Abstract: The present invention provides new compositions for transposase-mediated fragmenting and tagging DNA targets. The invention relates to the surprising discovery that use of manganese ions (Mn2+) in transposase reactions improves the transposase reaction. It also relates to the surprising discovery that Mg2+ ions can be used in a transposase reaction with wild-type and/or engineered transposases at levels much higher than previously thought. The invention provides for the use of naturally-occurring transposases in in vitro reactions, as well as improved schemes for cleaving, tagging, and amplifying target DNA.

Abstract: An apparatus for punching and extracting analytes from a dried biological fluid spot includes a tube and a sorbent bed. The tube includes a proximal tube opening, a distal tube opening, and a distal section. The distal section includes a tube wall having a tapered diameter that reduces down to the distal tube opening. The apparatus may also include a tube extension that includes an extension wall having a tapered diameter that reduces from a proximal extension opening to a distal extension opening. The tube extension is movable between an attached position and a detached position. At the attached position, the tube extension is secured to the tube by frictional contact between the extension wall and the tube at the distal tube opening. At the detached position the tube extension is physically separate from the tube. The sorbent bed is disposed at an axial distance from the distal tube opening and in the tube or the tube extension. The sorbent bed has a composition configured for solid phase extraction.

Abstract: A fitting (200) for providing a fluid connection between a capillary (202) and a fluidic conduit (204) of a fluidic component (30), the fitting (200) comprising a male piece (240) and a female piece (250) for connection with the male piece (240), wherein the male piece (240) comprises a housing (252) with a capillary reception (212) configured for receiving the capillary (202), wherein a part of the capillary (202) being received in the capillary reception (212) is circumferentially covered by a sleeve (214), an elastic biasing mechanism (206) being arranged at least partially within the housing (252), being configured for biasing the capillary (202) against the female piece (250) and being supported by the sleeve (214), and a locking mechanism (208) being arranged at least partially within the housing (252) and being configured for locking the capillary (202) to the fitting (200).

Abstract: A system for performing tandem mass spectrometry (MS/MS) analysis of a sample includes a mass spectrometer and a processor. The mass spectrometer is configured to perform a mass spectrometry (MS) scan of an ionized sample to provide a mass of an observed peak corresponding to a precursor ion. The processor is configured to perform operations including determining whether the mass of the observed peak matches a mass of at least one of multiple expected peptides on a dynamic watch list, where the expected peptides correspond to a protein in the sample, and calculating a score of an accuracy of the determination when the mass of the observed peak is determined to match the mass of at least one of the plurality of expected peptides. The precursor ion is excluded from an MS/MS scan when the accuracy score indicates that the determination is accurate.

Abstract: A method for solid state bonding of a plurality of metallic layers and devices made by that method are disclosed. First and second metallic layers are solid state bonded utilizing a protective coating on the non-bonded surfaces that engage the pressure applying appliance to prevent the surfaces from adhering to the pressure applying appliance and to protect the surfaces from imprinting during the bonding process. The invention can be used to fabricate micro-channel devices with smooth outer surfaces and eliminate mold release compounds utilized in conventional bonding procedures.

Abstract: A system for performing optical spectroscopy measurements includes a light source for generating an input optical beam and an interferometer. The interferometer includes a beam splitter that splits the input optical beam into first and second light beams; a first light path that directs the first light beam through a sample containing an analyte to a first output port; and a second light path that directs the second light beam to the first output port. At least one of the first and second light paths adjusts a relative phase of a corresponding one of the first and second light beams, so that the first and second light beams are out of phase at the first output port, substantially canceling background light and outputting sample light corresponding to a portion of the first light signal absorbed by the sample in the sample cell. A detection system detects the output sample light.

Abstract: A time-of-flight mass spectrometry (TOF MS) system includes an ion deflector, ion extractor, a flight tube, and a detector. The deflector may be disposed in the flight tube or outside the flight tube upstream of the extractor. The deflector deflects ions away from a main flight path such that the defected ions are not detected.

Abstract: A scroll pump facilitates the installation of a new tip seal between an axial end of the scroll blade of one of inner stationary and orbiting plate scrolls of the pump and the plate of the other of the inner stationary plate and orbiting plate scrolls. To this end, the orbiting plate scroll has a central portion and an outer peripheral portion extending around and seated on the central portion. The outer peripheral portion of the orbiting plate scroll is keyed to and/or fastened to the central portion such that the outer peripheral portion is not rotatable relative to the central portion and yet is axially removable from the central portion. The tip seal can be readily accessed and replaced by removing the outer peripheral portion of the orbiting scroll plate from the central portion.

Abstract: Provided herein is a method of sample analysis. In certain embodiments, the method comprises: a) cross-linking protein of a cell using a first compound to produce a first cross-linked product comprising cross-linked protein, and RNA; b) contacting the first cross-linked product and a second compound under conditions by which an oligonucleotide portion of the second compound hybridizes to the RNA; c) activating a reaction the first and second compound, thereby covalently crosslinking the oligonucleotide to the cross-linked protein to produce a second cross-linked product; d) isolating the second cross-linked product using an affinity tag; and e) analyzing the isolated second cross-linked product. Compounds for performing the method are also provided.

Abstract: An atmospheric pressure (AP) interface for a spectrometer includes wall for separating an ionization chamber from a reduced-pressure region of the spectrometer, an ion inlet defining an ion path from the ionization chamber to the reduced-pressure region, and a passage defining a gas path from the ionization chamber to a gas outlet external to the reduced-pressure region. The passage may have a greater gas conductance than the ion inlet such that most gas into the passage and not the ion inlet. The interface device is configured for applying a static electric field effective for focusing ions in the ionization chamber preferentially into the ion inlet.

Abstract: A photon source includes a plasma source for generating plasma and a photon guide through which the plasma travels. The photon guide includes an inner surface configured for reflecting photons emitted from the plasma. As the plasma travels through the photon guide, plasma electrons and ions recombine at the inner surface, whereby the predominant species emitted from an outlet of the photon guide are the photons and neutral particles, with few or no plasma electrons and ions being emitted.

Abstract: A column for use in chromatography, the column having a tube with a bore that can contain a packing medium captured between two porous plugs positioned at opposite ends. End fittings are attached to the tube ends, the end fittings having a duct with a duct opening having a diameter at least as large as the diameter of the tube bore which it faces. The duct opening may be positioned within a recess in spaced apart relation to the porous plugs to prevent the end fitting from contacting the plug and burnishing its surface.

Abstract: An interferometer includes a fixed assembly including a base, a beam splitter assembly and a fixed mirror, and a movable assembly including an upper scan carriage, a lower scan carriage and a movable mirror connected to the lower scan carriage. The pair of inner bearing flexures is connected to the base and the upper scan carriage, enabling movement of the upper scan carriage relative to the base, and the pair of outer bearing flexures is connected to the upper and lower scan carriages, enabling movement of the lower scan carriage relative to the upper scan carriage. The movement of the upper and lower scan carriages enable a scan movement of the movable mirror in a scan direction restricted such that the scan movement maintains a plane containing the movable mirror parallel to planes containing the movable mirror at respective distances between the movable and fixed assemblies during the scan movement.

Abstract: A microfluidic device for glycan analysis includes a deglycosylation column comprising a glycosidase attached to a solid support; a tagging column comprising a reactive ester for reaction with an amino group, wherein the tagging column is arranged downstream of the deglycosylation column; an analytical column comprising a stationary phase capable of separating a derivatized glycan; and a plurality of inlet/outlet ports configured to connect with channels on a switching element to form flow paths.

Abstract: Provided herein is a method of preparing an RNA sample comprising: a) obtaining an RNA sample comprising: i. long RNA molecules that may be unfragmented or fragmented to contain 5?-OH group and a 2?-3?-cyclic phosphate group; and ii. short RNA molecules that comprise a 5? phosphate group and a 3? OH group; and b) contacting the RNA sample with an adaptor comprising either a 2?-PO group and 3?-OH group or a 2?,3?-cyclic phosphate group in the presence of a eukaryotic tRNA ligase, thereby producing a ligated RNA sample in which a) the short RNA molecules are selectively ligated to the adaptor or b) the short RNA molecules and long RNA fragments are selectively ligated to the adaptor.

Abstract: A fluidic chip device configured for processing a fluid, wherein the fluidic chip device comprises a plurality of layers laminated to one another, wherein at least a part of the layers comprises a patterned section of an alternating sequence of bars and fluidic channels for conducting the fluid under pressure, the patterned section being configured for being displaceable in response to the pressure, and a pressure detector responding to the displacement of the patterned section by generating a detector signal being indicative of a value of the pressure.

Abstract: The invention generally relates to methods and apparatus for manipulation of charged molecules in solution. More particularly, the invention provides nanofluidic CCD arrays that are capable of manipulate one or a group of molecules on an individual bases such that they undergo controlled physical and/or chemical movements and/or transformations.

Abstract: A method for operating a data processing system to simulate a physical system is disclosed. The physical system receives a time-varying input and generates a time-varying output. A model of the physical system is provided. The model depends on values of the time-varying input and an internal state in the physical system, the internal state is not directly measurable. The model includes a bi-quad component that models a resonance or anti-resonance of the physical system. For each of a plurality of time points, a current input value for the time-varying input is received. An internal state vector having a value of the internal state at a current time point as one component thereof is computed and computing an estimate of a system output at that time point, the system output being directly measurable. In one aspect of the invention, the internal state vector depends on a previous value of the internal state vector and the current input value.

Abstract: A fluidic chip device configured for processing a fluidic sample includes two outer boundary layers, and at least one reinforcing layer arranged between the two outer boundary layers and being at both of its opposing main surfaces laminated with directly adjacent layers to reinforce pressure resistance of the fluidic chip device by the lamination, in which at least a part of the layers of the fluidic chip device includes a hole forming at least a part of a fluidic conduit for conducting the fluidic sample under pressure.

Abstract: A microscope having a first illumination spatial light modulator (SLM) that receives light of a first wavelength from an illumination source and processes that light in a manner that transfers light into an objective lens through a dichroic reflector that passes light of the first wavelength is disclosed. The microscope includes an imaging system that receives light from the objective lens and forms an image on a camera, and a controller having a graphical user input that displays the image to a user and controls the first illumination SLM to alter the processing of the light in response to commands from the user. The illumination SLM is controlled to provide functions that would normally be carried out by one or more lenses or prisms in the illumination optical train of a conventional microscope and/or correct for alignment errors in the illumination source.