Abstract: The present invention provides assays and assay systems for use in spatially encoded biological assays. The invention provides an assay system comprising an assay capable of high levels of multiplexing where reagents are provided to a biological sample in defined spatial patterns; instrumentation capable of controlled delivery of reagents according to the spatial patterns; and a decoding scheme providing a readout that is digital in nature.

Abstract: The present invention provides assays and assay systems for use in spatially encoded biological assays. The invention provides an assay system comprising an assay capable of high levels of multiplexing where reagents are provided to a biological sample in defined spatial patterns; instrumentation capable of controlled delivery of reagents according to the spatial patterns; and a decoding scheme providing a readout that is digital in nature.

Abstract: The present disclosure provides methods and assay systems for use in spatially encoded biological assays, including assays to determine a spatial pattern of abundance, expression, and/or activity of one or more biological targets across multiple sites in a sample. In particular, the biological targets comprise proteins, and the methods and assay systems do not depend on imaging techniques for the spatial information of the targets. The present disclosure provides methods and assay systems capable of high levels of multiplexing where reagents are provided to a biological sample in order to address tag the sites to which reagents are delivered; instrumentation capable of controlled delivery of reagents; and a decoding scheme providing a readout that is digital in nature.

Abstract: The present disclosure relates to compositions and methods for generating capture probes on a substrate for identifying the location of analytes in a biological sample.

Abstract: A system and methods of characterizing a population of a virus, bacteriophage, or other microbes in a microbiome that includes the steps of separating a sample of microbiota into more than one fraction by continuous capillary zone electrophoresis based on the physiochemical properties of the microbes in the microbiota using a constant voltage applied to the sample during the continuous zone electrophoresis. At least one separated fraction includes an intact virus, bacteriophage, or other microbe that may be visualized and/or directly sequenced to characterize the population of the virus, bacteriophage, or other microbe in the microbiome.

Abstract: Defined sequence RNA synthesis by 3??5? direction is now well established and currently in use for synthesis and development of vast variety of therapeutic grade RNA and Si RNA etc. A number of such synthetic RNA requires a modification or labeling of 3?-end of an oligonucleotide. The synthesis of 3?-end modified RNA requiring lipophilic, long chain ligands or chromophores, using 3??5? synthesis methodology is challenging, requires corresponding solid support and generally results in low coupling efficiency and lower purity of the final oligonucleotide in general because of large amount of truncated sequences containing desired hydrophobic modification. We have approached this problem by developing reverse RNA monomer phosphoramidites for RNA synthesis in 5??3?-direction. They lead to very clean oligonucleotide synthesis allowing for introduction of various modifications at the 3?-end.

Abstract: The present disclosure is directed to a method for purifying a sample containing nucleic acids to obtain isolated nucleic acids of a desired size range, either above a size cut-off, below a cut-off, or within a defined band of sizes, including: a) combining a nucleic acid-containing sample with a binding buffer to provide a binding mixture; b) contacting the binding mixture with a silica nanomembrane, wherein the silica nanomembrane adsorbs nucleic acids from the binding mixture within a desired size-range; and c) separating the bound nucleic acid from the remaining sample. Kits including a silica nanomembrane, a binding buffer and one or wash buffers are also provided herein.

Abstract: Method and systems for identifying and distinguishing subjects using a biochip are described. Biochips comprising subject specific features comprising multiple non-overlapping probes are disclosed.

Abstract: A phenol-free method for isolating a nucleic acid from a sample is provided, said method comprising the following steps: a) adding a precipitation buffer to a sample to prepare an acidic precipitation mixture wherein said precipitation buffer comprises a metal cation precipitant and a buffering agent, has a pH value of 4.0 or less and does not comprise an organic solvent selected from aprotic polar solvents and protic solvents and wherein the acidic precipitation mixture comprises the metal cation precipitant in a concentration of less than 200 mM and precipitating proteins; b) separating the precipitate from the supernatant, wherein the supernatant comprises small RNA having a length of less than 200 nt and large RNA having a length of at least 1000 nt; and c) isolating a nucleic acid from the supernatant. The present method allows to avoid the use of organic solvents during protein precipitation. Also provided is a precipitation buffer.

Abstract: A process for pre-concentration and detection of at least one single-stranded nucleic acid target molecule, the process comprising the steps of generating a flow of liquid comprising at least one magnetic nanoparticle in a micro-channel and a plurality of single-stranded nucleic acid probe molecules attached to the nanoparticle, generating an alternating magnetic field in the part of the micro-channel using an electromagnet, the magnetic field having an intensity and frequency that are suitable for causing magnetic hyperthermia of the nanoparticles so as to cause denaturing of the duplex formed by the single-stranded nucleic acid target molecule and the single-stranded nucleic acid probe molecule, and detecting the single-stranded target molecule dispersed in the liquid.

Abstract: Disclosed herein are methods, devices and compositions comprising nucleic acid captor molecules with a stem region and a loop region for detecting target nucleic acids.

Abstract: A biological chip, a manufacturing method thereof, an operation method thereof, and a biological detection system are provided. The biological chip includes a base substrate and a plurality of working units. The plurality of the working units are arranged on the base substrate; each of the working units includes a working element configured to be in contact with a target substance; and the working element includes a metal electrode and an electric-field-controllable surface modification layer on a surface of the metal electrode.

Abstract: This disclosure relates to biosensors, and in particular, biosensors based on nucleic acid cleaving enzymes such as ribonucleotide-cleaving DNAzymes for the detection of analytes, and methods of use.

Abstract: Devices and methods for de novo synthesis of large and highly accurate libraries of oligonucleic acids are provided herein. Devices include structures having a main channel and microchannels, where the microchannels have a high surface area to volume ratio. Devices disclosed herein provide for de novo synthesis of oligonucleic acids having a low error rate.

Abstract: Provided herein are systems, devices and methods for the rapid and accurate measurement of analytes by assay of binding events, by direct, digital measurement of individually resolved analyte/reporter binding events. The digital molecular assay systems, devices and methods disclosed herein are capable of particle-by-particle readout using optical reporter molecules that detect and report the binding of a single analyte molecule, and report each such binding in binary format. Such digital molecular assay systems, devices and methods are useful in a variety of applications, such as on mobile electronic devices for use in the field.

Abstract: The present invention provides synthetic DNA strands that find use as controls or in nucleic acid testing methods. In particular, provided herein are synthetic DNA strands of known composition for use as control molecules in stool DNA testing, e.g., of mutations and/or methylation of DNA isolated from stool samples.

Abstract: Disclosed herein are methods for collecting data from chip arrays and for piecewise real-time scanning and stitching of said data. Such arrays can comprise a plurality of microarrays, each microarray comprising biomolecular features that are attached to a surface of the microarray.

Abstract: Methods and compositions for extracting nucleic acids such as microRNAs (miRNAs) from biological samples are provided. Aspects of the methods include contacting a biological sample with proteinase K followed by contact with ferric oxide particles under acidic conditions to induce binding between the ferric oxide particles and nucleic acids (e.g., miRNAs) of the sample. In some cases, the ferric oxide particles are provided as part of a dissolvable film, which releases the ferric oxide particles upon solvation. In some embodiments, after nucleic acids bind to the ferric oxide particles, the particles are magnetically separated from the sample and are contacted with an alkaline elution buffer to release the nucleic acids.

Abstract: An apparatus for storing a thin film device, the apparatus including: a thin film device 3 having an insulating thin film containing Si and having a thickness of 100 nm or less; a solution in contact with the thin film; and a container having a tank that seals the solution, wherein the solution is a solution that satisfies any of the following conditions (1) to (3). (1) A solution containing water in a volume ratio of 0% or more to 30% or less (2) A solution cooled and maintained at a temperature equal to or higher than a solidification point and lower than 15° C. (3) A solution that contains a salt with a concentration of 1 mol/L or more and a saturation concentration or less and is cooled and maintained to a temperature equal to or higher than a solidification point and lower than 25° C.

Abstract: A biosensor apparatus is provided. The biosensor apparatus includes a base substrate; a first fluid channel layer on the base substrate and having a first fluid channel passing therethrough; a foundation layer on a side of the first fluid channel layer away from the base substrate, a foundation layer throughhole extending through the foundation layer to connect to the first fluid channel; and a micropore layer on a side of the foundation layer away from the base substrate, a micropore extending through the micropore layer to connect to the first fluid channel through the foundation layer throughhole. The micropore layer extends into the foundation layer throughhole and at least partially covers an inner wall of the foundation layer throughhole.