Abstract: A stress management system comprises: a first sensor that detects biological data of a user; a second sensor that detects life log data indicating an action history of the user; a generator that generates stress data using the biological data, the stress data indicating a time series variation of a stress level of the user; an estimator that, when the stress level of the user included in the stress data exceeds a first threshold, estimates whether or not stress of the user is interpersonal stress caused by contact with another person, using the life log data; and a notifier that notifies the user of a result of the estimation by the estimator and notifies a notification target person different from the user of notification content based on the result of the estimation by the estimator.

Abstract: Disclosed is a method for calculating a Polymerase Preference Index (PPI) for potential primers for DNA sequencing and/or amplification, and thereby increasing the efficiency of DNA sequencing and/or amplification performed using primers selected according to their PPI number.

Abstract: An information processing apparatus includes a memory and a processor coupled to the memory and configured to extract data having x times y bits from genome data in which a mutation pattern at each gene mutation position is represented as x bits, such that the extracted data is constituted by y data pieces each having x bits at y respective mutation positions, x and y being integers greater than or equal to 1, respectively, to refer to an addend table that stores a plurality of addend data associated with respective x-times-y-bit data to identify addend data corresponding to the extracted data, and to use an SIMD instruction to add the identified addend data to count data at positions corresponding to the y mutation positions in the genome data, the count data indicating counts of occurrences of mutation patterns in the genome data.

Abstract: In an example, an apparatus includes a biological analysis component and a control component. The biological analysis component is configured to obtain an expected biological sample value. The expected biological sample value indicates an expected concentration of a material biologically processed by a courier. The biological analysis component is further configured to determine whether a measured biological sample value is associated with the courier based on a comparison of the expected biological sample value to the measured biological sample value. The control component is configured to perform a first set of operations based on the result of the comparison indicating that the measured biological sample value is associated with the courier. The control component is configured to perform a second set of operations based on the result of the comparison indicating that the measured biological sample value is outside an acceptable range of the biological sample value.

Abstract: An embodiment of a method of analyzing data from processed images of biological probe arrays is described that comprises receiving a plurality of files comprising a plurality of intensity values associated with a probe on a biological probe array; normalizing the intensity values in each of the data files; determining an initial assignment for a plurality of genotypes using one or more of the intensity values from each file for each assignment; estimating a distribution of cluster centers using the plurality of initial assignments; combining the normalized intensity values with the cluster centers to determine a posterior estimate for each cluster center; and assigning a plurality of genotype calls using a distance of the one or more intensity values from the posterior estimate.

Abstract: A method for determination of the amount of a specific analyte in a sample which may show a prozone effect by photometric assays, wherein the specific analyte is quantified from the change in the optical signal of the reaction mixture after the interaction of the analyte with analyte specific assay reagents. The optical signal is measured simultaneously for the specific analyte in the sample to be determined at the wavelength used for the determination of the analyte and at least at an additional specific wavelength used for the detection of the prozone effect over the complete reaction time. The reaction rate ratio R is calculated by using the signals obtained at the wavelength used for the detection of the prozone effect. By comparison of the calculated ratio value R with predetermined limit values it is judged if a prozone effect is present in the sample.

Abstract: A processor-implemented method, computer program product and system are provided for predicting drug-drug interactions based on clinical side effects. The method includes constructing a drug-drug interactions training dataset that includes pharmaceutical, pharmacokinetic or pharmacodynamics drug-drug interactions from multiple data sources for each of a plurality of drugs. The method also includes constructing side effect features for each of the drugs from side effects associated with the drugs. The method further includes building, using the drug-drug interactions training dataset, a drug-drug interactions classifier that predicts adverse drug-drug interactions for drug pairs derivable from the drugs.

Abstract: The invention provides systems and methods for determining patterns of modification to a genome of a subject by representing the genome using a graph, such as a directed acyclic graph (DAG) with divergent paths for regions that are potentially subject to modification, profiling segments of the genome for evidence of epigenetic modification, and aligning the profiled segments to the DAG to determine locations and patterns of the epigenetic modification within the genome.

Abstract: A method and system for selection of a primer set for a set of target sequences includes: identifying candidate fragments upon performance of a comparison operation with the set of target sequences; identifying a forward subset of unique forward candidates and a reverse subset of unique reverse candidates; reducing the forward subset and the reverse subset based on a filtering operation; performing an in silico search operation with the reduced forward subset and the reduced reverse subset; generating a set of candidate degenerate primers based on the in silico search operation and a base mismatch criterion; generating a reduced set of candidate degenerate primers upon filtering the set of candidate degenerate primers according to the set of primer criteria; and selecting forward primer subsets that amplify the set of target sequences and identifying a reverse primer subset for each of the forward primer subsets with an in silico PCR operation.

Abstract: One aspect of the invention provides a method for drift correction to correct a 3D point collection dataset to compensate for drift over time. The method includes: (a) separating the 3D dataset into n segments, wherein n>1; (b) for each of the n segments, reconstructing a volume image as a 3D histogram in which a count for each voxel in the histogram equals a number of localization estimates falling within the voxel; (c) performing 3D cross-correlation between pairs of the n segments; (d) identifying a correlation peak in a result of the 3D cross-correlation to determine a shift distance between pairs of the n segments; (e) solving an overdetermined system of shift distances to determine independent shifts; and (f) offsetting positions from a plurality of segments in the 3D point collection dataset with the independent shifts calculated in step (e) to correct for drift.

Abstract: The workflow application integrates with a research software application associated with a laboratory instrument to provide a user with step-by-step instructions on how to follow the workflow steps of a laboratory experiment. The instructions are dynamically tailored, according to the nature of the workflow, the samples being experimented upon and/or the operating states of the instrument and/or the research software application. The workflow application significantly reduces the learning curve to operate sophisticated laboratory instruments. In a genetic testing instrument the workflow application can prescribe the need for control samples and can optimize the layout of samples within the instrument's sample receiving plate or fixture.

Abstract: The present invention refers to data management unit comprising a data storage (130) adapted to store a plurality of measurement values of the physiological parameter, preferably a blood glucose level, for each measurement value an associated event tag, for each measurement value an associated time stamp, an associated time range for tagging preselection for each of at least two meal events, each time range is preferably user-settable, preferably also for a fasting event an associated time range for tagging preselection, this time range is preferably user-settable, a processor (140) adapted to receive a new measurement value from the data storage (130) or from a measurement unit (110), which is preferably at least shortly connected for data transfer, assign an associated time stamp to the new measurement value, if an associated time stamp does not yet exist with the new measurement value, receive selection data containing the information that the user has selected and/or confirmed one of a “before meal” tag a

Abstract: A method and system for interactive patient-specific simulation of liver tumor ablation is disclosed. A patient-specific anatomical model of the liver and circulatory system of the liver is estimated from 3D medical image data of a patient. A computational domain is generated from the patient-specific anatomical model of the liver. Blood flow in the liver and the circulatory system of the liver is simulated based on the patient-specific anatomical model. Heat diffusion due to ablation is simulated based on a virtual ablation probe position and the simulated blood flow in the liver and the circulatory system of the liver by solving a bio-heat equation for each node on the level-set representation using a Lattice-Boltzmann method (LBM) implementation. Cellular necrosis in the liver is computed based on the simulated heat diffusion. Visualizations of a computed necrosis region and temperature maps of the liver are generated.

Abstract: The invention provides systems and methods for analyzing viruses by representing viral genetic diversity with a directed acyclic graph (DAG), which allows genetic sequencing technology to detect rare variations and represent otherwise difficult-to-document diversity within a sample. Additionally, a host-specific sequence DAG can be used to effectively segregate viral nucleic acid sequence reads from host sequence reads when a sample from a host is subject to sequencing. Known viral genomes can be represented using a viral reference DAG and the viral sequence reads from the sample can be compared to viral DAG to identify viral species or strains from which the reads were derived. Where the viral sequence reads indicate great genetic diversity in the virus that was infecting the host, those reads can be assembled into a DAG that itself properly represents that diversity.

Abstract: An embodiment of the invention provides a method for determining a patient-specific probability of disease. The method collects clinical parameters from a plurality of patients to create a training database. A fully unsupervised Bayesian Belief Network model is created using data from the training database; and, the fully unsupervised Bayesian Belief Network is validated. Clinical parameters are collected from an individual patient; and, such clinical parameters are input into the fully unsupervised Bayesian Belief Network model via a graphical user interface. The patient-specific probability of the healing rate of an acute traumatic wound is output from the fully unsupervised Bayesian Belief Network model and sent to the graphical user interface for use by a clinician in pre-operative planning. The fully unsupervised Bayesian Belief Network model is updated using the clinical parameters from the individual patient and the patient-specific probability of the healing rate of an acute traumatic wound.

Abstract: Gene expression data provides a basis for more accurate identification and diagnosis of lymphoproliferative disorders. In addition, gene expression data can be used to develop more accurate predictors of survival. The present invention discloses methods for identifying, diagnosing, and predicting survival in a lymphoma or lymphoproliferative disorder on the basis of gene expression patterns. The invention discloses a novel microarray, the Lymph Dx microarray, for obtaining gene expression data from a lymphoma sample. The invention also discloses a variety of methods for utilizing lymphoma gene expression data to determine the identity of a particular lymphoma and to predict survival in a subject diagnosed with a particular lymphoma. This information will be useful in developing the therapeutic approach to be used with a particular subject.

Abstract: Embodiments of a method and/or system (e.g., for microsatellite instability detection associated with at least one cancer condition; etc.) can include: determining a microsatellite-related background model; determining one or more loci associated with microsatellite instability based on the microsatellite-related background model; and/or determining a microsatellite instability characterization (e.g., a binary status determination between microsatellite instability such as MSI-H, and microsatellite stability such as MSS; etc.) for the user. Additionally or alternatively, embodiments of the method and/or system can include facilitating treatment provision for one or more users based on the microsatellite instability characterization.

Abstract: The present invention relates to a method of testing whether a patient suffering from arge B-cell lymphoma will respond or not to a DNA repair pathway inhibitor comprising: i) determining the expression level (ELi) of several genes Gi-Gn selected from table A in a biological sample obtained from said patient comparing the expression level (ELi) determined at step i) with a predetermined reference level (ELRi) iii) calculating the DNA repair score trough the following formula (I), wherein ?i represent the regression ? coefficient reference value for the gene Gi and Ci=1 if the expression of the gene Gi (ELi) is higher than the predetermined reference level (ELRi) or Ci=?1 if the expression of the gene (ELi) is lower than or equal to the predetermined reference level (ELRi) iv) comparing the score DNARS determined at step iii) with a predetermined reference value DNARSR v) and concluding that the patient will respond to the treatment when the DNARS score is higher than the predetermined reference value DNARSg o

Abstract: The methods and system disclose an automated pipeline which receives a list of Accession IDs corresponding to transcriptomic, proteomic, genomic, or metabolomic data. Each Accession ID is submitted in parallel, launching a specific cloud computer to carry out a customized, fully automated transcriptome assembly (or proteomic assembly or genome assembly or metabolome assembly) and analysis by the automated pipeline. The output from multiple assemblies is automatically compiled and compared with genes of interest to identify new gene variants. The new gene variants can be used as queries by the automated pipeline to: discover variants of the variants; and determine new studies to analyze.

Abstract: A method for diagnosing lung cancer in a subject by using a complex biomarker group is provided. The method includes steps of: (a) a computing system (1) acquiring a model M by using expression level data by individual biomarkers in the complex biomarker group and then (2) acquiring expression level data by the individual biomarkers measured from a biological specimen of the subject or their processed data Bk; and (b) the computing system determining whether lung cancer is detected in the subject by using the acquired data of the subject by referring to the model M; wherein the complex biomarker group includes CEA, HE4, ApoA2, TTR, sVCAM-1 and RANTES.