Abstract: Systems and methods for automatic FOV selection in immunoscore computation that involve reading images for individual markers from an unmixed multiplex slide or single stain slides, and computing the tissue region mask from the individual marker image. The heat map of each marker is determined by applying the low pass filter on the individual marker image channel and selecting the top K highest intensity regions from the heat map as the candidate FOVs for each marker. The candidate FOVs from the individual marker images are merged together in the same coordinate system by either adding all of the FOVs together or by only adding the FOVs from the selected marker images depending on the user's choice, and registering all the individual marker images to a common coordinate system and transferring the FOVs back to the original images.

Abstract: Embodiments disclosed herein are directed, among other things, to imaging systems, methods, and apparatuses for automatically identifying fields of view (FOVs) for regions in an image encompassing tumor are disclosed. In embodiments and in further aspects of the present invention, a computer-implemented method is disclosed for a tumor region based immune score computation. The method, in accordance with the present invention, involves identifying regions, for example, tumor areas or regions around a tumor area, partitioning a whole slide image or portion of a whole slide image into multiple regions related to the tumor, selecting FOVs within each identified region, and computing a number of cells present in each FOV. An immune score and/or immune-related score may be generated based on the cells counted in each FOV.

Abstract: A system and method of displaying of multiple simultaneous views of a same region of a biological tissue sample. Logical instructions are executed by a processor to perform operations such as receiving a plurality of images of the biological tissue sample, converting the plurality of images to a common reference frame based on the individual metadata of each image, and arranging the plurality of images into a display pattern for simultaneous viewing of different aspects of the imaged biological tissue sample on a display screen. The plurality of images is produced by preprocessing images of the biological tissue sample. Each image shows a view mode of a same region of the biological tissue sample, and each image contains metadata that describe spatial orientation, such as the translation, rotation, and magnification, of the image to bring the plurality of images to a common view.

Abstract: Methods and systems for generating a heat map that reduces bias in selecting FOVs are disclosed. Some disclosed methods include annotating a primary stained image, registering the annotation to a secondary serial specific stained image, using an image analysis algorithm to compute a scoring criteria specific to the tissue and assay type for tiled regions in the image, using a sliding window in the annotated tumor region to compute values for each pixel in a heat map which correlate to the specific scoring criteria, displaying the heat map at low resolution, ranking and selecting hot spots, selecting FOVs from the hot spot regions which results in displaying the slide-level score for the FOVs. The systems comprise, among other things, software configured to perform the referenced method.

Abstract: At a first computer-enabled imaging device in a plurality of computer-enabled imaging devices, a first workflow including time-stamped images of a region of interest is obtained during a first time interval, and first meta data is associated with the second workflow. The first meta data includes positional and orientation data, the first time interval, and an identity of the first computer-enabled imaging device. Control signals are generated based on a characteristic of the first workflow, and then communicated to a second computer-enabled imaging device. In accordance with the control signals, the second computer-enabled imaging device obtains a second workflow including time-stamped images of the region of interest, and associates second meta data with the second workflow. A central system, or any computer-enabled imaging device in the plurality, consolidates the first and second workflows into a consolidated workflow for the region of interest using the first and second meta data.

Abstract: At a central controlling system, a composite map is constructed based on a previous dataset that includes (A) images of a target obtained by imaging devices at a first time, and (B) respective meta data associated with the images. Imaging devices collect image data during a second time after the first time. In accordance with the composite map, the imaging devices obtain images of the target and associate meta data with the images. The images and respective meta data are communicated to the central controlling system. The positions and orientations of the imaging devices when the respective images were obtained, and when the images were obtained, are used to index the images against the target, thereby aggregating multi-dimensional data for the target. Temporal information about a characteristic of the target over time is then extracted from the aggregated multi-dimensional data.

Abstract: Under one aspect, a method of displaying medical information about a subject having a plurality of regions includes: resolving light obtained from each region of the plurality of regions into a corresponding spectrum; selecting a portion of each spectrum, the selected portion including medical information about the corresponding region; constructing an image based on the selected portion of each spectrum; and projecting the image onto the subject. Under another aspect, a method of displaying medical information about a subject that has a plurality of regions includes: resolving light obtained from each region of the plurality of regions into a corresponding spectrum; selecting a portion of each spectrum, the selected portion including medical information about the corresponding region; constructing a spectral image based on the selected portion of each spectrum; displaying an image of the plurality of regions; and displaying the spectral image overlying the image of the plurality of regions.

Abstract: Systems and methods for imaging using a plurality of light sources is provided. An imaging device comprises a housing, a lens within the housing, a plurality of light source sets attached or integrated into the housing, a two-dimensional pixelated detector within the housing in optical communication with the lens, memory and a controller. Each respective light source set comprises a plurality of lights uniformly radially distributed about the lens. A first light source set in the plurality sets emits light substantially limited to a first spectral range. A second light source set in the plurality of sets emits light substantially limited to a second spectral range other than the first range. At least one program non-transiently stored in the memory and executable by the controller sequentially and independently fired each light source set while collecting light using the pixelated detector. An imaging device can be integrated with a mobile device.

Abstract: A method for capturing and consolidating multi-spectral image data for regions of interest using one or more spectral boost mechanisms or techniques is disclosed. A first multi-spectral or hyperspectral workflow comprising time-stamped two-dimensional pixelated images of a region of interest is obtained by a first computer-enabled imaging device. Each of the images corresponds to image data captured for a respective frequency band of a plurality of frequency bands. First meta data is associated with the images of the first workflow and includes: a plurality of first positions and first orientations of the first imaging device indicating first positional and orientation data for the first imaging device, and indications of a respective frequency band for each of the images of the first workflow. A consolidated multi-spectral workflow for the region of interest is generated, which includes spectrally and spatially consolidating the images of the first workflow using the first meta data.

Abstract: Compositions and methods are provided for enhancing the efficiency of gene editing by timing the expression and activity of a nuclease to correspond with availability of a repair template. Compositions and methods for temporally regulating the duration of nuclease activity, and methods of selectively preventing nuclease expression during viral vector production, are also provided.

Abstract: Under one aspect, a method of displaying medical information about a subject having a plurality of regions includes: resolving light obtained from each region of the plurality of regions into a corresponding spectrum; selecting a portion of each spectrum, the selected portion including medical information about the corresponding region; constructing an image based on the selected portion of each spectrum; and projecting the image onto the subject. Under another aspect, a method of displaying medical information about a subject that has a plurality of regions includes: resolving light obtained from each region of the plurality of regions into a corresponding spectrum; selecting a portion of each spectrum, the selected portion including medical information about the corresponding region; constructing a spectral image based on the selected portion of each spectrum; displaying an image of the plurality of regions; and displaying the spectral image overlying the image of the plurality of regions.

Abstract: A manufacturing method includes the steps of providing a mould containing a matrix material, providing an infiltrant material arranged so that, when molten, the infiltrant material will infiltrate into the matrix material, and heating the matrix material and the infiltrant material by induction heating using an induction heater. The induction heater includes a first coil and a second coil, wherein the first and second coils are energised independently of one another to allow increased control over the heating of different parts of the matrix material and infiltrant material within the mould.

Abstract: A self-contained battery-operated device is fixedly mounted to a drone device in a plurality of drone devices. The first self-contained battery-operated device includes one or more processors, an accelerometer, a gyroscope, a location detection device, a two-dimensional pixilated detector, and memory, all connected by a common bus. Time-stamped images of an environmental region are captured using the two-dimensional pixilated detector at a time when the drone device is airborne. For each of the captured time-stamped images, a respective set of meta data is obtained, which includes (1) rotational values obtained using the gyroscope, indicating a relative orientation of the self-contained battery-operated device with respect to a respective reference orientation at a time of image capture, and (2) location information obtained using the location detection device at a time of image capture. The time-stamped images and the respective sets of meta data are sent to a remote processing device.

Abstract: The subject disclosure presents systems and methods for improved meso-dissection of biological specimens and tissue slides including importing one or more reference slides with annotations, using inter-marker registration algorithms to automatically map the annotations to an image of a milling slide, and dissecting the annotated tissue from the selected regions in the milling slide for analysis, while concurrently tracking the data and analysis using unique identifiers such as bar codes.

Abstract: At a computer-enabled imaging device, a workflow including a plurality of time-stamped images is obtained. Each time-stamped image has a respective time point at which the respective time-stamped image was obtained. A first plurality of time-stamped accelerometer interval readings and a first plurality of time-stamped interval gyroscope readings are acquired, each of the readings having a respective time point at which the respective reading was acquired. A first real-time translational and rotational trajectory of the first computer-enabled imaging device is thereby obtained. Time-stamped coordinates of feature points in the first workflow are acquired at a plurality of time points during which the time-stamped images were acquired. A first dataset including the workflow, time-stamped coordinates, the real-time translational and rotational trajectory, and translational movement of the coordinates of the feature points is communicated to a data processing and display system for image processing and analysis.

Abstract: The subject disclosure provides systems, computer-implemented methods, and clinical workflows for meso-dissection of biological specimens and tissue slides by incorporating annotation and inter-marker registration modules within digital pathology imaging and meso-dissection (or milling) systems. Images of a reference slide a milling slide may be acquired using the same imaging system, with the annotations on the image associated with the milling slide being based on the inter-marker registration. Each image along with its respective annotations and meta-data may be associated with a project or a case, and stored in an image management system. A same-marker registration may be used to map annotations from the annotated image of the milling slide to a live image of the milling slide. The milling slide may be milled based on the annotations, with milled tissue output into a contained that is labeled in association with the labeled input slides.

Abstract: A tailing arm and tubular positioning device with an arm base unit, control module and an arm engaging a hydraulic power unit. A side shift assembly attaches to an opposite end of the arm and fluidly connects to the hydraulic power unit. A lower roller assembly secured to the side shift assembly and fluidly connected to the hydraulic power unit and an upper roller assembly engages the hydraulic power unit. The control module is configured to move upper and lower rollers to support a tubular and maintain contact with the tubular through a range of motion of the tubular, position the upper and lower rollers symmetrically and in snug contact with the tubular, shift the tubular longitudinally with the upper and lower rollers using roller cylinders and rotation of the arm, shift the tubular laterally with the side shifting assembly, and release the tubular.

Abstract: Described herein are methods for co-expression analysis of multiple markers in a tissue sample comprising: computing a heat map of marker expression for each of a plurality of single marker channel images, wherein each of the plurality of single marker channel images comprise a single marker; identifying one or more candidate regions of interest in each heat map of marker expression; computing overlay masks comprising the identified one or more candidate regions of interest from each heat map of marker expression; determining one or more co-localized regions of interest from the overlay masks; mapping the one or more co-localized regions of interest to a same coordinate position in each of the plurality of single marker channel images; and estimating a number of cells in at least one of the determined one or more co-localized regions of interest in each of the plurality of single marker channel images.

Abstract: Embodiments disclosed herein are directed, among other things, to imaging systems, methods, and apparatuses for automatically identifying fields of view (FOVs) for regions in an image encompassing tumor are disclosed. In embodiments and in further aspects of the present invention, a computer-implemented method is disclosed for a tumor region based immune score computation. The method, in accordance with the present invention, involves identifying regions, for example, tumor areas or regions around a tumor area, partitioning a whole slide image or portion of a whole slide image into multiple regions related to the tumor, selecting FOVs within each identified region, and computing a number of cells present in each FOV. An immune score and/or immune-related score may be generated based on the cells counted in each FOV.

Abstract: The subject disclosure presents systems and computer-implemented methods for providing reliable risk stratification for early-stage cancer patients by predicting a recurrence risk of the patient and to categorize the patient into a high or low risk group. A series of slides depicting serial sections of cancerous tissue are automatically analyzed by a digital pathology system, a score for the sections is calculated, and a Cox proportional hazards regression model is used to stratify the patient into a low or high risk group. The Cox proportional hazards regression model may be used to determine a whole-slide scoring algorithm based on training data comprising survival data for a plurality of patients and their respective tissue sections. The coefficients may differ based on different types of image analysis operations applied to either whole-tumor regions or specified regions within a slide.