Patent application number | Description | Published |
20090017547 | SYSTEMS AND METHODS FOR DNA COMPUTING USING METHYLATION - The present disclosure is directed to new methods and systems performing flexible and reversible modification of DNA in order to establish the logical value of true or false for a set of clauses. It combines both the biological meaning and experimental procedure with the logical implementation of the basic Boolean operators: OR, AND, and NOT. A feature of methylation logic is the use of the reversibility of DNA methylation of cytosine and adenine. Logic variables can be negated by reversing the DNA methylation status. Four implementation scenarios are described: three of them use methyl-sensitive restriction enzymes and the fourth uses methyl-binding proteins. Encoding can use either single or double stranded DNA. In addition, the disclosure allows for solving a multi-variable SAT problems by implementing a logic circuit. | 01-15-2009 |
20090119704 | METHOD AND APPARATUS TO CATCH UP WITH A RUNNING BROADCAST OR STORED CONTENT | 05-07-2009 |
20090129647 | METHODS AND SYSTEMS FOR IDENTIFICATION OF DNA PATTERNS THROUGH SPECTRAL ANALYSIS - Spectrogram extraction from DNA sequence has been known since 2001. A DNA spectrogram is generated by applying Fourier transform to convert a symbolic DNA sequence consisting of letters A, T, C, G into a visual representation that highlights periodicities of co-occurrence of DNA patterns. Given a DNA sequence or whole genomes, with this method it is easy to generate a large number of spectrogram images. However, the difficult part is to elucidate where are the repetitive patterns and to associate a biological and clinical meaning to them. The present disclosure provides systems and methods that facilitate the location and/or identification of repetitive DNA patterns, such as CpG islands, Alu repeats, tandem repeats and various types of satellite repeats. These repetitive elements can be found within a chromosome, within a genome or across genomes of various species. The disclosed systems and methods apply image processing operators to find prominent features in the vertical and horizontal direction of the DNA spectrograms. Systems and methods for fast, full scale analysis of the derived images using supervised machine learning methods are also disclosed. The disclosed systems and methods for detecting and/or classifying repetitive DNA patterns include: (a) comparative histogram method, (b) feature selection and classification using support vector machines and genetic algorithms, and (c) generation of spectrovideo from a plurality of spectral images. | 05-21-2009 |
20090132510 | DEVICE FOR ENABLING TO REPRESENT CONTENT ITEMS THROUGH META SUMMARY DATA, AND METHOD THEREOF - The invention relates to a method of enabling to represent content items, the method comprising a step of obtaining a plurality of content item summary data of a respective one of the content items. The invention also relates to a device ( | 05-21-2009 |
20090196464 | Continuous face recognition with online learning - System and method of face classification. A system ( | 08-06-2009 |
20100008554 | METHOD TO AUTOMATICALLY DECODE MICROARRAY IMAGES - A method of automatically identifying the microarray chip corners and probes, even if there are no probes at the corners, in a high density and high resolution microarray scanned image having an image space, wherein the method minimizes the error distortions in the image arising in the scanning process by applying to the image a multipass corner finding algorithm comprising: (a) applying a Radon transform to an input microarray image to project the image into an angle and distance space where it is possible to find the orientation of the straight lines; (b) applying a fast Fourier transform to the projected image of (a) to find the optimal tilting angle of the projected image; (c) determining the optimal first and last local maxima for the optimal tilting angle; (d) back projecting the determined first and last local maxima to the image space to find the first approximation of the first and last column lines of the image; (e) rotating the image and repeating steps (a) through (d) to find the first approximation of the top and bottom row lines of the image; (f) determining the first approximation of the four corners of the image from the intersection of the column and row lines; (g) applying a heuristic for determining if the first approximation of step (f) is sufficient; and (h) optionally trimming the scanned image around the first approximation of the four corners and repeating steps (a) through (f). | 01-14-2010 |
20100106078 | METHOD OF CONTROLLING A RELEASE OF A MATERIAL CARRIED BY ULTRASOUND SENSITIVE PARTICLES - This invention relates to a method and an apparatus of controlling a release of a material carried by ultrasound sensitive particles, the release being caused by irradiating the ultrasound sensitive particles with an ultrasonic pulse having acoustic properties selected so as to interact with the ultrasound sensitive particles and thus causing the release of the material. The ultrasound sensitive particles comprise sub-groups of ultrasound sensitive particles, the ultrasound sensitive particles within the same sub-group having their respective acoustic property causing each respective sub-group to interact independently with the sound wave. | 04-29-2010 |
20100239502 | IN VIVO EXPRESSION ANALYSIS USING ULTRASOUND-INDUCED TRANSFECTION OF REPORTER CONSTRUCTS - The invention features compositions and methods for in vivo expression analysis. The data presented herein demonstrates that ultrasound-enhanced delivery and/or expression of a composition for expression analysis comprising microbubbles vectors as well as a genetic payload, comprising a “always-on” promoter, a “reference” reporter gene, a “query” promoter and an “answer” reporter gene, enables in vivo analysis of gene expression both without requiring prior preparation (especially genetic modification) of the test subject (animal or patient) and without causing long term or systemic effects on the subject. Such an invention can be used, for example, to query the epigenotypic or phenotypic response of the individual subject to a foreign effector substance such as a pyrogen, pharmaceutical compound, pharmaceutical lead compound, an allergen, an autoimmunogene, a toxin, a polyclonal antibody, a monoclonal antibody, an antigen, a lipid, a carbohydrate, a peptide, a protein, a protein-complex, an amino acid, a fatty acid, a nucleotide, DNA, RNA, PNA, siRNA and micro RNA. | 09-23-2010 |
20110077964 | MEDICAL ANALYSIS SYSTEM - The present invention relates to effective diagnosis of patients and assisting clinicians in treatment planning. In particular, invention provides a medical analysis system that enables refinement of molecular classification. The system provides a molecular profiling solution that will allow improved diagnosis, prognosis, response prediction to provide the right chemotherapy, and follow-up to monitor for cancer recurrence. | 03-31-2011 |
20120016826 | EVOLUTIONARY CLUSTERING ALGORITHM - The invention relates to selecting a set of candidate genes from a pool of genes. The method comprising receiving a set of gene data; arranging the set of gene data into a set of clusters with similar profiles by use of a clustering algorithm; and inputting the set of clusters into a genetic algorithm to select a set of candidate genes from the set of clusters. The method thus relates to hybrid between selection by clustering computation and selection by evolutionary computation. This hybrid is also referred to as an evolutionary clustering algorithm (ECA). | 01-19-2012 |
20120036116 | METHOD AND DEVICE FOR EFFICIENT SEARCHING OF DNA SEQUENCE BASED ON ENERGY BANDS OF DNA SPECTROGRAM - The present invention discloses a method for DNA sequence analysis based on DNA spectrogram database. Furthermore, a use, a device and a computer-readable medium related to the method are disclosed. | 02-09-2012 |
20130090257 | PATHWAY ANALYSIS FOR PROVIDING PREDICTIVE INFORMATION - A method for assigning ranking scores to pathways in a set of pathways for classifying patients is disclosed. The method comprises the steps of comparing biomolecular datasets from different groups of patients and performing an analysis in order to assign ranking scores to pathways in a set of pathways. Furthermore, a method for using cancer pathway evaluation to support clinical decision making is disclosed. This assessment is further used for stratifying ovarian cancer patients based on chemosensitivity to platinum based drugs, the standard chemotherapy. We present the method for evaluation and ranking of the most relevant pathways responsible for platinum sensitivity. Clinical decision support software system should be able to then visualize this information for a clinician, contextualize it within a patient data set and help make a final decision on the potential responsiveness. | 04-11-2013 |
20130102483 | METHODS FOR THE ANALYSIS OF BREAST CANCER DISORDERS - The present invention relates to methods, arrays and computer programs for assisting in classifying breast cancer diseases. In particular the invention relates to classifying breast cancer disorders by determining the methylation status of one or more sequences according to SEQ ID NO: 1-111. The classification may be further strengthened by also taking the expression levels of one or more proteins into account. | 04-25-2013 |
20130196877 | IDENTIFICATION OF MULTI-MODAL ASSOCIATIONS BETWEEN BIOMEDICAL MARKERS - The present invention relates to a method for identifying multi-modal associations between biomedical markers which allows for the determination of network nodes and/or high ranking network members or combinations thereof, indicative of having a diagnostic, prognostic or predictive value for a medical condition, in particular ovarian cancer. The present invention further relates to a biomedical marker or group of biomedical markers associated with a high likelihood of responsiveness of a subject to a cancer therapy, preferably a platinum based cancer therapy, wherein said bio-medical marker or group of biomedical markers comprises at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 8, 19, 20 or all markers selected from PKMYT1, SKIL, RAB8A, HIRIP3, CTNNB1, NGFR, ZCCHC11, LSP1, CD200, PAX8, CYBRD1, HOXC11, TCEAL1, FZD10,FZD1, BBS4, IRS2, TLX3, TSPAN2, TXN, and CFLAR. Furthermore, an assay for detecting, diagnosing, graduating, monitoring or prognosticating a medical condition, or for detecting, 1 diagnosing, monitoring or prognosticating the responsiveness of a subject to a therapy against said medical condition, in particular ovarian cancer, is provided, as well as a corresponding method for classifying a subject comprising and a medical decision support system. | 08-01-2013 |
20130226621 | IN VITRO DIAGNOSTIC TESTING INCLUDING AUTOMATED BROKERING OF ROYALTY PAYMENTS FOR PROPRIETARY TESTS - A method comprises: recording an electronic record of diagnostic events including the performing of in-vitro diagnostic tests; during the recording, identifying the performing of a licensed in-vitro diagnostic test for which license information is stored in a licenses database; and computing license compensation due to a licensor for the performing of the licensed in-vitro diagnostic test based on royalty calculation information stored in the licenses database. The recording, identifying, and computing operations are performed by one or more computers. The method may further include remitting the computed license compensation to the licensor, the remitting also being performed by one or more computers. The licensed in-vitro diagnostic test may comprise a licensed biomarker test, for example one obtained by DNA or RNA sequencing, and the method may further comprise: performing the licensed biomarker test using a genome sequencer, wherein the performing of the licensed biomarker test and the computing of license compensation are both performed at a single medical facility. | 08-29-2013 |
20130282404 | INTEGRATED ACCESS TO AND INTERATION WITH MULTIPLICITY OF CLINICA DATA ANALYTIC MODULES - A state machine ( | 10-24-2013 |
20140040264 | METHOD FOR ESTIMATION OF INFORMATION FLOW IN BIOLOGICAL NETWORKS - The present invention relates to a method for stratifying a patient into a clinically relevant group comprising the identification of the probability of an alteration within one or more sets of molecular data from a patient sample in comparison to a database of molecular data of known phenotypes, the inference of the activity of a biological network on the basis of the probabilities, the identification of a network information flow probability for the patient via the probability of interactions in the network, the creation of multiple instances of network information flow for the patient sample and the calculation of the distance of the patient from other subjects in a patient database using multiple instances of the network information flow. The invention further relates to a biomedical marker or group of biomedical markers associated with a high likelihood of responsiveness of a subject to a cancer therapy wherein the biomedical marker or group of biomedical markers comprises altered biological pathway markers, as well as to an assay for detecting, diagnosing, graduating, monitoring or prognosticating a medical condition, or for detecting, diagnosing, monitoring or prognosticating the responsiveness of a subject to a therapy against said medical condition, in particular ovarian cancer. Furthermore, a corresponding clinical decision support system is provided. | 02-06-2014 |
20140107936 | CROSS-MODAL APPLICATION OF COMBINATION SIGNATURES INDICATIVE OF A PHENOTYPE - The present invention relates to a method of adapting a composite signature of a phenotype. The method comprises the steps of providing for a composite signature of a phenotype with at least two different data types, which were respectively generated by two different modalities of measuring a specimen. Due to an adaption of one part of the signature of the phenotype the resulting adapted phenotype signature can be used as an input for a signature evaluation tool that was derived from data measured by a third modality of measurement. | 04-17-2014 |
20140249764 | Method for Assembly of Nucleic Acid Sequence Data - The present invention relates to a method for assembly of nucleic acid sequence data comprising nucleic acid fragment reads into (a) contiguous nucleotide sequence segment(s), comprising the steps of: (a) obtaining a plurality of nucleic acid sequence data from a plurality of nucleic acid fragment reads; (b) aligning said plurality of nucleic acid sequence data to a reference sequence; (c) detecting one or more gaps or regions of non-assembly, or non-matching with the reference sequence in the alignment output of step (b); (d) performing de novo sequence assembly of nucleic acid sequence data mapping to said gaps or regions of non-assembly; and (e) combining the alignment output of step (b) and the assembly output of step (d) in order to obtain (a) contiguous nucleotide sequence segment(s). In addition, a corresponding program element or computer program for assembly of nucleic acid sequence data and a sequence assembly system for transforming nucleic acid sequence data comprising nucleic acid fragment reads into (a) contiguous nucleotide sequence segment(s) is provided. | 09-04-2014 |
20140365243 | RETROACTIVE EXTRACTION OF CLINICALLY RELEVANT INFORMATION FROM PATIENT SEQUENCING DATA FOR CLINICAL DECISION SUPPORT - A catalog ( | 12-11-2014 |
20140379379 | SYSTEM AND METHOD FOR REAL TIME CLINICAL QUESTIONS PRESENTATION AND MANAGEMENT - In a clinical decision support method, outputs of computer-implemented analytical modules are computed for a patient. Information is displayed for the patient pertaining to a clinical question comprising outputs computed for the patient of analytical modules associated with the clinical question. The analytical modules may include modules configured to perform in silico genetic/genomic tests using genetic/genome sequencing (whole genome, whole exome, whole transcriptome, targeted gene panels, etc) or microarray data. A clinical question-module matrix (CQ-M matrix) may be generated for the patient associating clinical questions with analytical modules, and the method may further include populating the clinical questions with outputs computed for the patient of the analytical modules associated with the clinical questions by the CQ-M matrix. Such populating advantageously re-uses outputs computed for the patient when an analytical module is associated with two or more different clinical questions by the CQ-M matrix. This system empowers the clinician to focus on the clinical aspects of patient management while allowing the data complexities of patient genomic data interpretation to be handled by the clinical decision support system. | 12-25-2014 |
20150058322 | PATHWAY VISUALIZATION FOR CLINICAL DECISION SUPPORT - When generating visual representations of gene activity pathways for clinical decision support, a validated pathway database that stores a plurality of validated pathways is accessed, wherein each pathway describes at least one interaction between a plurality of genes. A processor ( | 02-26-2015 |