Bioarray Solutions Ltd.

Bioinventors & Entrepreneurs Network, LLC

Other

Bioinventors & Entrepeneurs Network LLC

New York Blood Center, Inc.

Bct Holdings, Inc.

Seul, Michael

Reid, Marion E.

Michael Seul

Sukanta Banerjee

Chiu Wo Chau

Ghazala Hashmi

Jiacheng Yang

Xiongwu Xia

Kairali Podual

Ye Hong

Tatiana Vener

Alice Xiang Li

Joachim Messing

Yi Zhang

Scott Determan

Hui Huang

Cecilia Georgescu

Enqing Tan

Michael D Pierce

Marion E Reid

Andreas Gocksch

Nataliya Korzheva

Reinhard Klemm

Pedro Cano

Michael Pierce

Bhubaneswar Mishra

Richard H Ebright

Victoria Laurentia Dimonie

Eric Scott Daniels

Vera Cherepinsky

Robert James Danegy

Richard Klemm

Xia Xiongwu

The invention relates to a semantic data acquisition, storage and presentation system comprising SentenceClasses wherein SentenceClasses comprise SentenceClassLabels and SentenceClassData, each such label in the form of a RelationalPhrase or an alias thereof, and data, for each class, organized in conformance with the class-defining relation, as expressed in the form of the RelationalPhrase. Instantiation of SentenceClasses, by replacing substitution variables in RelationalPhrases with associated items of SentenceClassData, produces Sentences that provides context to the instantiated items. The system of the invention also comprises methods and processes including for: acquiring, transforming and recording data; operating on SentenceClasses including forming new SentenceClasses; and instantiating, rendering and presenting Sentences in human or machine-readable format.

Semantic data acquisition, storage and presentation system

Disclosed herein is a PRocess Orchestration and Repository Origination Code ('PROC') for simultaneously configuring a data repository, preferably in the form of a structured data container, and encoding a workflow for populating the data container with items of information from designated decentralized sources of disparate type and format. PROC provides a general-purpose method for compiling, transforming and presenting items of information in a data container according to a preset standard governing structure and content. PROC encodes both the structure of the data container as well as the process for procuring and distributing the intended content. Accordingly, PROC provides a method for the real-time integration of primary data from disparate decentralized sources, including sources dynamically created during Script execution, and items of information derived from primary data, into a persistent or temporary structured container.

Structured data containers and their use in making an electronically transmissible information product

Code for configuring and populating structured data containers to automate the creation of (electronically transmissible) information products and methods of use

The invention relates to jCode programs which perform programmatic creation of strings comprising hyperlinked data and references thereto, and to the programmatic creation of documents, including XML documents and other format documents, referencing internal and external data sources. JSON can be used to express jCode programs, as can other custom designed languages, or XML or YAML.

Programmatic creation of dynamically configured, hierarchically organized hyperlinked XML documents for presenting data and domain knowledge from diverse sources

The invention provides methods and processes for the identification of polymorphisms at one ore more designated sites, without interference from non-designated sites located within proximity of such designated sites. Probes are provided capable of interrogation of such designated sites in order to determine the composition of each such designated site. By the methods of this invention, one ore more mutations within the CFTR gene and the HLA gene complex can be identified.

Multiplexed analysis of polymorphic loci by concurrent interrogation and enzyme-mediated detection

Disclosed are methods of multiplexed analysis of oligonucleotides in a sample, including a method of preventing a significant reduction in duplexes detectable in a hybridization assay involving (i) selecting probe lengths for sets of oligonucleotide probes, wherein probes include different subsequences such that at least one subsequence is complementary to a subsequence in a cognate target; wherein probes for longer cognate targets are longer in length than probes for shorter cognate targets, (ii) selecting, for each set of probes, a density of oligonucleotides probes attached per unit area on a solid phase carrier which is below a limit at which the significant reduction in detectable duplexes is predicated to take place, (iii) producing the probes and affixing them to different solid phase carriers at the selected density, and (iv) annealing targets to the probes, wherein signal intensities of probes and targets of different lengths are about the same.

Optimization of gene expression analysis using immobilized capture probes

A process of identifying a plurality of biological samples having particular desired attributes by testing pooled samples and selecting, for intended uses such as transfusion, or for subsequent analysis that is thereby enriched for such samples, pooled samples which have, or may have, said desired attributes. The preferred number of samples per pool 'd' is determined by selecting an integer value as d which produces the maximum or a value near the maximum of the product of: d times the expected number of unambiguous sample pools, where a sample pool is unambiguous if all of the samples have the desired attributes, and is otherwise ambiguous if at least one sample has the desired attributes. The value selected as d can be greater than the maximum product above, so as to enlarge the total number of samples assayed in determining the desired attributes.

Attribute sieving and profiling with sample enrichment by optimized pooling

This invention provides high unit density arrays of microparticles and methods of assembling such arrays. The microparticles in the arrays may be functionalized with chemical or biological entities specific to a given target analyte. The high unit density arrays of this invention are formed on chips which may be combined to form multichip arrays according to the methods described herein. The chips and/or multichip arrays of this invention are useful for chemical and biological assays.

Arrays of microparticles and methods of preparation thereof

Systems and methods are provided the autocentering, autofocusing, acquiring, decoding, aligning, analyzing and exchanging among various parties, images, where the images are of arrays of signals associated with ligand-receptor interactions, and more particularly, ligand-receptor interactions where a multitude of receptors are associated with microparticles or microbeads. The beads are encoded to indicate the identity of the receptor attached, and therefore, an assay image and decoding image are aligned to effect the decoding. The images or data extracted from such images can be exchanged between de-centralized assay locations and a centralized location where the data are analyzed to indicate assay results. Access to data can be restricted to authorized parties in possession of certain encoding information, so as to preserve confidentiality.

Analysis, secure access to, and transmission of array images

A method of selecting nucleic acid samples including particular desired alleles from a plurality of nucleic acid samples including the steps of performing a first reaction in a plurality of pools containing the samples to produce reaction products including a source tag identifying said each pool; pooling the pools to provide pooled pools; for each of the desired alleles to be identified, performing a second reaction using said reaction products to produce allele-specific second reaction products comprising a marker tag and a derived source tag; identifying said allele-specific second reaction products, and further identifying nucleic acid samples with the desired alleles. A source tag sharing number 'd' may be determined for each of the alleles. Alleles may also be binned together.

Sieving nucleic acid samples

Sieving and profiling nucleic acid samples

The present invention provides a method for the generation of novel libraries of encoded magnetic particles from sub-libraries of by the generation of novel sub-libraries of magnetic nanoparticles and encoded particles. The sub-libraries are functionalized on demand are useful in the formation of arrays. The present invention is especially useful for performing multiplexed (parallel) assays for qualitative and/or quantitative analysis of binding interactions of a number of analyte molecules in a sample.

Multianalyte molecular analysis using application-specific random particle arrays

Disclosed herein are methods for array assembly and detection. The methods can use an incubation chamber containing a suspension of nucleic acid targets, polymerase and a set of oligonucleotide probes bound to magnetic beads in a randomly dispersed state. Each probe can have a target binding domain that is complementary to a target nucleic acid, a closing domain with a sequence that is complementary to the sequence of the target binding domain, and a joining region between the binding domain and the closing domain, which is not complementary to the target nucleic acid. Method steps can include providing the incubation chamber, placing the incubation chamber in a magnetic trap, generating a magnetic field that induces the magnetic beads to migrate towards a substrate and, once in proximity to the substrate, to interact with each other repulsively and reorganize into arrays, and imaging the array.

Methods for array assembly and detection involving elongation of self-complementary looped probes

Display screen or portion thereof with a graphical user interface

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Fanwood, NJ, United States of America

Michael Seul