Abstract

Described herein are techniques to reduce or remove the impact of secondary path photons and/or charge carriers on storage bins of an integrated device to improve noise performance, and thus, sample analysis. Some embodiments relate to optical rejection techniques such as including an optical barrier positioned to block at least some photons from reaching the storage bins. Some embodiments relate to electrical rejection techniques such as including an electrical barrier configured to block at least some charge carriers from reaching the storage bins along at least one secondary path. Some embodiments relate to an integrated device in which at least one storage bin is shaped and/or positioned relative to the photodetector to facilitate receipt of some charge carriers (e.g., fluorescent emission charge carriers) and/or photons and to impede receipt of other charge carriers (e.g., noise charge carriers) and/or photons.

IPC Classes  ?

• H10F 39/00 - Integrated devices, or assemblies of multiple devices, comprising at least one element covered by group , e.g. radiation detectors comprising photodiode arrays
• H04N 25/771 - Pixel circuitry, e.g. memories, A/D converters, pixel amplifiers, shared circuits or shared components comprising storage means other than floating diffusion

Abstract

Aspects of the application provide methods of identifying and sequencing proteins, polypeptides, and amino acids, and compositions useful for the same. In some aspects, the application provides methods of obtaining data during a degradation process of a polypeptide, and outputting a sequence representative of the polypeptide. In some aspects, the application provides amino acid recognition molecules comprising a shielding element that enhances photostability in polypeptide sequencing reactions.

IPC Classes  ?

• G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances
• C07K 14/47 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from animalsPeptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from humans from vertebrates from mammals
• C07K 19/00 - Hybrid peptides
• C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
• G01N 1/28 - Preparing specimens for investigation
• G01N 21/64 - FluorescencePhosphorescence
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• G16B 25/10 - Gene or protein expression profilingExpression-ratio estimation or normalisation
• G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
• G16B 40/00 - ICT specially adapted for biostatisticsICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
• G16B 40/10 - Signal processing, e.g. from mass spectrometry [MS] or from PCR
• G16B 50/00 - ICT programming tools or database systems specially adapted for bioinformatics
• G16B 50/30 - Data warehousingComputing architectures

Abstract

Provided herein are compositions and methods for functionalizing a polypeptide for single-molecule analysis. In some aspects, the disclosure provides compositions and methods for immobilizing a peptide barcode to a surface. In some aspects, the disclosure provides compositions and methods for luminescently labeling a protein of interest.

IPC Classes  ?

• G01N 33/533 - Production of labelled immunochemicals with fluorescent label
• C07K 7/06 - Linear peptides containing only normal peptide links having 5 to 11 amino acids
• C07K 19/00 - Hybrid peptides

Abstract

Provided herein are methods that are useful for controlled cleavage of polypeptides (e.g., modified polypeptides). In some aspects, provided herein are methods that are useful in combination with polypeptide sequencing techniques. For example, provided herein is a method comprising contacting a terminal amino acid of a polypeptide with one or more modification agents to produce a polypeptide comprising a modified terminal amino acid; and contacting the polypeptide comprising a modified terminal amino acid with an enzyme that catalyzes the removal of the modified terminal amino acid, wherein the enzyme has increased catalytic activity for removal of the modified terminal amino acid relative to a reference polypeptide comprising an unmodified terminal amino acid.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C12N 9/48 - Hydrolases (3.) acting on peptide bonds, e.g. thromboplastin, leucine aminopeptidase (3.4)

Abstract

Described herein are techniques for detecting amino acid variants in peptides using data from a sequencing device. Sequencing data is generated from traces of light pulses output by the sequencing device from detecting light emissions by fluorescently tagged N-terminal amino acid (NAA) recognizers during sequencing of at least one peptide. The sequencing data comprising light pulse durations and inter-pulse durations between successive light pulses. The techniques generate read(s) each comprising a sequence of recognition segments indicating time periods in which fluorescently tagged NAA recognizers were binding to particular NAAs of the peptide, assign fluorescently tagged NAA recognizers to recognition segments, align read(s) to reference peptide sequences to obtain peptide alignments, and detect amino acid variants using the peptide alignments.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C07K 14/00 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof
• G01N 21/64 - FluorescencePhosphorescence
• G01N 33/533 - Production of labelled immunochemicals with fluorescent label

Abstract

Described herein are techniques for detecting amino acid variants in peptides using data from a sequencing device. Sequencing data is generated from traces of light pulses output by the sequencing device from detecting light emissions by fluorescently tagged N-terminal amino acid (NAA) recognizers during sequencing of at least one peptide. The sequencing data comprising light pulse durations and inter-pulse durations between successive light pulses. The techniques generate read(s) each comprising a sequence of recognition segments indicating time periods in which fluorescently tagged NAA recognizers were binding to particular NAAs of the peptide, assign fluorescently tagged NAA recognizers to recognition segments, align read(s) to reference peptide sequences to obtain peptide alignments, and detect amino acid variants using the peptide alignments.

IPC Classes  ?

• G16B 30/10 - Sequence alignmentHomology search
• G01N 21/64 - FluorescencePhosphorescence
• G16B 40/20 - Supervised data analysis

Abstract

Provided herein are methods of preparing a polypeptide sample and methods of protein analysis. Also provided herein are compounds of Formula (I), (II), and (III), and use thereof, including in methods of protein digestion.

IPC Classes  ?

• G01N 1/28 - Preparing specimens for investigation
• B01D 15/34 - Size-selective separation, e.g. size-exclusion chromatographyGel filtrationPermeation
• C07K 1/107 - General processes for the preparation of peptides by chemical modification of precursor peptides
• C07K 1/12 - General processes for the preparation of peptides by hydrolysis
• C07K 1/14 - ExtractionSeparationPurification
• C12N 9/48 - Hydrolases (3.) acting on peptide bonds, e.g. thromboplastin, leucine aminopeptidase (3.4)
• C12P 21/06 - Preparation of peptides or proteins produced by the hydrolysis of a peptide bond, e.g. hydrolysate products

Abstract

Aspects of the present disclosure provide improved fluorescence imaging techniques suitable for fluorescence-based analysis (e.g., sequencing) of an excited sample. Some aspects relate to directing an imaging aperture of a fluorescence imaging device towards a sample well region and capturing an image of the sample well region. Some aspects relate to selecting a sample well region and capturing an image of the selected sample well region. Some aspects relate to, during at least a portion of performing a controlled cleavage of a terminal amino acid in a first sample well, capturing a fluorescence image of a second sample well. Some aspects relate to setting a duration of imaging by and/or a location of an imaging aperture of a fluorescence imaging device. In some embodiments, aspects of the present disclosure provide for faster, less expensive, and/or greater control over fluorescence imaging and analysis of a sample.

IPC Classes  ?

• G01N 21/64 - FluorescencePhosphorescence

Abstract

Aspects of the present disclosure provide improved fluorescence imaging techniques suitable for fluorescence-based analysis (e.g., sequencing) of an excited sample. Some aspects relate to directing an imaging aperture of a fluorescence imaging device towards a sample well region and capturing an image of the sample well region. Some aspects relate to selecting a sample well region and capturing an image of the selected sample well region. Some aspects relate to, during at least a portion of performing a controlled cleavage of a terminal amino acid in a first sample well, capturing a fluorescence image of a second sample well. Some aspects relate to setting a duration of imaging by and/or a location of an imaging aperture of a fluorescence imaging device. In some embodiments, aspects of the present disclosure provide for faster, less expensive, and/or greater control over fluorescence imaging and analysis of a sample.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• G01N 21/64 - FluorescencePhosphorescence

Abstract

Compositions useful for the detection of single molecules in a sample are provided. In some aspects, the disclosure provides a nucleic acid connected to a nucleotide and two or more luminescent labels. In some embodiments, the nucleic acids described herein comprise one or more structural features that provide enhanced fluorescence intensity. In some aspects, methods of sequencing using the labeled nucleotides of the disclosure are provided.

IPC Classes  ?

• C12Q 1/6876 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
• C07H 19/073 - Pyrimidine radicals with 2-deoxyribosyl as the saccharide radical
• C07H 19/173 - Purine radicals with 2-deoxyribosyl as the saccharide radical
• C07H 21/04 - Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids with deoxyribosyl as saccharide radical
• C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
• C12Q 1/6816 - Hybridisation assays characterised by the detection means
• C12Q 1/6869 - Methods for sequencing

Abstract

Provided herein are compositions and methods for functionalizing a polypeptide for single-molecule analysis. In some aspects, the disclosure provides compositions and methods for immobilizing a peptide barcode to a surface. In some aspects, the disclosure provides compositions and methods for luminescently labeling a protein of interest.

IPC Classes  ?

• C07K 1/22 - Affinity chromatography or related techniques based upon selective absorption processes
• C07K 16/46 - Hybrid immunoglobulins
• C07K 19/00 - Hybrid peptides
• C40B 30/04 - Methods of screening libraries by measuring the ability to specifically bind a target molecule, e.g. antibody-antigen binding, receptor-ligand binding
• C40B 40/04 - Libraries containing only organic compounds
• G01N 21/64 - FluorescencePhosphorescence
• G01N 33/543 - ImmunoassayBiospecific binding assayMaterials therefor with an insoluble carrier for immobilising immunochemicals

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; computer hardware featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA. Non-downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; non-downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; research and development in the field of biotechnology and medical devices.

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; computer hardware featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA. Non-downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; non-downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; research and development in the field of biotechnology and medical devices.

Abstract

Aspects of the technology described herein relate to improved semiconductor-based image sensor designs. In some embodiments, an integrated circuit may comprise a photodetection region and a drain region electrically coupled to the photodetection region, and the photodetection region may be configured to induce an intrinsic electric field in a direction from the photodetection region to the drain region(s). In some embodiments, a charge storage region and the drain region may be positioned on a same side of the photodetection region. In some embodiments, at least one drain layer may be configured to receive incident photons and/or charge carriers via the photodetection region. In some embodiments, an integrated circuit may comprise a plurality of pixels and a control circuit configured to control a transfer of charge carriers in the plurality of pixels.

IPC Classes  ?

• H10F 39/18 - Complementary metal-oxide-semiconductor [CMOS] image sensorsPhotodiode array image sensors
• H10F 39/00 - Integrated devices, or assemblies of multiple devices, comprising at least one element covered by group , e.g. radiation detectors comprising photodiode arrays

Abstract

Provided herein are methods that are useful for controlled cleavage of polypeptides (e.g.,modified polypeptides). In some aspects, provided herein are methods that are useful in combination with polypeptide sequencing techniques. For example, provided herein is a method comprising contacting a terminal amino acid of a polypeptide with one or more modification agents to produce a polypeptide comprising a modified terminal amino acid; and contacting the polypeptide comprising a modified terminal amino acid with an enzyme that catalyzes the removal of the modified terminal amino acid, wherein the enzyme has increased catalytic activity for removal of the modified terminal amino acid relative to a reference polypeptide comprising an unmodified terminal amino acid.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C12Q 1/6869 - Methods for sequencing
• G01N 21/64 - FluorescencePhosphorescence

Abstract

The present disclosure relates to methods and compositions for protein identification via peptide barcodes.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C12P 21/06 - Preparation of peptides or proteins produced by the hydrolysis of a peptide bond, e.g. hydrolysate products
• C12Q 1/25 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving enzymes not classifiable in groups
• C12Q 1/48 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving transferase
• C12Q 1/6869 - Methods for sequencing
• G01N 21/64 - FluorescencePhosphorescence
• G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances

Goods & Services

(1) Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; computer hardware featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. (1) Non-downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; non-downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; research and development in the field of biotechnology and medical devices.

Goods & Services

(1) Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; computer hardware featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. (1) Non-downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; non-downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; research and development in the field of biotechnology and medical devices.

Abstract

The present disclosure relates to methods and compositions for protein identification via peptide barcodes.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C12N 15/10 - Processes for the isolation, preparation or purification of DNA or RNA
• C40B 20/04 - Identifying library members by means of a tag, label, or other readable or detectable entity associated with the library members, e.g. decoding processes

Abstract

Provided herein are compounds of Formulae (I), (II), (III), and (Ill-d). Also provided herein are methods of preparation of Formulae (I), (II), and (Ill-d). Further provided herein are methods of functionalizing or sequencing a peptide by reaction of compounds of Formula (IILd) with peptidases.

IPC Classes  ?

• A61K 31/395 - Heterocyclic compounds having nitrogen as a ring hetero atom, e.g. guanethidine or rifamycins
• C12Q 1/68 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving nucleic acids
• C12Q 1/6869 - Methods for sequencing
• C07F 9/02 - Phosphorus compounds
• A61K 31/13 - Amines, e.g. amantadine
• C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
• A61K 31/33 - Heterocyclic compounds

Abstract

Provided herein are compounds of Formulae (I), (II), (III), and (III-d). Also provided herein are methods of preparation of Formulae (I), (II), and (III-d). Further provided herein are methods of functionalizing or sequencing a peptide by reaction of compounds of Formula (III-d) with peptidases.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C07K 1/04 - General processes for the preparation of peptides on carriers
• C12Q 1/37 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving hydrolase involving peptidase or proteinase
• G01N 33/543 - ImmunoassayBiospecific binding assayMaterials therefor with an insoluble carrier for immobilising immunochemicals

Abstract

Methods of forming an integrated device, and in particular forming one or more sample wells in an integrated device, are described. The methods may involve forming a metal stack over a cladding layer, forming an aperture in the metal stack, forming first spacer material within the aperture, and forming a sample well by removing some of the cladding layer to extend a depth of the aperture into the cladding layer. In the resulting sample well, at least one portion of the first spacer material is in contact with at least one layer of the metal stack.

IPC Classes  ?

• H10D 84/03 - Manufacture or treatment characterised by using material-based technologies using Group IV technology, e.g. silicon technology or silicon-carbide [SiC] technology
• B01L 3/00 - Containers or dishes for laboratory use, e.g. laboratory glasswareDroppers
• B81C 1/00 - Manufacture or treatment of devices or systems in or on a substrate
• G01N 33/487 - Physical analysis of biological material of liquid biological material
• G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances
• H01L 21/02 - Manufacture or treatment of semiconductor devices or of parts thereof
• H10D 84/01 - Manufacture or treatment

Abstract

Provided herein are novel amino acid binding proteins that recognize aspartate and/or glutamate in protein sequencing reactions; novel amino acid binding proteins that recognize arginine in protein sequencing reactions; and novel amino acid binding proteins that recognize glycine, alanine, and/or serine in protein sequencing reactions.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C12N 9/10 - Transferases (2.)
• C12N 9/80 - Hydrolases (3.) acting on carbon to nitrogen bonds other than peptide bonds (3.5) acting on amide bonds in linear amides
• C12Q 1/37 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving hydrolase involving peptidase or proteinase
• G01N 21/64 - FluorescencePhosphorescence

Abstract

Provided herein are novel amino acid binding proteins that recognize aspartate and/or glutamate in protein sequencing reactions; novel amino acid binding proteins that recognize arginine in protein sequencing reactions; and novel amino acid binding proteins that recognize glycine, alanine, and/or serine in protein sequencing reactions.

IPC Classes  ?

• C07K 14/195 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from bacteria
• C07K 19/00 - Hybrid peptides

Abstract

There is provided amino acid cleaving reagents with improved cleavage activity, allowing for more structural information to be obtained from polypeptides in sequencing reactions.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C12N 9/48 - Hydrolases (3.) acting on peptide bonds, e.g. thromboplastin, leucine aminopeptidase (3.4)
• C12Q 1/37 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving hydrolase involving peptidase or proteinase
• G01N 30/88 - Integrated analysis systems specially adapted therefor, not covered by a single one of groups

Abstract

System and methods for analyzing single molecules and performing nucleic acid sequencing. An integrated device may include multiple pixels with sample wells configured to receive a sample, which when excited, emits radiation. The integrated device includes a surface having a trench region recessed from a portion of the surface and an array of sample wells, disposed in the trench region. The integrated device also includes a waveguide configured to couple excitation energy to at least one sample well in the array and positioned at a first distance from a surface of the trench region and at a second distance from the surface in a region separate from the trench region. The first distance is smaller than the second distance. The system also includes an instrument that interfaces with the integrated device. The instrument may include an excitation energy source for providing excitation energy to the integrated device by coupling to an excitation energy coupling region of the integrated device.

IPC Classes  ?

• G01N 21/64 - FluorescencePhosphorescence
• C12Q 1/6869 - Methods for sequencing
• C12Q 1/6874 - Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation [SBH]
• G01N 21/77 - Systems in which material is subjected to a chemical reaction, the progress or the result of the reaction being investigated by observing the effect on a chemical indicator
• G01N 33/543 - ImmunoassayBiospecific binding assayMaterials therefor with an insoluble carrier for immobilising immunochemicals

Abstract

Provided herein are compounds of Formula (I). Also provided herein are amino acid recognition molecules, and salts thereof, comprising at least one instance of Formula (II), and compositions thereof. Further provided herein are methods of sequencing a polypeptide using an amino acid recognition molecule, or salt thereof, comprising at least one instance of Formulae (II) or (IV).

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C09B 57/00 - Other synthetic dyes of known constitution
• C09K 11/06 - Luminescent, e.g. electroluminescent, chemiluminescent, materials containing organic luminescent materials
• G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances

Abstract

The disclosure provides methods and compositions that enable the characterization of analytes in a sample, including the identification of polypeptides having one or more post- translational modifications. In some embodiments, the disclosure provides methods of determining a concentration of an analyte in a sample based at least in part on a count of detected series of signal pulses. In some embodiments, the disclosure provides methods of determining one or more chemical characteristics of an analyte (e.g., a polypeptide). In some embodiments, the disclosure provides a method (e.g., a single-molecule method) comprising contacting a single polypeptide with one or more post-translational modification- specific (PTM- specific) affinity reagents; and identifying whether the single polypeptide comprises a post-translational modification (PTM) by determining a luminescence signature representative of the binding interaction(s) between the single polypeptide and the one or more PTM-specific affinity reagents.

IPC Classes  ?

• C40B 30/04 - Methods of screening libraries by measuring the ability to specifically bind a target molecule, e.g. antibody-antigen binding, receptor-ligand binding
• G01N 33/53 - ImmunoassayBiospecific binding assayMaterials therefor
• G01N 33/532 - Production of labelled immunochemicals
• G01N 33/543 - ImmunoassayBiospecific binding assayMaterials therefor with an insoluble carrier for immobilising immunochemicals

Abstract

The disclosure provides methods and compositions that enable the characterization of analytes in a sample, including the identification of polypeptides having one or more post-translational modifications. In some embodiments, the disclosure provides methods of determining a concentration of an analyte in a sample based at least in part on a count of detected series of signal pulses. In some embodiments, the disclosure provides methods of determining one or more chemical characteristics of an analyte (e.g., a polypeptide). In some embodiments, the disclosure provides a method (e.g., a single-molecule method) comprising contacting a single polypeptide with one or more post-translational modification-specific (PTM-specific) affinity reagents; and identifying whether the single polypeptide comprises a post-translational modification (PTM) by determining a luminescence signature representative of the binding interaction(s) between the single polypeptide and the one or more PTM-specific affinity reagents.

IPC Classes  ?

• G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids

Abstract

Aspects of the application provide methods of identifying and sequencing proteins, polypeptides, and amino acids, and compositions useful for the same. In some aspects, the application provides methods of obtaining data during a degradation process of a polypeptide, and outputting a sequence representative of the polypeptide. In some aspects, the application provides amino acid recognition molecules comprising a shielding element that enhances photostability in polypeptide sequencing reactions.

IPC Classes  ?

• G01N 33/00 - Investigating or analysing materials by specific methods not covered by groups
• C07K 14/47 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from animalsPeptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from humans from vertebrates from mammals
• C07K 19/00 - Hybrid peptides
• C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
• G01N 1/28 - Preparing specimens for investigation
• G01N 21/64 - FluorescencePhosphorescence
• G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• G16B 25/10 - Gene or protein expression profilingExpression-ratio estimation or normalisation
• G16B 40/00 - ICT specially adapted for biostatisticsICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
• G16B 40/10 - Signal processing, e.g. from mass spectrometry [MS] or from PCR
• G16B 50/30 - Data warehousingComputing architectures
• G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
• G16B 50/00 - ICT programming tools or database systems specially adapted for bioinformatics

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor, namely, structural parts and fittings; downloadable software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein. Providing temporary use of non-downloadable software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein; research and development in the field of biotechnology and medical devices.

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor, namely, structural parts and fittings; downloadable software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein. Providing temporary use of non-downloadable software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein; research and development in the field of biotechnology and medical devices.

Abstract

In some embodiments, an integrated circuit includes multiple charge storage regions configured to receive charge carriers from a photodetection region in response to a single excitation of a sample. In some embodiments, an integrated circuit includes first and second charge transfer paths configured to electrically couple a photodetection region to first and second charge storage regions, with the second charge transfer path bypassing the first charge storage region. In some embodiments, an integrated circuit includes a photodetection region configured to induce an intrinsic electric field having a vector component in at least three substantially perpendicular directions. In some embodiments, an integrated circuit includes multiple transfer gates configured to control charge carrier transfer out of a photodetection region in different directions. In some embodiments, an integrated circuit includes a photodetection region and multiple transfer gates configured to control charge carrier transfer from the photodetection region to one or more drain regions.

IPC Classes  ?

• H10F 39/00 - Integrated devices, or assemblies of multiple devices, comprising at least one element covered by group , e.g. radiation detectors comprising photodiode arrays
• G01N 21/64 - FluorescencePhosphorescence

Abstract

Provided herein are compounds of Formulae (I'), (I), (IV'), and (IV). Also provided herein are methods of preparation of Formulae (Ill-i), (VI), and (VIII). Further provided herein are methods of functionalizing or sequencing a peptide having at least one free cysteine residue, and methods of enriching a sample comprising one or more peptides.

IPC Classes  ?

• C07K 1/107 - General processes for the preparation of peptides by chemical modification of precursor peptides
• C07K 1/12 - General processes for the preparation of peptides by hydrolysis
• C07K 14/36 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from bacteria from ActinomycesPeptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from bacteria from Streptomyces (G)
• C07D 213/18 - Salts thereof
• C07D 213/20 - Quaternary compounds thereof

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; computer hardware featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment Non-downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; non-downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; research and development in the field of biotechnology and medical devices

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; computer hardware featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment Non-downloadable software featuring AI for kinetic detection and for measuring relative DNA, RNA and protein; non-downloadable computer software featuring AI for receiving, processing, transmitting and displaying data in the fields of kinetic detection, nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; research and development in the field of biotechnology and medical devices

Abstract

Provided herein are compounds of Formula (I). Also provided herein are amino acid recognition molecules, and salts thereof, comprising at least one instance of Formula (II), and compositions thereof. Further provided herein are methods of sequencing a polypeptide using an amino acid recognition molecule, or salt thereof, comprising at least one instance of Formulae (II) or (IV).

IPC Classes  ?

• C07F 5/02 - Boron compounds
• C09B 44/12 - Azo dyes containing onium groups containing cyclammonium groups attached to an azo group by a carbon atom of the ring system having one nitrogen atom as the only ring hetero atom
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids

Abstract

There is provided amino acid cleaving reagents with improved cleavage activity, allowing for more structural information to be obtained from polypeptides in sequencing reactions.

IPC Classes  ?

• C12N 9/52 - Proteinases derived from bacteria
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids

Abstract

Provided herein are compounds of Formula (I). Also provided herein are amino acid recognition molecules, and salts thereof, comprising at least one instance of Formula (II), and compositions thereof. Further provided herein are methods of sequencing a polypeptide using an amino acid recognition molecule, or salt thereof, comprising at least one instance of Formulae (II) or (IV).

IPC Classes  ?

• C07F 5/02 - Boron compounds
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C09B 44/12 - Azo dyes containing onium groups containing cyclammonium groups attached to an azo group by a carbon atom of the ring system having one nitrogen atom as the only ring hetero atom

Abstract

There is provided amino acid cleaving reagents with improved cleavage activity, allowing for more structural information to be obtained from polypeptides in sequencing reactions.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C12N 9/52 - Proteinases derived from bacteria

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; scientific apparatus and instruments, namely, protein sequencers in the nature of scientific apparatus for diagnostic testing of amino acids or proteins, and nucleic acid sequencers in the nature of scientific apparatus for diagnostic testing of DNA, other than for medical purposes. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA; medical apparatus and instruments, namely, protein sequencers for diagnostic testing of amino acids or proteins, and nucleic acid sequencers for diagnostic testing of DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Hosting a website featuring non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; hosting a website featuring non-downloadable software for measuring relative DNA, RNA and protein; hosting a website featuring non-downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; research and development in the field of biotechnology and medical devices.

Abstract

Aspects of the application provide methods of identifying and sequencing proteins, polypeptides, and amino acids, and compositions useful for the same. In some aspects, the application provides amino acid recognition molecules, such as amino acid binding proteins and fusion polypeptides thereof. In some aspects, the application provides amino acid recognition molecules comprising a shielding element that enhances photostability in polypeptide sequencing reactions.

IPC Classes  ?

• C07K 14/00 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids

IPC Classes  ?

• C07K 1/13 - Labelling of peptides
• C12N 9/48 - Hydrolases (3.) acting on peptide bonds, e.g. thromboplastin, leucine aminopeptidase (3.4)
• C12Q 1/37 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving hydrolase involving peptidase or proteinase
• G01N 21/64 - FluorescencePhosphorescence
• G01N 21/76 - ChemiluminescenceBioluminescence
• G01N 33/487 - Physical analysis of biological material of liquid biological material
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids

Abstract

The disclosure provides methods and compositions that enable the identification of polypeptides having one or more post-translational modifications. In some embodiments, the disclosure provides a method (e.g., a single-molecule measurement method) comprising contacting a single polypeptide with one or more post-translational modification- specific (PTM- specific) affinity reagents; and identifying whether the single polypeptide comprises a post- translational modification (PTM) by determining a luminescence signature representative of the binding interaction(s) between the single polypeptide and the one or more PTM-specific affinity reagents.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• G01N 21/64 - FluorescencePhosphorescence
• G01N 21/76 - ChemiluminescenceBioluminescence
• B01L 3/00 - Containers or dishes for laboratory use, e.g. laboratory glasswareDroppers
• C07K 1/13 - Labelling of peptides
• C12N 9/48 - Hydrolases (3.) acting on peptide bonds, e.g. thromboplastin, leucine aminopeptidase (3.4)
• C12Q 1/37 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving hydrolase involving peptidase or proteinase
• G01N 33/487 - Physical analysis of biological material of liquid biological material

Abstract

The disclosure provides methods and compositions that enable the identification of polypeptides having one or more post-translational modifications. In some embodiments, the disclosure provides a method (e.g., a single-molecule measurement method) comprising contacting a single polypeptide with one or more post-translational modification-specific (PTM-specific) affinity reagents; and identifying whether the single polypeptide comprises a post-translational modification (PTM) by determining a luminescence signature representative of the binding interaction(s) between the single polypeptide and the one or more PTM-specific affinity reagents.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids

Abstract

Aspects of the application provide methods of identifying and sequencing proteins, polypeptides, and amino acids, and compositions useful for the same. In some aspects, the application provides methods of obtaining data during a degradation process of a polypeptide, and outputting a sequence representative of the polypeptide. In some aspects, the application provides amino acid recognition molecules comprising a shielding element that enhances photostability in polypeptide sequencing reactions.

IPC Classes  ?

• G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances
• C07K 14/47 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from animalsPeptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from humans from vertebrates from mammals
• C07K 19/00 - Hybrid peptides
• C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
• G01N 1/28 - Preparing specimens for investigation
• G01N 21/64 - FluorescencePhosphorescence
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• G16B 25/10 - Gene or protein expression profilingExpression-ratio estimation or normalisation
• G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
• G16B 40/00 - ICT specially adapted for biostatisticsICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
• G16B 40/10 - Signal processing, e.g. from mass spectrometry [MS] or from PCR
• G16B 50/00 - ICT programming tools or database systems specially adapted for bioinformatics
• G16B 50/30 - Data warehousingComputing architectures

Abstract

An integrated circuit includes a photodetection region configured to receive incident photons. The photodetection region is configured to produce a plurality of charge carriers in response to the incident photons. The integrated circuit includes a charge carrier storage region. The integrated circuit also includes a charge carrier segregation structure configured to selectively direct charge carriers of the plurality of charge carriers directly into the at least one charge carrier storage region based upon times at which the charge carriers are produced.

IPC Classes  ?

• G01J 1/44 - Electric circuits
• G01N 21/64 - FluorescencePhosphorescence
• G06T 7/00 - Image analysis
• H04N 25/76 - Addressed sensors, e.g. MOS or CMOS sensors
• H04N 25/77 - Pixel circuitry, e.g. memories, A/D converters, pixel amplifiers, shared circuits or shared components

Goods & Services

(1) Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor, namely, structural parts and fittings; downloadable software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein. (1) Providing temporary use of non-downloadable software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein; research and development in the field of biotechnology and medical devices.

Goods & Services

(1) Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor, namely, structural parts and fittings; downloadable software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein. (1) Providing temporary use of non-downloadable software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein; research and development in the field of biotechnology and medical devices.

Abstract

Apparatus and methods for coupling an optical beam from an optical source to a hi-tech system are described. A compact, low-cost beam-shaping and steering assembly may be located between the optical source and hi-tech system and provide automated adjustments to beam parameters such as beam position, beam rotation, and beam incident angles. The beam-shaping and steering assembly may be used to couple an elongated beam to a plurality of optical waveguides.

IPC Classes  ?

• G02B 27/09 - Beam shaping, e.g. changing the cross-sectioned area, not otherwise provided for
• G01N 21/64 - FluorescencePhosphorescence
• G02B 6/34 - Optical coupling means utilising prism or grating
• G02B 7/00 - Mountings, adjusting means, or light-tight connections, for optical elements
• G02B 19/00 - Condensers

Abstract

Systems and methods for optical power distribution within an integrated device, in a substantially uniform manner, to a large number of sample wells and/or other photonic elements. The integrated device and related instruments and systems may be used to analyze samples in parallel. The integrated device may include a grating coupler configured to receive light from an excitation source and optically couple with multiple waveguides configured to couple with sample wells. Vertical extents of optical modes of individual waveguides may be modulated to adjust confinement of light within the waveguides. This modulation may enable more uniform distribution of excitation light to the sample wells, improve excitation efficiency, and prevent overpower on regions of the integrated device.

IPC Classes  ?

• G01N 21/64 - FluorescencePhosphorescence
• B01L 3/00 - Containers or dishes for laboratory use, e.g. laboratory glasswareDroppers
• C12Q 1/6816 - Hybridisation assays characterised by the detection means
• G02B 6/122 - Basic optical elements, e.g. light-guiding paths
• G02B 6/14 - Mode converters

Abstract

The present disclosure relates to fluorescently labeled antibodies (e.g., nanobodies), methods of making, and methods of use thereof. The labeled antibodies may be used to detect the presence of an analyte in a sample.

IPC Classes  ?

• G01N 33/563 - ImmunoassayBiospecific binding assayMaterials therefor involving antibody fragments
• C07H 21/02 - Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids with ribosyl as saccharide radical
• C07H 21/04 - Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids with deoxyribosyl as saccharide radical
• G01N 33/533 - Production of labelled immunochemicals with fluorescent label
• G01N 33/542 - ImmunoassayBiospecific binding assayMaterials therefor with immune complex formed in liquid phase with steric inhibition or signal modification, e.g. fluorescent quenching
• G01N 33/557 - ImmunoassayBiospecific binding assayMaterials therefor using kinetic measurement, i.e. time rate of progress of an antigen-antibody interaction

IPC Classes  ?

• C12P 21/06 - Preparation of peptides or proteins produced by the hydrolysis of a peptide bond, e.g. hydrolysate products
• C12Q 1/25 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving enzymes not classifiable in groups
• C12Q 1/6869 - Methods for sequencing
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids

Abstract

The present disclosure provides methods and compositions for protein quantification using peptide barcodes, sample preparation for protein quantification, protein quantification using error-resistant peptide barcodes, methods to manipulate barcoded proteins, methods to determine the binding affinities of many protein variants in a mixture of proteins by single molecule measurements.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances

Abstract

The present disclosure provides methods and compositions for protein quantification using peptide barcodes, sample preparation for protein quantification, protein quantification using error-resistant peptide barcodes, methods to manipulate barcoded proteins, methods to determine the binding affinities of many protein variants in a mixture of proteins by single molecule measurements.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C12P 21/06 - Preparation of peptides or proteins produced by the hydrolysis of a peptide bond, e.g. hydrolysate products
• C12Q 1/25 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving enzymes not classifiable in groups
• C12Q 1/6869 - Methods for sequencing

Abstract

Methods of sequencing molecules based on luminescence lifetimes and/or intensities are provided. In some aspects, methods of sequencing nucleic acids involve determining the luminescence lifetimes, and optionally luminescence intensities, of a series of luminescently labeled nucleotides incorporated during a nucleic acid sequencing reaction.

IPC Classes  ?

• C12Q 1/6818 - Hybridisation assays characterised by the detection means involving interaction of two or more labels, e.g. resonant energy transfer
• C12Q 1/6869 - Methods for sequencing
• C12Q 1/6874 - Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation [SBH]
• G01N 21/64 - FluorescencePhosphorescence

Abstract

Compositions comprising modified recombinant polymerizing enzymes are provided, along with nucleic acid molecules encoding the modified polymerizing enzymes. In some aspects, methods of using such polymerizing enzymes to synthesize a nucleic acid molecule or to sequence a nucleic acid template are provided.

IPC Classes  ?

• C12N 9/12 - Transferases (2.) transferring phosphorus containing groups, e.g. kinases (2.7)
• C12N 11/00 - Carrier-bound or immobilised enzymesCarrier-bound or immobilised microbial cellsPreparation thereof
• C12P 19/34 - Polynucleotides, e.g. nucleic acids, oligoribonucleotides
• C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Providing a website featuring non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field (term considered too vague by the International Bureau - Rule 13 (2) (b) of the Regulations); providing a website featuring non-downloadable software for measuring relative DNA, RNA and protein (term considered too vague by the International Bureau - Rule 13 (2) (b) of the Regulations); providing a website featuring non-downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics (term considered too vague by the International Bureau - Rule 13 (2) (b) of the Regulations); research and development in the field of biotechnology and medical devices.

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Providing a website featuring non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field (term considered too vague by the International Bureau - Rule 13 (2) (b) of the Regulations); providing a website featuring non-downloadable software for measuring relative DNA, RNA and protein (term considered too vague by the International Bureau - Rule 13 (2) (b) of the Regulations); providing a website featuring non-downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics (term considered too vague by the International Bureau - Rule 13 (2) (b) of the Regulations); research and development in the field of biotechnology and medical devices.

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Providing a website featuring non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field (term considered too vague by the International Bureau - Rule 13 (2) (b) of the Regulations); providing a website featuring non-downloadable software for measuring relative DNA, RNA and protein (term considered too vague by the International Bureau - Rule 13 (2) (b) of the Regulations); providing a website featuring non-downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics (term considered too vague by the International Bureau - Rule 13 (2) (b) of the Regulations); research and development in the field of biotechnology and medical devices.

Abstract

Methods and apparatus for predicting an association between input data in a first modality and data in a second modality using a statistical model trained to represent interactions between data having a plurality of modalities including the first modality and the second modality, the statistical model comprising a plurality of encoders and decoders, each of which is trained to process data for one of the plurality of modalities, and a joint-modality representation coupling the plurality of encoders and decoders. The method comprises selecting, based on the first modality and the second modality, an encoder/decoder pair or a pair of encoders, from among the plurality of encoders and decoders, and processing the input data with the joint-modality representation and the selected encoder/decoder pair or pair of encoders to predict the association between the input data and the data in the second modality.

IPC Classes  ?

• G16H 70/40 - ICT specially adapted for the handling or processing of medical references relating to drugs, e.g. their side effects or intended usage
• G16H 50/20 - ICT specially adapted for medical diagnosis, medical simulation or medical data miningICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for computer-aided diagnosis, e.g. based on medical expert systems
• G16H 50/50 - ICT specially adapted for medical diagnosis, medical simulation or medical data miningICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for simulation or modelling of medical disorders

Abstract

The invention includes methods and apparatus for separating mutations, especially rare and unknown mutations, using heteroduplex binding proteins. Nucleic acids may optionally be nicked at or near the mutation in order to promote heteroduplex binding protein recognition and binding. In particular, using the disclosed methods, it is possible to separate heteroduplexed nucleic acid strand pair from homoduplexed nucleic acid strand pairs having similar sequences and being at a much higher concentration. Once the heteroduplexed nucleic acids are isolated and recovered, it is straightforward to analyze the sequences of the heteroduplexed nucleic acids, e.g., using sequencing or hybrid assays.

IPC Classes  ?

• C12Q 1/6811 - Selection methods for production or design of target specific oligonucleotides or binding molecules
• C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
• C12Q 1/686 - Polymerase chain reaction [PCR]
• C12Q 1/6869 - Methods for sequencing
• C12Q 1/6874 - Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation [SBH]

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; Clinical and medical diagnostic instruments used for medical laboratory research, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA Providing a website featuring non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; providing a website featuring non-downloadable software for measuring relative DNA, RNA and protein; providing a website featuring nondownloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; research and development in the field of biotechnology and medical devices

Abstract

System and methods for analyzing single molecules and performing nucleic acid sequencing. An integrated device includes multiple pixels with sample wells configured to receive a sample, which when excited, emits radiation. The integrated device includes at least one waveguide configured to propagate excitation energy to the sample wells from a region of the integrated device configured to couple with an excitation energy source. A pixel may also include at least one element for directing the emission energy towards a sensor within the pixel. The system also includes an instrument that interfaces with the integrated device. The instrument may include an excitation energy source for providing excitation energy to the integrated device by coupling to an excitation energy coupling region of the integrated device. One of multiple markers distinguishable by temporal parameters of the emission energy may label the sample and configuration of the sensor within a pixel may allow for detection of a temporal parameter associated with the marker labeling the sample.

IPC Classes  ?

• G01N 21/64 - FluorescencePhosphorescence
• C12Q 1/6869 - Methods for sequencing
• C12Q 1/6874 - Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation [SBH]

Abstract

Some aspects relate to integrated devices for obtaining timing and/or spectral information from incident light. In some embodiments, a pixel may include one or more charge storage regions configured to receive charge carriers generated responsive to incident photons from a light source, with charge carriers stored in the charge storage region(s) indicative of spectral and timing information. In some embodiments, a pixel may include regions having different depths, each configured to generate charge carriers responsive to incident photons. In some embodiments, a pixel may include multiple charge storage regions having different depths, and one or more of the charge storage regions may be configured to receive the incident photons and generate charge carriers therein. In some embodiments, a pixel may include an optical sorting element configured to direct at least some incident photons to one charge storage region and other incident photons to another charge storage region.

IPC Classes  ?

• G01N 21/64 - FluorescencePhosphorescence

Abstract

Provided herein are methods of single-cell polypeptide and/or polynucleic acid sequencing, which facilitate the direct sequencing of a single cell without amplification. Also provided herein are compositions, kits and devices useful for the same.

IPC Classes  ?

• C12Q 1/6869 - Methods for sequencing

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein, and parts and fittings therefor, namely, structural parts and fittings; recorded software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein Providing online non-downloadable software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA, and protein; Research and development in the field of biotechnology and medical devices

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein, and parts and fittings therefor, namely, structural parts and fittings; recorded software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein Providing online non-downloadable software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA, and protein; Research and development in the field of biotechnology and medical devices

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Providing non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field via a website; providing non-downloadable software for measuring relative DNA, RNA and protein via a website; providing non-downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics via a website; research and development in the field of biotechnology and medical devices.

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Providing non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field via a website; providing non-downloadable software for measuring relative DNA, RNA and protein via a website; providing non-downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics via a website; research and development in the field of biotechnology and medical devices.

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Providing non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field via a website; providing non-downloadable software for measuring relative DNA, RNA and protein via a website; providing non-downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics via a website; research and development in the field of biotechnology and medical devices.

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Providing non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field via a website; providing non-downloadable software for measuring relative DNA, RNA and protein via a website; providing non-downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics via a website; research and development in the field of biotechnology and medical devices.

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics. Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment; scientific apparatus and instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. Providing non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field via a website; providing non-downloadable software for measuring relative DNA, RNA and protein via a website; providing non-downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics via a website; research and development in the field of biotechnology and medical devices.

Abstract

Embodiments described herein generally relate to apparatuses, cartridges, and pumps for peristaltic pumping of fluids and associated methods, systems, and devices. The pumping of fluids is, in certain cases, an important aspect of a variety of applications, such as bioanalytical applications (e.g., biological sample analysis, sequencing, identification). The inventive features described herein may, in some embodiments, provide an ability to pump fluids in ways that combine certain advantages of robotic fluid handling systems (e.g., automation, programmability, configurability, flexibility) with certain advantages of microfluidics (e.g., small fluid volumes with high fluid resolution, precision, monolithic consumables, limiting of the wetting of components to consumables).

IPC Classes  ?

• B01L 3/00 - Containers or dishes for laboratory use, e.g. laboratory glasswareDroppers
• F04B 43/12 - Machines, pumps, or pumping installations having flexible working members having peristaltic action
• G01N 35/10 - Devices for transferring samples to, in, or from, the analysis apparatus, e.g. suction devices, injection devices

Abstract

Methods and apparatus for predicting an association between input data in a first modality and data in a second modality using a statistical model trained to represent interactions between data having a plurality of modalities including the first modality and the second modality, the statistical model comprising a plurality of encoders and decoders, each of which is trained to process data for one of the plurality of modalities, and a joint-modality representation coupling the plurality of encoders and decoders. The method comprises selecting, based on the first modality and the second modality, an encoder/decoder pair or a pair of encoders, from among the plurality of encoders and decoders, and processing the input data with the joint-modality representation and the selected encoder/decoder pair or pair of encoders to predict the association between the input data and the data in the second modality.

IPC Classes  ?

• G06F 18/25 - Fusion techniques
• G06F 18/2135 - Feature extraction, e.g. by transforming the feature spaceSummarisationMappings, e.g. subspace methods based on approximation criteria, e.g. principal component analysis
• G06F 18/214 - Generating training patternsBootstrap methods, e.g. bagging or boosting
• G06F 18/22 - Matching criteria, e.g. proximity measures

Abstract

Methods and apparatus providing for the isolation of an unknown mutation from a sample comprising wild type nucleic acids and mutated nucleic acids through the application of time-varying driving fields and periodically varying mobility-altering fields to the sample within in an affinity matrix.

IPC Classes  ?

• C12Q 1/6832 - Enhancement of hybridisation reaction
• B01D 29/05 - Filters with filtering elements stationary during filtration, e.g. pressure or suction filters, not covered by groups Filtering elements therefor with flat filtering elements supported
• B01D 35/027 - Filters adapted for location in special places, e.g. pipe-lines, pumps, stop-cocks rigidly mounted in or on tanks or reservoirs
• B01L 3/00 - Containers or dishes for laboratory use, e.g. laboratory glasswareDroppers
• B01L 7/00 - Heating or cooling apparatusHeat insulating devices
• B03C 5/00 - Separating dispersed particles from liquids by electrostatic effect
• B03C 5/02 - Separators
• B62D 5/06 - Power-assisted or power-driven steering fluid, i.e. using a pressurised fluid for most or all the force required for steering a vehicle
• C12N 15/10 - Processes for the isolation, preparation or purification of DNA or RNA
• C12Q 1/6813 - Hybridisation assays
• C12Q 1/6825 - Nucleic acid detection involving sensors
• C12Q 1/6837 - Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips
• F15B 1/26 - Supply reservoir or sump assemblies
• F15B 21/041 - Removal or measurement of solid or liquid contamination, e.g. filtering

Abstract

There is provided amino acid cleaving reagents with improved cleavage activity, allowing for more structural information to be obtained from polypeptides in sequencing reactions.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C12N 9/48 - Hydrolases (3.) acting on peptide bonds, e.g. thromboplastin, leucine aminopeptidase (3.4)

Abstract

There is provided amino acid recognizers with improved binding properties, allowing for more structural information to be obtained from polypeptides based on the kinetics of on-off binding between recognizer and polypeptide. An amino acid recognizer may comprise an amino acid binding protein with an engineered binding pocket having one or more modifications relative to a homologous protein. The modified binding pocket may increase the number of interactions formed between the binding pocket and an amino acid ligand as compared to an unmodified binding pocket of the homologous protein, increase the number of types of amino acid ligands capable of being detectably bound as compared to an unmodified binding pocket of the homologous protein, and improve the kinetics of binding (e.g., KD, koff, kon) toward one or more types of amino acid ligands, which advantageously increases the amount of, or confidence in, structural information that may be derived from polypeptide analysis.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C07K 14/37 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from fungi

Abstract

Aspects of the application provide methods of identifying and sequencing proteins, polypeptides, and amino acids, and compositions useful for the same. In some aspects, the application provides methods of obtaining data during a degradation process of a polypeptide, and outputting a sequence representative of the polypeptide. In some aspects, the application provides amino acid recognition molecules comprising a shielding element that enhances photostability in polypeptide sequencing reactions.

IPC Classes  ?

• G16B 40/00 - ICT specially adapted for biostatisticsICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
• C07K 14/47 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from animalsPeptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from humans from vertebrates from mammals
• C07K 19/00 - Hybrid peptides
• C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
• G01N 1/28 - Preparing specimens for investigation
• G01N 21/64 - FluorescencePhosphorescence
• G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• G16B 25/10 - Gene or protein expression profilingExpression-ratio estimation or normalisation
• G16B 40/10 - Signal processing, e.g. from mass spectrometry [MS] or from PCR
• G16B 50/30 - Data warehousingComputing architectures
• G16B 30/00 - ICT specially adapted for sequence analysis involving nucleotides or amino acids
• G16B 50/00 - ICT programming tools or database systems specially adapted for bioinformatics

Abstract

Apparatus and methods for improving optical signal collection in an integrated device are described. A microdisk can be formed in an integrated device and increase collection and/or concentration of radiation incident on the microdisk and re-radiated by the microdisk. An example integrated device that can include a microdisk may be used for analyte detection and/or analysis. Such an integrated device may include a plurality of pixels, each having a reaction chamber for receiving a sample to be analyzed, an optical microdisk, and an optical sensor configured to detect optical emission from the reaction chamber. The microdisk can comprise a dielectric material having a first index of refraction that is embedded in one or more surrounding materials having one or more different refractive index values.

IPC Classes  ?

• G02B 6/122 - Basic optical elements, e.g. light-guiding paths
• G02B 6/12 - Light guidesStructural details of arrangements comprising light guides and other optical elements, e.g. couplings of the optical waveguide type of the integrated circuit kind
• G02B 6/136 - Integrated optical circuits characterised by the manufacturing method by etching

Abstract

Provided herein are cyclopropene phosphoramidites, which can be coupled to oligonucleotides to form cyclopropene-functionalized oligonucleotides. Also provided herein are methods of preparing cyclopropene phosphoramidites. Further provided herein are methods of functionalizing oligonucleotides by reaction with tetrazines, providing oligonucleotide cycloadduct products.

IPC Classes  ?

• C07F 9/24 - Esteramides
• C07C 233/60 - Carboxylic acid amides having carbon atoms of carboxamide groups bound to carbon atoms of rings other than six-membered aromatic rings having the nitrogen atom of at least one of the carboxamide groups bound to a carbon atom of a hydrocarbon radical substituted by singly-bound oxygen atoms
• C07C 271/16 - Esters of carbamic acids having oxygen atoms of carbamate groups bound to acyclic carbon atoms with the nitrogen atoms of the carbamate groups bound to hydrogen atoms or to acyclic carbon atoms to carbon atoms of hydrocarbon radicals substituted by singly-bound oxygen atoms
• C07F 9/6571 - Heterocyclic compounds, e.g. containing phosphorus as a ring hetero atom having phosphorus atoms, with or without nitrogen, oxygen, sulfur, selenium or tellurium atoms, as ring hetero atoms having phosphorus and oxygen atoms as the only ring hetero atoms

Abstract

Apparatus and methods for analyzing single molecule and performing nucleic acid sequencing. An apparatus can include an assay chip that includes multiple pixels with sample wells configured to receive a sample, which, when excited, emits emission energy; at least one element for directing the emission energy in a particular direction; and a light path along which the emission energy travels from the sample well toward a sensor. The apparatus also includes an instrument that interfaces with the assay chip. The instrument includes an excitation light source for exciting the sample in each sample well; a plurality of sensors corresponding the sample wells. Each sensor may detect emission energy from a sample in a respective sample well. The instrument includes at least one optical element that directs the emission energy from each sample well towards a respective sensor of the plurality of sensors.

IPC Classes  ?

• C12Q 1/6874 - Methods for sequencing involving nucleic acid arrays, e.g. sequencing by hybridisation [SBH]
• G01N 21/64 - FluorescencePhosphorescence

Abstract

Described herein are techniques for determining an illumination position on an integrated photodetector, as may be used within a fluorescence detection system. In some embodiments, such techniques may include determining an illumination position on an integrated photodetector based, at least in part, on a measurement of an amount of current output from a pixel of the integrated photodetector, the amount of current corresponding to an amount of excitation light (e.g., used for exciting fluorescence in a sample) that is received at the pixel. In some embodiments, such techniques may include measuring an amount of current output from one or more drain regions of one or more pixels of an integrated photodetector (e.g., regions used to draw away charge carriers corresponding to excitation light so as to not pollute collected charge carriers that correspond to fluorescence light to be detected).

IPC Classes  ?

• G01N 21/64 - FluorescencePhosphorescence
• H01L 27/146 - Imager structures

Abstract

Provided herein are compounds of Formulae (I) and (II), which comprise polypeptidyl groups. Also provided herein are methods of preparing compounds of Formulae (I) and (II). Further provided herein are methods of sequencing a polypeptide by reaction of compounds of Formula (II) with peptidases.

IPC Classes  ?

• C07K 19/00 - Hybrid peptides
• C07K 7/04 - Linear peptides containing only normal peptide links
• C12Q 1/37 - Measuring or testing processes involving enzymes, nucleic acids or microorganismsCompositions thereforProcesses of preparing such compositions involving hydrolase involving peptidase or proteinase
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids

Abstract

Techniques for performing a prediction task using a multi-modal statistical model configured to receive input data from multiple modalities including input data from a first modality and input data from a second modality different from the first modality. The techniques include: obtaining information specifying the multi-modal statistical model including values of parameters of each of multiple components of the multi-modal statistical model, the multiple components including first and second encoders for processing input data for the first and second modalities, respectively, first and second modality embeddings, a joint-modality representation, and a predictor; obtaining first input data for the first data modality; providing the first input data to the first encoder to generate a first feature vector; identifying a second feature vector using the joint-modality representation, the first modality embedding and the first feature vector; and generating a prediction for the prediction task using the predictor and the second feature vector.

IPC Classes  ?

• G06N 3/084 - Backpropagation, e.g. using gradient descent
• G06F 18/214 - Generating training patternsBootstrap methods, e.g. bagging or boosting
• G06F 18/2411 - Classification techniques relating to the classification model, e.g. parametric or non-parametric approaches based on the proximity to a decision surface, e.g. support vector machines
• G06N 3/04 - Architecture, e.g. interconnection topology
• G06N 3/044 - Recurrent networks, e.g. Hopfield networks
• G06N 3/08 - Learning methods
• G16H 30/40 - ICT specially adapted for the handling or processing of medical images for processing medical images, e.g. editing
• G16H 50/70 - ICT specially adapted for medical diagnosis, medical simulation or medical data miningICT specially adapted for detecting, monitoring or modelling epidemics or pandemics for mining of medical data, e.g. analysing previous cases of other patients

Goods & Services

(1) Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor; downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; downloadable software for measuring relative DNA, RNA and protein; computer hardware for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; scientific apparatus and instruments, namely, protein sequencers in the nature of scientific apparatus for diagnostic testing of amino acids or proteins, and nucleic acid sequencers in the nature of scientific apparatus for diagnostic testing of DNA, other than for medical purposes. (2) Clinical and medical diagnostic instruments, namely, protein sequencers in the nature of medical diagnostic apparatus for testing amino acids or proteins, and nucleic acid sequencers in the nature of medical diagnostic apparatus for testing DNA; medical apparatus and instruments, namely, protein sequencers for diagnostic testing of amino acids or proteins, and nucleic acid sequencers for diagnostic testing of DNA, for use in medical and veterinary diagnosis and in medical and veterinary treatment. (1) Hosting a website featuring non-downloadable software for use in connecting medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field; hosting a website featuring non-downloadable software for measuring relative DNA, RNA and protein; hosting a website featuring non-downloadable computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, genetics, and proteomics; research and development in the field of biotechnology and medical devices.

Goods & Services

Scientific apparatus and instruments for measuring relative DNA, RNA and protein and parts and fittings therefor, namely, structural parts and fittings; software for use in connection with medical devices, laboratory apparatuses, equipment, and instruments in the biotechnology field, namely, software for measuring relative DNA, RNA and protein; computer hardware and computer software for receiving, processing, transmitting and displaying data in the fields of nucleic acid sequencing, protein sequencing, genotyping, medical diagnostics, veterinary diagnostics, clinical diagnostics, medical research, veterinary research, diagnostic research, clinical research, drug development, drug development research, medical laboratory research, veterinary science and research, life sciences, biology, microbiology, biotechnology, agriculture, forensics, food safety, metagenomics, and genetics; clinical and medical diagnostic instruments, namely, nucleic acid sequencers and protein sequencers; scientific apparatus and instruments, namely, nucleic acid sequencers and protein sequencers for use in medical and veterinary diagnosis and in medical and veterinary treatment. Research and development in the field of biotechnology and medical devices.

Abstract

Apparatus and techniques for electrokinetic loading of samples of interest into sub-micron-scale reaction chambers are described. Embodiments include an integrated device and related apparatus for analyzing samples in parallel. The integrated device may include at least one reaction chamber formed through a surface of the integrated device and configured to receive a sample of interest, such as a molecule of nucleic acid. The integrated device may further include electrodes patterned adjacent to the reaction chamber that produce one or more electric fields that assist loading the sample into the reaction chamber. The apparatus may further include a sample reservoir having a fluid seal with the surface of the integrated device and configured to hold a suspension containing the samples.

IPC Classes  ?

• C12Q 1/6869 - Methods for sequencing
• B01L 3/00 - Containers or dishes for laboratory use, e.g. laboratory glasswareDroppers
• C08L 1/02 - CelluloseModified cellulose
• C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
• G01N 21/64 - FluorescencePhosphorescence
• G01N 27/447 - Systems using electrophoresis
• G01N 30/86 - Signal analysis
• G01N 30/88 - Integrated analysis systems specially adapted therefor, not covered by a single one of groups

Abstract

According to some aspects, systems and methods for characterizing phosphoserine-containing polypeptides are described. In some embodiments, a phosphoserine residue of a polypeptide may be converted to a dehydroalanine residue. Some aspects are directed to a method of reacting a polypeptide comprising at least one dehydroalanine residue with a protected thiol compound comprising a click chemistry handle (e.g., an azide, an alkyne) to provide a functionalized polypeptide comprising a click chemistry handle. Some aspects are directed to systems and methods of characterizing phosphoserine residues in polypeptides (e.g., identifying and/or determining the location of a phosphoserine residue) and/or methods of preparing samples for such systems and methods.

IPC Classes  ?

• C12Q 1/6806 - Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay
• C12Q 1/6834 - Enzymatic or biochemical coupling of nucleic acids to a solid phase

Abstract

Aspects of the application provide methods of producing substrates having modified surfaces. In some aspects, methods of surface modification involve treating a surface of a substrate with an organic reagent in vapor phase to form an organic layer over the surface. In some aspects, methods of forming a stable surface coating on an oxidized surface are provided.

IPC Classes  ?

• B05D 1/00 - Processes for applying liquids or other fluent materials
• B05D 3/10 - Pretreatment of surfaces to which liquids or other fluent materials are to be appliedAfter-treatment of applied coatings, e.g. intermediate treating of an applied coating preparatory to subsequent applications of liquids or other fluent materials by other chemical means
• G01N 33/543 - ImmunoassayBiospecific binding assayMaterials therefor with an insoluble carrier for immobilising immunochemicals

Abstract

Provided herein are luminescently labeled oligonucleotide structures, which may be used in systems and methods for polypeptide sequencing and/or nucleic acid sequencing.

IPC Classes  ?

• G01N 33/58 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving labelled substances
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids

Abstract

Apparatus and methods relating to photonic bandgap optical nanostructures are described. Such optical nanostructures may exhibit prohibited photonic bandgaps or allowed photonic bands, and may be used to reject (e.g., block or attenuate) radiation at a first wavelength while allowing transmission of radiation at a second wavelength. Examples of photonic bandgap optical nanostructures includes periodic and quasi-periodic structures, with periodicity or quasi-periodicity in one, two, or three dimensions and structural variations in at least two dimensions. Such photonic bandgap optical nanostructures may be formed in integrated devices that include photodiodes and CMOS circuitry arranged to analyze radiation received by the photodiodes.

IPC Classes  ?

• G01N 21/64 - FluorescencePhosphorescence
• H01L 27/146 - Imager structures

IPC Classes  ?

• C07H 21/04 - Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids with deoxyribosyl as saccharide radical
• C12N 15/11 - DNA or RNA fragmentsModified forms thereof
• C12Q 1/6816 - Hybridisation assays characterised by the detection means
• C12Q 1/6876 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
• G01N 21/64 - FluorescencePhosphorescence

IPC Classes  ?

• C12N 9/48 - Hydrolases (3.) acting on peptide bonds, e.g. thromboplastin, leucine aminopeptidase (3.4)
• C12P 21/06 - Preparation of peptides or proteins produced by the hydrolysis of a peptide bond, e.g. hydrolysate products
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids

Abstract

Described herein are techniques for determining an illumination position on an integrated photodetector, as may be used within a fluorescence detection system. In some embodiments, such techniques may include determining an illumination position on an integrated photodetector based, at least in part, on a measurement of an amount of current output from a pixel of the integrated photodetector, the amount of current corresponding to an amount of excitation light (e.g., used for exciting fluorescence in a sample) that is received at the pixel. In some embodiments, such techniques may include measuring an amount of current output from one or more drain regions of one or more pixels of an integrated photodetector (e.g., regions used to draw away charge carriers corresponding to excitation light so as to not pollute collected charge carriers that correspond to fluorescence light to be detected).

IPC Classes  ?

• H04N 25/779 - Circuitry for scanning or addressing the pixel array
• G01N 21/64 - FluorescencePhosphorescence
• H01L 27/146 - Imager structures

Abstract

Provided herein are compounds of Formulae (I) and (II), which comprise polypeptidyl groups. Also provided herein are methods of preparing compounds of Formulae (I) and (II). Further provided herein are methods of sequencing a polypeptide by reaction of compounds of Formula (II) with peptidases.

IPC Classes  ?

• A61K 47/65 - Peptidic linkers, binders or spacers, e.g. peptidic enzyme-labile linkers
• C07K 1/10 - General processes for the preparation of peptides using coupling agents
• C07K 14/47 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from animalsPeptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from humans from vertebrates from mammals
• A61K 47/64 - Drug-peptide, drug-protein or drug-polyamino acid conjugates, i.e. the modifying agent being a peptide, protein or polyamino acid which is covalently bonded or complexed to a therapeutically active agent
• C07K 7/08 - Linear peptides containing only normal peptide links having 12 to 20 amino acids
• A61K 47/50 - Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additivesTargeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates

Abstract

Provided herein are luminescently labeled oligonucleotide structures, which may be used in systems and methods for polypeptide sequencing and/or nucleic acid sequencing.

IPC Classes  ?

• C07H 21/04 - Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids with deoxyribosyl as saccharide radical
• C12Q 1/6816 - Hybridisation assays characterised by the detection means
• C12Q 1/6876 - Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
• G01N 21/64 - FluorescencePhosphorescence
• C12N 15/11 - DNA or RNA fragmentsModified forms thereof

IPC Classes  ?

• A61K 47/50 - Medicinal preparations characterised by the non-active ingredients used, e.g. carriers or inert additivesTargeting or modifying agents chemically bound to the active ingredient the non-active ingredient being chemically bound to the active ingredient, e.g. polymer-drug conjugates
• A61K 47/64 - Drug-peptide, drug-protein or drug-polyamino acid conjugates, i.e. the modifying agent being a peptide, protein or polyamino acid which is covalently bonded or complexed to a therapeutically active agent
• A61K 47/65 - Peptidic linkers, binders or spacers, e.g. peptidic enzyme-labile linkers
• C07K 1/10 - General processes for the preparation of peptides using coupling agents
• C07K 7/08 - Linear peptides containing only normal peptide links having 12 to 20 amino acids
• C07K 14/47 - Peptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from animalsPeptides having more than 20 amino acidsGastrinsSomatostatinsMelanotropinsDerivatives thereof from humans from vertebrates from mammals

Abstract

According to some aspects, systems and methods for characterizing phosphoserine-containing polypeptides are described. In some embodiments, a phosphoserine residue of a polypeptide may be converted to a dehydroalanine residue. Some aspects are directed to a method of reacting a polypeptide comprising at least one dehydroalanine residue with a protected thiol compound comprising a click chemistry handle (e.g., an azide, an alkyne) to provide a functionalized polypeptide comprising a click chemistry handle. Some aspects are directed to systems and methods of characterizing phosphoserine residues in polypeptides (e.g., identifying and/or determining the location of a phosphoserine residue) and/or methods of preparing samples for such systems and methods.

IPC Classes  ?

• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids
• C12P 21/02 - Preparation of peptides or proteins having a known sequence of two or more amino acids, e.g. glutathione
• C12P 21/00 - Preparation of peptides or proteins
• A61K 47/64 - Drug-peptide, drug-protein or drug-polyamino acid conjugates, i.e. the modifying agent being a peptide, protein or polyamino acid which is covalently bonded or complexed to a therapeutically active agent
• A61K 38/04 - Peptides having up to 20 amino acids in a fully defined sequenceDerivatives thereof
• C07K 5/037 - Peptides having up to four amino acids in a fully defined sequenceDerivatives thereof containing at least one abnormal peptide link the abnormal link being formed by the side chain of an alpha-amino acid, e.g. gamma-Glu, epsilon-Lys, glutathione

Abstract

There is provided amino acid cleaving reagents with improved cleavage activity, allowing for more structural information to be obtained from polypeptides in sequencing reactions.

IPC Classes  ?

• C12N 9/48 - Hydrolases (3.) acting on peptide bonds, e.g. thromboplastin, leucine aminopeptidase (3.4)
• C12P 21/06 - Preparation of peptides or proteins produced by the hydrolysis of a peptide bond, e.g. hydrolysate products
• G01N 33/68 - Chemical analysis of biological material, e.g. blood, urineTesting involving biospecific ligand binding methodsImmunological testing involving proteins, peptides or amino acids