Z. Each splint oligonucleotide is capable of hybridizing to the probe sequences, a member of the set of identifier oligonucleotides and a genomic fragment, thereby producing a ligatable complex of formula X-A-B-Z. The probe system can be used to identify a chromosome aneuploidy in cell free DNA, for example.
    Type: Application
    Filed: November 8, 2019
    Publication date: March 5, 2020
    Inventors: Carl Oscar Fredrik Dahl, Olof John Ericsson, Filip Karlsson, Fredrik Roos
  • Patent number: 10508300
    Abstract: This disclosure provides, inter alia, a probe system probe system for analyzing a nucleic acid sample. In some embodiments, the probe system may comprise: a set of identifier oligonucleotides of sequence B, a set of splint oligonucleotides of formula X?-A?-B?-Z?, wherein sequence A? is complementary to a genomic fragment and sequence B? is complementary to at least one member of the set of identifier oligonucleotides, and one or more probe sequences comprising X and Z. Each splint oligonucleotide is capable of hybridizing to the probe sequences, a member of the set of identifier oligonucleotides and a genomic fragment, thereby producing a ligatable complex of formula X-A-B-Z. The probe system can be used to identify a chromosome aneuploidy in cell free DNA, for example.
    Type: Grant
    Filed: September 16, 2016
    Date of Patent: December 17, 2019
    Assignee: Vanadis Diagnostics
    Inventors: Carl Oscar Fredrik Dahl, Olof John Ericsson, Filip Karlsson, Fredrik Roos
  • Publication number: 20190023545
    Abstract: The invention relates to a mounting device (1, 1?) for mounting a fork, comprising at least one fork blade (2), on a machine bucket (3), wherein the mounting device (1, 1?) comprises at least one pre-tensioned plate (4) arranged on said at least one fork blade (2), and at least one upper tension stop (6) against which said at least one pre-tensioned pressure plate (4) is pre-tensioned for mounting the machine bucket (3) by clamping the bucket (3) between said at least one pre-tensioned plate (4) and said at least one upper tension stop (6). The invention also relates to a mounting method for mounting a fork (2) on a bucket (3).
    Type: Application
    Filed: January 25, 2016
    Publication date: January 24, 2019
    Inventors: Eric SVENSSON, Harry Filip KARLSSON
  • Publication number: 20170081702
    Abstract: This disclosure provides, inter alia, a probe system probe system for analyzing a nucleic acid sample. In some embodiments, the probe system may comprise: a set of identifier oligonucleotides of sequence B, a set of splint oligonucleotides of formula X?-A?-B?-Z?, wherein sequence A? is complementary to a genomic fragment and sequence B? is complementary to at least one member of the set of identifier oligonucleotides, and one or more probe sequences comprising X and Z. Each splint oligonucleotide is capable of hybridizing to the probe sequences, a member of the set of identifier oligonucleotides and a genomic fragment, thereby producing a ligatable complex of formula X-A-B-Z. The probe system can be used to identify a chromosome aneuploidy in cell free DNA, for example.
    Type: Application
    Filed: September 16, 2016
    Publication date: March 23, 2017
    Inventors: Carl Oscar Fredrik Dahl, Olof John Ericsson, Filip Karlsson, Fredrik Roos