Abstract: Disclosed herein are methods, compositions and systems that facilitate accurate phasing of sequence data such as genomic sequence data through the segmentation and rearrangement of nucleic acid molecules in such a way as to preserve individual molecules' phase or physical linkage information. This is variously accomplished by binding molecules independent of their phosphodiester backbones, cleaving the molecules, ligating, and sequencing the molecules through long-read sequencing technology to recover segment sequence information spanning at least more than one segment.

Abstract: The disclosure provides methods to isolate genome or chromosome level structural information from preserved samples. In some cases, samples preserved under conditions where long-range nucleic acid information is believed to be irreparably lost, such as FFPE samples, are treated to recover nucleic acid-protein complexes stabilized as part of the sample preservation process. The complexes are processed so as to recover information regarding which nucleic acids are bound to a common complex, and the information is used to recover genomic structural information.

Abstract: Disclosed herein are methods, compositions and systems that facilitate accurate phasing of sequence data such as genomic sequence data through the segmentation and rearrangement of nucleic acid molecules in such a way as to preserve individual molecules phase or physical linkage information. This is variously accomplished by binding molecules independent of their phosphodiester backbones, cleaving the molecules, ligating, and sequencing the molecules through long-read sequencing technology to recover segment sequence information spanning at least more than one segment.

Abstract: The disclosure provides methods to isolate genome or chromosome level structural information from preserved samples. In some cases, samples preserved under conditions where long-range nucleic acid information is believed to be irreparably lost, such as FFPE samples, are treated to recover nucleic acid-protein complexes stabilized as part of the sample preservation process. The complexes are processed so as to recover information regarding which nucleic acids are bound to a common complex, and the information is used to recover genomic structural information.

Abstract: Various approaches for generating long-distance contiguity information to facilitate contig assembly and phase determination are disclosed. Nucleic acids are assembled into complexes using binding moieties such that, when the nucleic acid backbones are cleaved, the ensuing fragments remain bound. Exposed ends are tagged and ligated either to one another or to tagging moieties such as oligo labels. Ligated junctions are sequenced, and the sequence information is used to assemble contigs into common scaffolds or to assign phase information. Various approaches to tagging the exposed ends are presented.

Abstract: The disclosure provides methods for haplotype phasing and meta-genomics assemblies. The disclosure provides a streamlined method for accomplishing these tasks, such that intermediates need not be labeled by an affinity label to facilitate binding to a solid surface. The disclosure also provides methods and compositions for the de novo generation of scaffold information, linkage information, and genome information for unknown organisms in heterogeneous metagenomic samples or samples obtained from multiple individuals. Practice of the methods can allow de novo sequencing of entire genomes of uncultured or unidentified organisms in heterogeneous samples, or the determination of linkage information for nucleic acid molecules in samples comprising nucleic acids obtained from multiple individuals.

Abstract: Various approaches for generating long-distance contiguity information to facilitate contig assembly and phase determination are disclosed. Nucleic acids are assembled into complexes using binding moieties such that, when the nucleic acid backbones are cleaved, the ensuing fragments remain bound. Exposed ends are tagged and ligated either to one another or to tagging moieties such as oligo labels. Ligated junctions are sequenced, and the sequence information is used to assemble contigs into common scaffolds or to assign phase information. Various approaches to tagging the exposed ends are presented.

Abstract: The disclosure provides methods to assemble genomes of eukaryotic or prokaryotic organisms. The disclosure provides methods for haplotype phasing and meta-genomics assemblies. The disclosure provides a streamlined method for accomplishing these tasks, such that intermediates need not be labeled by an affinity label to facilitate binding to a solid surface. The disclosure also provides methods and compositions for the de novo generation of scaffold information, linkage information, and genome information for unknown organisms in heterogeneous metagenomic samples or samples obtained from multiple individuals. Practice of the methods can allow de novo sequencing of entire genomes of uncultured or unidentified organisms in heterogeneous samples, or the determination of linkage information for nucleic acid molecules in samples comprising nucleic acids obtained from multiple individuals.

Abstract: Disclosed herein are methods, compositions and systems that facilitate accurate phasing of sequence data such as genomic sequence data through the segmentation and rearrangement of nucleic acid molecules in such a way as to preserve individual molecules phase or physical linkage information. This is variously accomplished by binding molecules independent of their phosphodiester backbones, cleaving the molecules, ligating, and sequencing the molecules through long-read sequencing technology to recover segment sequence information spanning at least more than one segment.

Abstract: The disclosure provides methods to isolate genome or chromosome level structural information from preserved samples. In some cases, samples preserved under conditions where long-range nucleic acid information is believed to be irreparably lost, such as FFPE samples, are treated to recover nucleic acid-protein complexes stabilized as part of the sample preservation process. The complexes are processed so as to recover information regarding which nucleic acids are bound to a common complex, and the information is used to recover genomic structural information.

Abstract: Various approaches for generating long-distance contiguity information to facilitate contig assembly and phase determination are disclosed. Nucleic acids are assembled into complexes using binding moieties such that, when the nucleic acid backbones are cleaved, the ensuing fragments remain bound. Exposed ends are tagged and ligated either to one another or to tagging moieties such as oligo labels. Ligated junctions are sequenced, and the sequence information is used to assemble contigs into common scaffolds or to assign phase information. Various approaches to tagging the exposed ends are presented.

Abstract: The disclosure provides methods to assemble genomes of eukaryotic or prokaryotic organisms. The disclosure provides methods for haplotype phasing and meta-genomics assemblies. The disclosure provides a streamlined method for accomplishing these tasks, such that intermediates need not be labeled by an affinity label to facilitate binding to a solid surface. The disclosure also provides methods and compositions for the de novo generation of scaffold information, linkage information, and genome information for unknown organisms in heterogeneous metagenomic samples or samples obtained from multiple individuals. Practice of the methods can allow de novo sequencing of entire genomes of uncultured or unidentified organisms in heterogeneous samples, or the determination of linkage information for nucleic acid molecules in samples comprising nucleic acids obtained from multiple individuals.

Abstract: A pouch is formed from one or more webs of material that provide at least one absorbent surface. The pouch further includes an integral flap, which may be folded over the opening, or entrance, of the pouch so as to maintain the contents of the pouch in place and to help retain moisture within the pouch. The interior of the pouch is defined, at least partially, by its absorbent faces.

Abstract: A pouch is formed from one or more webs of material that provide at least one absorbent surface. The pouch further includes an integral flap, which may be folded over the opening, or entrance, of the pouch so as to maintain the contents of the pouch in place and to help retain moisture within the pouch. The interior of the pouch is defined, at least partially, by its absorbent faces.

Abstract: A pouch is formed from one or more webs of material that provide at least one absorbent surface. The pouch further includes an integral flap, which may be folded over the opening, or entrance, of the pouch so as to maintain the contents of the pouch in place and to help retain moisture within the pouch. The interior of the pouch is defined, at least partially, by its absorbent faces.

Abstract: A differential pressure sensor (105) for determining a differential pressure value is provided. The differential pressure sensor (105) includes a selector valve (110) configured to receive a first pressure at a first location and a second pressure at a second location that is spaced-apart from the first location, a single-sided pressure sensor (120) coupled to the selector valve (110) and receiving either the first pressure or the second pressure, and a processing system (130) coupled to the single-sided pressure sensor (120) and configured to receive one or more first single-sided pressure measurements from the single-sided pressure sensor (120), subsequently receive one or more second single-sided pressure measurements from the single-sided pressure sensor (120), and generate the differential pressure value from the one or more first single-sided pressure measurements and the one or more second single-sided pressure measurements.

Abstract: An I/P converter is disclosed. The I/P converter comprises a nozzle (7) coupled to a magnetic circuit. A temperature compensation ring (3) is coupled to the top side of the magnetic circuit. A flexure (1) is coupled to the temperature compensation ring. The temperature compensation ring is configured to position the flexure relative to a first end of the nozzle and the temperature compensation ring is configured to maintain the relative position between the nozzle and the flexure over a range of temperatures.

Abstract: A pouch is formed from one or more webs of material that provide at least one absorbent surface. The pouch further includes an integral flap, which may be folded over the opening, or entrance, of the pouch so as to maintain the contents of the pouch in place and to help retain moisture within the pouch. The interior of the pouch is defined, at least partially, by its absorbent faces.

Abstract: A differential pressure sensor (105) for determining a differential pressure value is provided. The differential pressure sensor (105) includes a selector valve (110) configured to receive a first pressure at a first location and a second pressure at a second location that is spaced-apart from the first location, a single-sided pressure sensor (120) coupled to the selector valve (110) and receiving either the first pressure or the second pressure, and a processing system (130) coupled to the single-sided pressure sensor (120) and configured to receive one or more first single-sided pressure measurements from the single-sided pressure sensor (120), subsequently receive one or more second single-sided pressure measurements from the single-sided pressure sensor (120), and generate the differential pressure value from the one or more first single-sided pressure measurements and the one or more second single-sided pressure measurements.

Abstract: Embodiments of the invention include a temperature sensor method for providing an output voltage response that is linear to the temperature of the integrated circuit to which the temperature sensor belongs and/or the integrated circuit die on which the temperature sensor resides. The output voltage of the temperature sensor has an adjustable gain component and an adjustable voltage offset component that both are adjustable independently based on circuit parameters. The inventive temperature sensor includes an offset circuit that diverts a portion of current from the scaled PTAT current before the current is sourced through the output resistor. The offset circuit includes a bandgap circuit arrangement, a voltage to current converter arrangement, and a current mirror arrangement that are configured to provide a voltage offset adjustable based on independent circuit parameters such as resistor value ratios and transistor device scaling ratios.