Abstract: The present invention provides novel microfluidic devices and methods that are useful for performing high-throughput screening assays and combinatorial chemistry. Such methods can include labeling a library of compounds by emulsifying aqueous solutions of the compounds and aqueous solutions of unique liquid labels on a microfluidic device, which includes a plurality of electrically addressable, channel bearing fluidic modules integrally arranged on a microfabricated substrate such that a continuous channel is provided for flow of immiscible fluids, whereby each compound is labeled with a unique liquid label, pooling the labeled emulsions, coalescing the labeled emulsions with emulsions containing a specific cell or enzyme, thereby forming a nanoreactor, screening the nanoreactors for a desirable reaction between the contents of the nanoreactor, and decoding the liquid label, thereby identifying a single compound from a library of compounds.

Abstract: A biosensor capable of highly sensitive detection of a recognition target substance while having structural stability is provided at low cost. The biosensor is for capturing and detecting a recognition target substance and includes a linker made of a hydrocarbon compound having two or more particular functional groups, a peptide serving as a molecular recognition substance directly bonded to one particular functional group of the linker, and a support directly bonded to the other particular functional group of the linker. Preferably, the particular functional groups each are a reaction product functional group of an epoxy group and an amino group. The peptide is an artificially synthesized peptide including three or more consecutive amino acid sequences, among amino acid sequences of a natural immunoglobulin, that exist in a part corresponding to a hypervariable area of the natural immunoglobulin.

Abstract: This invention relates to a method for the fabrication of photonic biosensor arrays and applications of arrays produced by the method in the biomedical field.

Abstract: Methods and compositions which can be used to increase the strength and/or probability of forming a binding complex comprising a target molecule and a substrate are disclosed. In one aspect, linking molecules having one or more members of a reactive pair are disclosed which can be used to increase the number of intra-complex binding interactions in a complex comprising a target molecule and a substrate. Intra-complex crosslinking and inter-complex crosslinking can be utilized in connection with these methods and compositions to further strengthen and stabilize the disclosed binding complexes.

Abstract: Embodiments herein provide for methods, compositions and apparatus for detection and/or diagnosis of pathogenic virus lineage and/or strains. In some embodiments, the virus is influenza Type B virus. In other embodiments, an apparatus may include a microarray with attached capture probes, designed to bind to nucleic acid sequences from a single gene in a broad array of influenza strains. In some embodiments, compositions may include isolated nucleic acid sequences of use as capture probes, target sequences and/or label probe sequences, for diagnosis of and/or detection of influenza virus.

Abstract: An apparatus and system for contacting a mobile elongate solid phase, e.g. a ribbon with a flowing fluid phase, and a method for using the same in, for example solid phase synthesis. A particular apparatus comprises (i) a conduit which is of circular or non-circular transverse cross section and which defines a lumen to contain both the flowing fluid phase and the mobile elongate solid phase; (ii) fluid phase ports in communication with the lumen to allow the fluid phase to enter the lumen, flow through it and exit it; and (iii) solid phase ports in communication with the lumen to allow the mobile solid phase to enter the lumen, move through it and exit it, the apparatus being adapted to prevent fluid egress from its interior through the solid phase ports.

Abstract: The current invention relates to a multimeric capture agent for binding a ligand, the multimeric capture agent comprising at least first and second peptide chains, wherein said first and second peptide chains each comprise a chain of 2 to 50 amino acids, each of said amino acids being substantially enantiomerically pure, and wherein said at least first and second peptide chains are covalently linked.

Abstract: A compound of formula (IV): O is a solid support; L is a linking group or a single bond; X? is selected from CO, NH, S, or O; A is O, S, NH, or a single bond; R2 and R3 are independently selected from: H, R, OH, OR, ?O, ?CH—R, ?CH2, CH2—CO2R, CH2—CO2H, CH2—SO2R, O—SO2R, CO2R, COR, CN and there is optionally a double bond between C1 and C2 or C2 and C3; R6, R7, and R9 are independently selected from H, R, OH, OR, halo, nitro, amino, Me3Sn; R11 is either H or R; Q is S, O or NH; R10 is a nitrogen protecting group; and Y is a divalent group such that HY?R, and other related compounds and collections of compounds.

Abstract: An article such as a biosensor having a nonfouling surface thereon is described. The article comprises: (a) a substrate having a surface portion; (b) a linking layer on the surface portion; (c) a polymer layer comprising brush molecules formed on the linking layer; and (d) optionally but preferably, a first member of a specific binding pair (e.g., a protein, peptide, antibody, nucleic acid, etc.) coupled to the brush molecules. The polymer layer is preferably formed by the process of surface-initiated polymerization (SIP) of monomeric units thereon. Preferably, each of the monomeric units comprises a monomer (for example, a vinyl monomer) core group having at least one protein-resistant head group coupled thereto, to thereby form the brush molecule on the surface portion. Methods of using the articles are also described.

Abstract: The present invention relates to the fields of life sciences and biological processes. Specifically, the invention relates to microarrays and live cell based screening and molecular analysis. More specifically, the present invention relates to novel methods for the screening of the effects of a test compound on cells, for molecular analysis of the cells and for producing a microarray. The present invention also relates to cell arrays and the use of arrays for molecular analysis of the cells or for the screening of agents.

Abstract: A process for making a micro-array. The process comprises the step of depositing a population of microbeads on a substrate having at least one fiducial. The population being comprised of at least two sub-populations, preferably multiple sub-populations, each comprising a known active agent capable of specific binding with at least one target analyte. The said subpopulations are deposited sequentially and at discrete periods of each other. The process also comprises the step of making images of the substrate after deposition of each subpopulation. The images are then compared using the fiducial as a reference to thereby determine the location of each microbead and to identify the subpopulation, and its known active agent, based on differences between each image. Also disclosed in a system for using the microarray.

Abstract: Specialized microfluidic networks are utilized to deposit substances on sensor surfaces. In particular, a flow-based microfluidic printhead is used as an interface to deliver multiple analytes to a sensor for simultaneous analysis. Furthermore, internal referencing is incorporated into sensor regions for improved sensitivity.

Abstract: Disclosed are substrates for detecting one or more target molecules and methods for detecting molecules using surface plasmon resonance.

Abstract: Disclosed are methods for direct characterization of microdomains and/or three-dimensional microstructure arrays bearing high densities of reactive sites using Matrix Assisted Laser Desorption Ionization Time of Flight Mass Spectrometery (MALDI-MS) and other analytical techniques. The high site density of the arrays can provide sufficient sample of each array element and/or materials bound to each element to obtain directly using common analytical techniques such as MALDI-MS. Spatially directed synthesis of heteropolymers is done through the use of pliotolabile, electrically labile, and chemically labile protecting group(s).

Abstract: The present invention provides novel arrays of oligonucleotide probes immobilized on a solid support in the form of a chip (millichip), which can be used for rapid and inexpensive analysis of nucleic acids. The arrays can have a plurality of different oligonucleotide probes that can provide for whole genome gene expression analysis. The millichip can be used for analysis of both RNA and DNA.

Abstract: The present invention relates to an apparatus 1 for transferring cells 2 suspended in a fluid 3 from the fluid 3 to a substrate 17. The apparatus 1 comprises a transfer device 8 having an exterior surface 9, an interior cavity 10, and a plurality of passages 11 each having a first end 12 at the exterior surface 9 and a second end 13 in fluid 5 communication with the cavity 10 and each having a diameter corresponding to a predefined size of the cells 2 to be transferred. The apparatus further comprises a pressure regulating device 14 capable of regulating a pressure in the cavity 10 so as to establish a pressure difference between the first and second ends 12, 13 of each passage 11, a container 4 for containing the fluid 3, and a flow device 7 capable of causing the fluid 3 to flow across the 10 exterior surface 9 when in contact with the fluid 3.

Abstract: A method comprises: (i) providing a tip and a substrate surface, (ii) disposing a patterning composition at the end of the tip, (iii) depositing at least some of the patterning composition from the tip to the substrate surface to form a deposit disposed on the substrate surface, wherein the patterning composition comprises at least one patterning species, at least one carrier that is different from the patterning species, and at least one additive different from the patterning species and the carrier.

Abstract: The disclosure relates to nanotube composite structures and related methods and systems. In particular, structures, methods and systems are provided herein to allow for precise, tunable separation between nanomaterials such as carbon nanotubes.

Abstract: Microarray devices fabricated using microfluidic reagent distribution techniques are provided. As described herein, the invention encompasses microfluidic microarray assemblies (MMA) and subassemblies and methods for their manufacture and use. In one embodiment first and second channel plates are provided which may be sealed to a test chip in consecutive steps. Each channel plate includes microfluidic channels configured in a predetermined reagent distribution pattern. For example, the first channel plate may have a radial (linear) reagent distribution pattern and the second channel plate may have a spiral (curved) reagent distribution pattern, or vice versa. In one embodiment the first channel plate is connected to the test chip and at least one first reagent is distributed on the test chip in a first predetermined reagent pattern. The first reagent is then immobilized on the test chip.

Abstract: It is an object of the present invention to provide a method for producing a biomolecule assay chip using a microreactor technique, and a chip produced by the method.

Abstract: A method and device are presented for modifying parameters of a solid material. This is implemented by applying radiation, such as photon flux and/or charged particle beam and/or heat, to at least a region of the material, and controlling at least one parameter of the applied radiation, thereby modifying a wettability property of the material within the irradiated region(s) thereof in a reversible manner.

Abstract: Disclosed are a nucleic acid chip for obtaining binding profiles between unknown biomolecules and single-stranded nucleic acids, a method for manufacturing the chip, and a method for analyzing the unknown biomolecules using the chip. The nucleic acid chip is used to analyze biological significance of the unknown biomolecule in the biospecimen. The nucleic acid chip can be manufactured by reacting a biospecimen containing an unknown biomolecule with random single-stranded nucleic acids having random base sequences to determine biomolecule-binding single stranded nucleic acids capable of binding the unknown biomolecule; and synthesizing capture single stranded nucleic acids composed of the determined biomolecule-binding single stranded nucleic acids and/or single stranded nucleic acids having base sequences complementary to those of said determined biomolecule-binding single stranded nucleic acids and affixing the capture single stranded nucleic acids on a substrate.

Abstract: The invention relates to novel classes of nucleotides that can be used as substrates for enzymes, e.g. for labeling nucleic acids.

Abstract: Nanochannel arrays that enable high-throughput macromolecular analysis are disclosed. Also disclosed are methods of preparing nanochannel arrays and nanofluidic chips. Methods of analyzing macromolecules, such as entire strands of genomic DNA, are also disclosed, as well as systems for carrying out these methods.

Abstract: Disclosed are D-peptides and libraries of D-peptides comprising aromatic D-amino acids. Also disclosed are methods for identifying small D-peptides comprising aromatic D-amino acids that bind to proteins of interest.

Abstract: The present invention aims to improve detecting accuracy and reproducibility of a biomolecule sensor. The biomolecule sensor of the present invention includes single probe molecules orderly aligned and fixed on grid points on the surface of a substrate. Accordingly, in the biomolecule sensor of the present invention: probe molecules for detecting a biomolecule are orderly aligned and separately fixed; blocking for preventing non-specific adsorption is applied to a region other than the region of the probe molecules for detecting a biomolecule; and fluorescence enhancement is achieved by metal microparticles.

Abstract: The present invention relates to a method of preparing a library of resins which are useful in chromatography, which method comprises creating a diversity of multi-modal ion exchange resins; and providing the diversity in a parallel system in which each resin is presented separated from the other resin(s).

Abstract: Massive parallel printing of structures and nanostructures, including lipids, at high speed with high resolution and high quality using two dimensional arrays comprising cantilevers and tip-based transfer of material to a surface. The array is designed so only tips touch the surface. This can be accomplished by long tips and bent cantilevers and alignment. An article comprising: a two-dimensional array of a plurality of cantilevers, wherein the array comprises a plurality of base rows, each base row comprising a plurality of cantilevers, wherein each of the cantilevers comprise tips at the cantilever end away from the base, wherein the number of cantilevers is greater than 250, and wherein the tips have an apex height relative to the cantilever of at least four microns, and a support for the array. Combinatorial arrays and bioarrays can be prepared. The arrays can be manufactured by micromachining methods.

Abstract: The present invention relates to a peptide nucleic acid (PNA) conjugated with multi-amine linkers, and a method to prepare the same and utilization thereof. More specifically, the method is characterized by conjugating monomers having multi-amine functionality sequentially at a PNA terminal, and effectively immobilizing the PNA conjugated with multi-amine linkers on a solid surface. A PNA array prepared using the PNA conjugated with multi-amine linkers exhibits improved sensitivity and specificity of signals for detecting target nucleic acids as compared to a PNA array using PNA probes having only one amine group. The PNA conjugated with multi-amine linkers can be utilized in nucleic acid detecting devices or kits for gene diagnosis such as PNA microarrays, PNA chips, PNA field-effect transistors and impedance detectors.

Abstract: A method for selectively immobilizing a molecule of interest on a substrate is disclosed. A substrate having a first surface component and a second surface component is provided. The first and second surface components have different surface characteristics. The molecule of interest is selectively coupled to the first surface component based upon a difference between the surface characteristics of the first surface component and the surface characteristics of the second surface component.

Abstract: A method for preferentially localizing desired molecules within an optical confinement disposed upon a substrate is disclosed. The desired molecules are deposited over the surface of the substrate. The desired molecules that are not within the optical confinement are selectively removed from the surface of the substrate.

Abstract: The present invention provides methods and compositions to facilitate determining whether an EGFR-expressing cancer in an individual is an EGFR inhibitor-responsive cancer, as well as methods for determining the likelihood that a patient having an EGFR-expressing cancer will exhibit a beneficial response to an EGFR inhibitor therapy. The methods generally involve determining a normalized expression level of a gene product that correlates with EGFR inhibitor responsiveness.

Abstract: The present invention relates to a method for expressing a target protein on the surface of a microorganism using Bacillus anthracis exosporium protein. More particularly, to an expression vector constructed such that it comprises bclA gene encoding Bacillus anthracis exosporium protein BclA or fragments thereof as a cell surface anchoring motif and the target protein can be expressed on the surface of a cell in a form fused with BclA or a fragment thereof when the gene encoding the target protein is expressed in a host cell, as well as, a method for expressing a target protein on the surface of a microorganism using the vector.

Abstract: The present invention relates to methods and devices for amplifying nucleic acid, and, in particular, amplifying so as to generate products on a surface without the use of emulsions. In a preferred embodiment, a plurality of groups of amplified product are generated on the surface, each group positioned in different (typically predetermined) locations on said surface so as to create an array.

Abstract: The invention provides a microcapsule array comprising a plurality of microcapsules immobilised on a surface, optionally in microwells in said surface. Each of the microcapsules comprises an outer layer or shell defining a microcapsule interior, said outer layer having a permeability towards a nanoscale species which is dependent on an environmental condition to which said array is exposed.

Abstract: The invention relates to sensor compositions comprising a composite array of individual arrays, to allow for simultaneous processing of a number of samples. The invention further provides methods of making and using the composite arrays. The invention further provides a hybridization chamber for use with a composite array.

Abstract: A method of selecting a set of normalization probes for use on a comparative genome hybridization array is provided. In certain embodiments, the method includes: a) selecting a first region of a genome to be evaluated by comparative genome hybridization to produce data; b) selecting a second region of the genome for normalization of the data, and c) selecting from a set of candidate probes a sub-set of normalization probes that detect the second region.

Abstract: The present invention provides biochips that include: (a) a plurality of cards, each card having a plurality of card apertures extending therethrough, each respective card aperture having one or more cross sectional areas; and (b) a plurality of gaskets, at least one gasket residing intermediate two neighboring cards, each gasket having a plurality of gasket apertures extending therethrough. At least some of the gasket apertures have an area that is greater than that of at least one adjacent card aperture. Different sets of the gasket apertures and card apertures define a plurality of fluidic flow channels. Also provided herein are methods of making and using biochips.

Abstract: Devices formed as optically readable substrates are provided having a high feature density (e.g., attachment or deposition sites) in arrays comprising macromolecules, specifically amplicons, and devices and methods are provided for analysis of target nucleic acids having an undetermined sequence.

Abstract: Disclosed is a method comprising disposing a functionalized patternable material on a substrate, wherein the functionalized patternable material comprises a first click chemical moiety; patterning the functionalized patternable material; and reacting the first click chemical moiety with a complementary reactant to form an functionalized patterned surface, the complementary reactant comprising a second click chemical moiety that reacts with the first click chemical moiety; the complementary reactant comprising an functional group.

Abstract: UV/ozone treatment can be used to alter the hydrophobicity of organosilane coated surfaces. Methods are contemplated for producing micropatterned surfaces by coating a surface with an organosilane to produce an organosilane surface; and exposing the organosilane surface to ultraviolet light in the presence of oxygen, wherein the micropatterned organosilane surface is produced without the use of photoresist. Methods for producing substrate-micropatterned surfaces further are also contemplated. Suitable substrates include nucleotides, proteins, carbohydrates, and cells. The organosilane coated devices of the present invention may be used in, for example, arrays.

Abstract: The present disclosure relates generally to compositions and methods for the reuse of arrays, including microarrays. Specifically, the present disclosure discloses polynucleotide targets comprising nucleotide analogs that are not present within the probe polynucleotides immobilized on the array. The nucleotide-analog containing targets can be chemically modified to reduce their thermal stability and thus easier to remove from the array. In preferred embodiments, the disclosure relates to DNA probes hybridized to single-stranded deoxyribouridine-containing targets, the targets subsequently being chemically modified using a uracil DNA glycosylase and/or nuclease. Accordingly, the disclosure allows for the glycosylase treated, deoxyuridine-containing targets to be removed from the array by exposure to less stringent denaturing conditions than otherwise would have been required.

Abstract: The present invention provides diverse chemical libraries bound to small particle with paramagnetic properties. Typically, the chemical structures comprise a plurality of different chemical moieties, the particles are paramagnetic and have a diameter between about 100 nm and about 10 microns, the chemical structures bound to each particular particle have substantially the same structure and the combinatorial library comprises at least 100,000 different chemical structures.

Abstract: The present invention provides methods and devices for making new and inexpensive miniarrays suitable for gene expression analysis. Also provided herein are methods of diagnosis for specific tissue or condition using specialized diagnostic miniarrays that exhibit specific visual pattern as diagnostic readout.

Abstract: Methods and kits for preparing nucleic acid fragments from a sample of purified nucleic acid are provided. Alternatively, chromatin or other long polymers can be sheared with similar methods and kits.

Abstract: The present invention relates to methods and devices for amplifying nucleic acid, and, in particular, amplifying so as to generate products on a surface without the use of emulsions. In a preferred embodiment, a plurality of groups of amplified product are generated on the surface, each group positioned in different (typically predetermined) locations on said surface so as to create an array.

Abstract: The invention relates to a method for preparing a grafted homodetic cyclopeptide forming a frame defining two surfaces, one surface being known as the upper surface and the other surface being known as the lower surface, both surfaces being grafted, characterized in the a linear peptide is synthesized, said synthesis is being carried out on modified amino acids or not, some of which include orthogonal protector groups, intramolecular cyclization of the protected linear peptide thus obtained is performed, all or part of the orthogonal protector groups are substituted by a protected precursor, and at least one molecule of therapeutic interest is grafted on one and/or the other surface of the frame by means of an oxime link.

Abstract: The invention relates to improved methods of identifying the genomic regions to which a protein of interest binds, and in particular, to methods that apply to stem cells such as but not limited to; embryonic stem cells and adult stem cells. The invention also provides methods of identifying agents which modulate differentiation of stem cells. The invention also provides methods of defining the differentiation potential of a cell and of designing array oligonucleotides.

Abstract: Arrays containing a transcriptome of a diseased tissue and methods of using the arrays for diagnosis, prognosis, screening, and identification of disease are provided herein. The transcriptome arrays from diseased tissue are useful for diagnosis of a disease by analysis of the genetic profile of a tissue sample specific to a disease state. The genetic profiles are then correlated with data on the effectiveness of specific therapeutic agents. Correlating expression profiles to the effectiveness of therapeutic agents provides a way to screen and select further patients predicted to respond to those therapeutic agents, thereby minimizing needless exposure to ineffective therapy.

Abstract: The invention relates to processes and devices for the controlled fabrication of nanostructures from starting components that have high fidelity recognition properties and multiple binding groups. In one embodiment, the invention relates to the formation of nanostructures using controlled sequential addition of nanocomponents at regular intervials via sequential formation of binding pairs or other chemical binding reactions.