Abstract: Gene expression profiling in multiple myeloma patients identifies genes that distinguish between patients with subsequent early death or long survival after treatment. Poor survival is linked to over-expression of genes such as ASPM, OPN3 and CKS1B which are located in chromosome 1q. Given the frequent amplification of 1q in many cancers, it is possible that these genes can be used as powerful prognostic markers and therapeutic targets for multiple myeloma and other cancer.

Abstract: Methods for non-invasive prenatal paternity testing are disclosed herein. The method uses genetic measurements made on plasma taken from a pregnant mother, along with genetic measurements of the alleged father, and genetic measurements of the mother, to determine whether or not the alleged father is the biological father of the fetus. This is accomplished by way of an informatics based method that can compare the genetic fingerprint of the fetal DNA found in maternal plasma to the genetic fingerprint of the alleged father.

Abstract: Methods are provided for the automated detection of assay-positive assay areas in a microfluidic device. When assays are performed in a microfluidic device, the configuration of the microfluidic circuit and its constituent circuit elements can determine where the reagents/analytes used in the assay can be located within the microfluidic circuit. Methods are provided for automatic identification of the size and shape of the assay areas based on a number of parameters which may include type of assay involved, shape and dimensions of microfluidic circuit elements, velocity and physical characteristics of the fluidic medium within the microfluidic circuit, physical/chemical properties of the analytes/reagents, and/or the number of cells being assayed.

Abstract: There is provided a genome analysis device configured to analyze genome data including a large quantity of fragmented genome base sequences, and transmit output data concerning the genome data in response to an output request from a client device connected via a network, the genome analysis device including; a storage unit for storing data for visualization of multiple different layers, for the genome data; a request receiving unit for receiving an output request from the client device; and an output data generating unit for selecting data for visualization of a layer corresponding to the output request from the storage when the request receiving unit receives the output request, and generating output data based on the data for visualization of the selected layer.

Abstract: The present invention relates to a method and an apparatus for sorting cells. The apparatus for determining the mechanical properties of cells comprises: —a microfluidic channel having an inlet and an outlet, the channel being configured to let a fluid containing cells pass therethrough, —a means for introducing a fluid containing cells into the channel so as to establish a flow of the fluid within the channel, —a cell shape measurement device arranged to obtain information of a deformed shape of a cell deformed due to the flow pattern created by the interaction of the fluid flow with the channel, and —an analysis means arranged to use data from the cell shape measurement device to obtain mechanical properties of the cells.

Abstract: The present disclosure provides methods of identifying a disease-specific immunogenic peptide through a series of selection steps. Immunogenic epitopes identified by methods of the present disclosure are applicable for use in peptide-based immunotherapy, preferably cancer therapy. Furthermore, the methods of the present disclosure may be performed in a high-throughput manner and serve as a means of personalized vaccine development and therapy. Also provided are compositions of immunogenic peptides as well as methods of treatment comprising said compositions.

Abstract: Cancer immunology provides promising new avenues for cancer treatment but validation of potential neoantigens to target is costly and expensive. Analysis of MHC binding affinity, antigen processing, similarity to known antigens, predicted expression levels (as mRNA or proteins), self-similarity, and mutant allele frequency, provides screening method to identify and prioritize candidate neoantigens using sequencing data. Methods of the invention thereby save time and money by identifying the priority candidate neoantigens for further experimental validation.

Abstract: Aspect of the disclosure relate to methods of assessing a bioreactor culture that involve determining a culture parameter of the manufacturing-scale bioreactor culture using a model that relates a Raman spectrum to the culture parameter. Related bioreactor system are also provided.

Abstract: An operation device includes: a communication unit that receives signals of images of a biological sample and outputs data to a display medium, the images being captured by a microscope that converts a phase distribution into an image intensity distribution; and a calculator that calculates a first phase distribution of the biological sample from the image signals. The calculator extracts a region having a phase amount that is not less than a specified phase amount from the first phase distribution, and generates evaluation information by using the region having a phase amount that is not less than the specified phase amount, that is an indicator used when a user evaluates a state of the biological sample; and the communication unit outputs the evaluation information to the display medium.

Abstract: The systems and methods provided herein relate to the performance of inverse reconstruction algorithms from ultrasound radiofrequency data and stress-strain data. These systems and methods can be applied to any soft tissue mechanical measurements, providing information about both mechanical properties and fiber orientation, and the relationships between them.

Abstract: The methods of the present invention are based upon the gathering of information from various sources about animals. The information is based upon laboratory testing, genetic analysis and observations by owners and/or trainers about various traits that can be readily observed. Based upon this collection of information, one method generates Performance Index which scores or ranks an animal in terms of how well an animal might function for the intended purpose. Other methods include the ability to selection an optimum breeding pair from one or more stallions and/or one or more mares that would likely produce an offspring with the desired traits.

Abstract: The present invention provides a microbial genomic analysis tool, named Spatial Analytical Microbial Imaging (SAMI), which provides the spatiotemporal and comparative intracellular ploidy, indicating the relative growth rate of the cells in situ. Firstly, pure cultures of two microbial species were pre-evaluated for their validity using SAMI. Secondly, the same pure cultures were split aliquot to pure culture and mixed culture, and grown concurrently to reduce error. Another set of pure culture can also be grown as a standard to evaluate inferential comparative genomic copy number if necessary. Thirdly, the genomes of individual cells in the pure culture and the mixed culture are stained with membrane permeable fluorescent DNA markers and analyzed by confocal laser scan microscopy and an image software. The average fluorescent intensity (AFI) and the total genomic fluorescent biding area (GFA) of slow growth pure cultures indicate the population AFI and GFA using inferential statistics.

Abstract: Embodiments are directed to computer implemented method of assessing a relevancy of a pathway to a disease of interest, the pathway having a source and a target. The method includes developing an impact of the source on the pathway. The method further includes developing a value of targeting, based at least in part on an alteration of the pathway, the pathway with a drug of interest. The method further includes identifying a relationship between the source and the target within the pathway. The method further includes combining: the impact of the source on the pathway; the value of targeting, based at least in part on the alteration of the pathway, the pathway with a drug of interest; and the relationship between the source and the target within the pathway, wherein the combining results in an assessment that represents the relevancy of the pathway to the disease of interest.

Abstract: Medical devices and related patient management systems and parameter modeling methods are provided. An exemplary method involves obtaining, by a computing device, historical measurements of a condition in a body of the patient previously provided by a sensing device, obtaining, by the computing device, historical operational context information associated with preceding operation of one or more of an infusion device and the sensing device, obtaining, by the computing device, historical values for a parameter from one or more of the infusion device and the sensing device, determining, by the computing device a patient-specific model of the parameter based on relationships between the historical measurements, the historical operational context information and the historical values, and providing, by the computing device via a network, the patient-specific model to one of the infusion device, the sensing device or a client device.

Abstract: A patient monitoring system detects perturbations and detects or determines features of the perturbations and generates image cells responsive to the perturbations, organelles within the cells responsive to the features, and clinical regions responsive to the cells, and visualizations responsive to the clinical regions. The system also generates time-lapsable motion images comprising the cells which change over time in response to changes in the features or the detection of new perturbations. The system may convert the features into quanta defined at least in part by the clinical condition and may generate image components, such as pixels or groups of pixels, responsive to the quanta. Motion images may be generated from the image components.

Abstract: Embodiments are directed to computer implemented method of assessing a relevancy of a pathway to a disease of interest, the pathway having a source and a target. The method includes developing an impact of the source on the pathway. The method further includes developing a value of targeting, based at least in part on an alteration of the pathway, the pathway with a drug of interest. The method further includes identifying a relationship between the source and the target within the pathway. The method further includes combining: the impact of the source on the pathway; the value of targeting, based at least in part on the alteration of the pathway, the pathway with a drug of interest; and the relationship between the source and the target within the pathway, wherein the combining results in an assessment that represents the relevancy of the pathway to the disease of interest.

Abstract: An individualized intravenous exogenous insulin-based therapy for infusing insulin intravenously to a subject or a patient to improve impaired hepatic glucose processing. The therapy includes treatment sessions involving the assessment of metabolic factors, forming a subject profile, and matching the subject profile to a diabetic treatment model. Using the diabetic treatment model, a quantity and frequency of intravenous insulin bolus, dosage amounts of magnesium, and dosage amounts of potassium can be calculated. The methods that improve impaired hepatic glucose processing in subjects and patients can simultaneously introduce separated insulin bolus from an insulin reservoir, dosage amounts of magnesium, and dosage amounts of potassium. The subject profile can create a weight management protocol that uses a metabolic enhancement, wherein the individualized intravenous exogenous insulin-based therapy produces a subject or a patient with improved cellular ATP functioning.

Abstract: Disease subtyping is accomplished by a computer-implemented algorithm that manipulates a first genetic dataset to construct a set of first connectivity matrices. To this set of matrices Gaussian noise is introduced to generate a perturbed dataset. The computer-implemented algorithm assesses which of the set of first connectivity matrices was least affected by introduction of noise and that matric is used to define the optimal clustering. Once the optimal clustering is determined, computer-implemented supervised classification is performed to determine, for a particular patient, with which disease subtype cluster that person's genetic data most closely aligns. Armed with this knowledge, the treatment regimen is specified with much higher likelihood of success.

Abstract: A computer-based specimen analyzer (10) is configured to detect a level of expression of genes in a cell sample by detecting dots that represent differently stained genes and chromosomes in a cell. The color of the stained genes and the chromosomes is enhanced and filtered to produce a dot mask that defines areas in the image that are genes, chromosomes, or non-genetic material. Metrics are determined for the dots and/or pixels in the image of the cell in areas corresponding to the dots. The metrics are fed to a classifier that separates genes from chromosomes. The results of the classifier are counted to estimate the expression level of genes in the tissue samples.

Abstract: Apparatuses and for causing a point-of-care polymerase chain reaction and analyzing the polymerase chain reaction at the point-of-care, particularly when unwanted bubbles are present during the polymerase chain reaction, are described herein. In a general embodiment, a device for analyzing a polymerase chain reaction in a fluid sample includes a current source configured to cause the polymerase chain reaction by heating the fluid sample within a target zone, a camera imaging device configured to record a plurality of images of the fluid sample in the target zone while the current source causes the polymerase chain reaction, and a controller configured to (i) distinguish wanted objects in the plurality of images from an unwanted object in the plurality of images, and (ii) determine whether the fluid sample tests positive or negative for a bacteria or virus based on the wanted objects.