298 results about "Histopathology" patented technology

The invention provides systems and methods for detection, grading, scoring and tele-screening of cancerous lesions. A complete scheme for automated quantitative analysis and assessment of human and animal tissue images of several types of cancers is presented. Various aspects of the invention are directed to the detection, grading, prediction and staging of prostate cancer on serial sections/slides of prostate core images, or biopsy images. Accordingly, the invention includes a variety of sub-systems, which could be used separately or in conjunction to automatically grade cancerous regions. Each system utilizes a different approach with a different feature set. For instance, in the quantitative analysis, textural-based and morphology-based features may be extracted at image- and (or) object-levels from regions of interest. Additionally, the invention provides sub-systems and methods for accurate detection and mapping of disease in whole slide digitized images by extracting new features through integration of one or more of the above-mentioned classification systems. The invention also addresses the modeling, qualitative analysis and assessment of 3-D histopathology images which assist pathologists in visualization, evaluation and diagnosis of diseased tissue. Moreover, the invention includes systems and methods for the development of a tele-screening system in which the proposed computer-aided diagnosis (CAD) systems. In some embodiments, novel methods for image analysis (including edge detection, color mapping characterization and others) are provided for use prior to feature extraction in the proposed CAD systems.

Described herein are systems and methods for performing multi-stage detection and classification of cancer regions from digitized images of biopsy slides. Novel methods for processing the digitized images to improve feature extraction and structure identification are disclosed, including but not limited to the use of quaternions, logarithmic mappings of color channels, and application of wavelets to logarithmic color channel mappings. The extracted features are utilized in improved machine learning algorithms that are further optimized to analyze multiple color channels in multiple dimensions. The improved machine learning algorithms include techniques for accelerating the training of the algorithms, making their application to biopsy detection and classification practical for the first time. The performance of the described systems and methods are further improved by the disclosure of a novel multistage machine learning scheme, in which additional classifiers are utilized to choose among the classes proposed by other classifiers in close cases.

This invention relates to computer-aided diagnostics using content-based retrieval of histopathological image features. Specifically, the invention relates to the extraction of image features from a histopathological image based on predetermined criteria and their analysis for malignancy determination.

A generalizable and interpretable deep learning model for predicting biomarker status and biomarker metrics from histopathology slide images is provided.

Disclosed herein are portable handheld devices, systems, and methods for the evaluation of tissue pathology and the evaluation and/or monitoring of tissue regeneration. The handheld devices and systems perform laser speckle and hyperspectral imaging to assess tissue pathology and tissue regeneration. The device and system of the disclosure may also perform 3D surface reconstruction.

The current invention provides a method for directly converting histopathologically processed biological samples, tissues, and cells into a multi-use biomolecule lysate. This method allows for simultaneous extraction, isolation, solublization, and storage of all biomolecules contained within the histopathologically processed biological sample, thereby forming a representative library of said sample. This multi-use biomolecule lysate is dilutable, soluble, capable of being fractionated, and used in any number of subsequent experiments.

A new embolic agent, bioabsorbable polymeric material (BPM) is incorporated to a Guglielmi detachable coil (GDC) to improve long-term anatomic results in the endovascular treatment of intracranial aneurysms. The embolic agent, comprised at least in part of at least one biocompatible and bioabsorbable polymer and growth factors, is carried by hybrid bioactive coils and is used to accelerate histopathologic transformation of unorganized clot into fibrous connective tissue in experimental aneurysms. An endovascular cellular manipulation and inflammatory response are elicited from implantation in a vascular compartment or any intraluminal location. Thrombogenicity of the biocompatible and bioabsorbable polymer is controlled by the composition of the polymer. The coil further is comprised at least in part of a growth factor or more particularly a vascular endothelial growth factor, a basic fibroblast growth factor or other growth factors. The biocompatible and bioabsorbable polymer is in the illustrated embodiment at least one polymer selected from the group consisting of polyglycolic acid, poly~glycolic acid/poly-L-lactic acid copolymers, polycaprolactive, polyhydroxybutyrate/hydroxyvalerate copolymers, poly-L-lactide. Polydioxanone, polycarbonates, and polyanhydrides.

The invention provides methods for diagnosing diseases such as cancer and other conditions using biological samples. Liquid Tissue samples prepared from histopathologically prepared tissue obtained from a subject surprisingly can be used to identify and, optionally, to quantify analytes that are diagnostic of the presence of a disease, condition or syndrome in the subject.

Embodiments disclosed herein provide methods and systems for delineating cell nuclei and classifying regions of histopathology or microanatomy while remaining invariant to batch effects. These systems and methods can include providing a plurality of reference images of histology sections. A first set of basis functions can then be determined from the reference images. Then, the histopathology or microanatomy of the histology sections can be classified by reference to the first set of basis functions, or reference to human engineered features. A second set of basis functions can then be calculated for delineating cell nuclei from the reference images and delineating the nuclear regions of the histology sections based on the second set of basis functions.

The invention provides methods for multiplex analysis of biological samples of formalin-fixed tissue samples. The invention provides for a method to achieve a multiplexed, multi-staged plurality of Liquid Tissue preparations simultaneously from a single histopathologically processed biological sample, where the protocol for each Liquid Tissue preparation imparts a distinctive set of biochemical effects on biomolecules procured from histopathologically processed biological samples and which when each of the preparations is analyzed can render additive and complementary data about the same histopathologically processed biological sample.

Differential gene expression associated with histopathologic features of colorectal disease can be performed with nucleic acid arrays. Such arrays can comprise a pool of polynucleotide sequences from colon tissues, and the detection of the overexpression or underexpression of polynucleotide sequences (or subsequences or complements thereof) from this pool can provide information relating to the detection, diagnosis, stage, classification, monitoring, prediction, prevention or treatment of colorectal disease.

A process for maintaining 3 dimensional orientation between a tissue specimen and images of the area of investigation, to register histopathologic diagnoses of multiple locations within the specimen with corresponding locations on the surface of said area of investigation, by marking at least two fiduciary lines on the area of investigation; acquiring a fiduciary image of the tissue with the fiduciary lines; excising the tissue to form a tissue specimen; inserting at least two parallel needles through said specimen; acquiring a specimen image of the specimen with inserted needles over an alignment grid; fixing the specimen by immersing the specimen; acquiring a fixed image of the fixed specimen with the inserted needles over the alignment grid; forming a paraffin mold containing the fixed specimen and inserted needles; injecting different colored inks through the needles while withdrawing them from the fixed specimen, so that different colored needle tracks are formed in the specimen; sectioning the specimen to create specimen blocks having different colored needle tracks; further sectioning the specimen to cut the specimen blocks into specimen slices having different colored ink dots corresponding to the different colored needle tracks; forming pathology images from the specimen slices; performing histopathology analyses on the pathology images; annotating the pathology images with histopathology annotations; aligning the annotations with the fixed image using the colored ink dots; determining shrinkage between the fixed image and the annotations by using the grid to compare the distance between the needles in the fixed image with the distance between the ink dots on the specimen slices; registering the fixed image to the specimen image to account for shrinkage caused by fixation, using locations of the needles in both of the images as landmarks; registering the specimen image to the fiduciary image to account for tissue translation and soft tissue movement using the fiduciary lines and geographical features of said area of investigation as landmarks; registering the fiduciary image to the reference image to account for tissue translation and soft tissue movement using said geographical features; whereby annotations of histopathologic diagnoses are provided for multiple locations on or under the surface of the specimen that are registered to images of the specimen.

The invention discloses a novel laser confocal microscopic endoscope with high resolution, a telescopic image transmission system is used for replacing optical fiber bundles or a single optical fiber, the laser is coupled into a tissue in vivo, a reflected light or a fluorescent signal is coupled into a detector in vitro, a fluorescent image with high resolution and contrast is obtained, meanwhile an endoscope probe diameter is reduced; a confocal scanning mechanism is arranged in vitro, the high performance confocal scanning is obtained, meanwhile the dimension of the endoscope probe can not be increased, and the confocal scanning mechanism is compatible with an existing hard tube endoscope, thereby implementing the high-performance histopathology diagnosis in vivo.

A computer implemented method of generating at least one shape of a region of interest in a digital image is provided. The method includes obtaining, by an image processing engine, access to a digital tissue image of a biological sample; tiling, by the image processing engine, the digital tissue image into a collection of image patches; identifying, by the image processing engine, a set of target tissue patches from the collection of image patches as a function of pixel content within the collection of image patches; assigning, by the image processing engine, each target tissue patch of the set of target tissue patches an initial class probability score indicating a probability that the target tissue patch falls within a class of interest, the initial class probability score generated by a trained classifier executed on each target tissue patch; generating, by the image processing engine, a first set of tissue region seed patches by identifying target tissue patches having initial class probability scores that satisfy a first seed region criteria, the first set of tissue region seed patches comprising a subset of the set of target tissue patches; generating, by the image processing engine, a second set of tissue region seed patches by identifying target tissue patches having initial class probability scores that satisfy a second seed region criteria, the second set of tissue region seed patches comprising a subset of the set of target tissue patches; calculating, by the image processing engine, a region of interest score for each patch in the second set of tissue region seed patches as a function of initial class probability scores of neighboring patches of the second set of tissue region seed patches and a distance to patches within the first set of issue region seed patches; and generating, by the image processing engine, one or more region of interest shapes by grouping neighboring patches based on their region of interest scores.

Provided herein are systems and computer-implemented methods for quantitative analyses of tissue sections (including, histopathology samples, such as immunohistochemically labeled or H&E stained tissue sections), involving automatic unsupervised segmentation of image(s) of the tissue section(s), measurement of multiple features for individual nuclei within the image(s), clustering of nuclei based on extracted features, and/or analysis of the spatial arrangement and organization of features in the image based on spatial statistics. Also provided are computer-readable media containing instructions to perform operations to carry out such methods. A quantitative image analysis pipeline for tumor purity estimation is also described

A container for storing a biological sample is disclosed. The container includes a housing having a closed end, an open end, and a sidewall extending therebetween defining a container interior. The container has a removable closure for enclosing the open end of the housing and a sample holder for housing a biological sample detachably connected to the closure and insertable within the container interior. A port is disposed within the closure adjacent the sample holder to allow fluid to pass therethrough into the container interior. An injection device for engaging the port may also be provided. A first fluid may be initially provided within the container interior and a second fluid may be subsequently injected by the injection device through the port into the container interior.

A process for the production of paraffin sections of biological tissue, especially for molecular pathology studies is disclosed. In the process, the tissue sample is simultaneously fixed, dehydrated and cleared in a first step, subsequently dehydrated and cleared in a second step and infiltrated with an inert specimen matrix in a third step. The specimen can then be further embedded in a casting supporting matrix according to the standard procedures followed by any local pathology or research laboratory. A kit and a processing station for automating paraffin embedding of a tissue sample suitable for histopathological and molecular analysis is also described. A bio-indicator system is described for measuring the degree of crosslinking. A tissue sample holding means or a vial which includes a tissue sample holding means provided with a data logging device capable of registering and transmitting data regarding the sample and conditions where the sample was processed is also disclosed.

The present invention relates to an image-based computer-aided prognosis (CAP) system and method that seeks to replicate the prognostic power of molecular assays in histopathology and pathological processes, including but not limited to cancer. Using only a tissue slide samples, a mechanism for digital slide scanning, and a computer, the present invention relates to an image-based CAP system and method which aims to overcome many of the drawbacks associated with prognostic molecular assays (e.g. Oncotype DX) including the high cost associated with the assay, limited laboratory facilities with specialized equipment, and length of time between biopsy and prognostic prediction.

A medical decision support system including a computer and a computer program product arranged to provide data derived from examination of digital images of a tissue specimen according to predetermined criteria for histopathological analysis, and a method for assisting in obtaining a pathological diagnosis from a plurality of pictures representing a specimen on a slide, the method including obtaining digitized data corresponding to images of a specimen on a slide placed under a microscope; processing the images; examining the images in accordance with predetermined histopathological criteria; and providing an examination report based on the examination.

A region segmented image data creating system for histopathological images is provided. The region segmented image data creating system is capable of creating region segmented image data required to generating a region segmented image. A first bi-level image data creating section 12 creates first bi-level image data, in which nucleus regions can be discriminated from other regions, from histopathological image data. A second bi-level image data creating section 14 creates second bi-level image data, in which a background regions can be discriminated from other regions, from the histopathological image data. A three-level image data creating section 15 clarifies cytoplasm regions by computing a negative logical addition of the first bi-level image data and the second bi-level image data, and to create three-level image data as the region segmented image data.

The present invention relates to a method for detecting one or more nascent RNAs in a tissue sample using FISH. In the method, a plurality of probes (8 to 82) may be used to detect a single species of nascent RNA. Further, a plurality of nascent RNA species may be detected simultaneously using between 8 and 82 probes for each nascent RNA. The invention comprises, in addition, methods of preparing a sample for nascent RNA detection by reducing autofluorescence of the tissue sample. These techniques may be synergistically combined to achieve significantly improved results.