Abstract: The present techniques include methods and systems for finding correspondences between tissue spots in tissue microarray serial sections belonging to the same recipient block. The present techniques may also be used to relate individual tissue cores to clinical information. Using either a whole slide image or the relative x-y coordinates of the tissue spots on the slide, individual tissue spots in different tissue microarrays may be linked to one another and their clinical information.

Abstract: The present invention is directed to method and system for image processing of test wells on a microplates wherein the microplates' test well wall boundaries are identified through the use of a candidate edge image wherein the candidate edge image represents locations of one or more segments of the wall boundaries.

Abstract: The present techniques provide systems and methods for registering images of tissue spots on a tissue microarray (TMA). In studies involving multiple biomarkers being studied on the same TMA, the TMA slide is removed from the microscope, stained, and then imaged, often multiple times. The present techniques relate to validation of the registration of the acquired images of the same TMA. An automatic approach to register the images and detect registration failures as provided herein may enhance the rapid analysis of the tissues. Artifacts such as tissue folding and tissue loss are also determined automatically.

Abstract: The present techniques provide fully automated methods for quantifying the location, strength and percent of expressed target molecules or other biological markers in immunohistochemically stained biological samples. The samples may be automatically segmented, for example into subcellular compartments, from images of compartmental markers. Then, the distribution of a target molecule on each of these compartments is calculated that includes the percentage and strength of expression. This is different than existing intensity or ratio based methods where abundant low expression levels are indistinguishable from scarce high expression levels.

Abstract: Techniques for removing image autoflourescence from fluorescently stained biological images are provided herein. The techniques utilize non-negative matrix factorization that may constrain mixing coefficients to be non-negative. The probability of convergence to local minima is reduced by using smoothness constraints. The non-negative matrix factorization algorithm provides the advantage of removing both dark current and autofluorescence.

Abstract: The present invention is directed to method and system for image processing of test wells on a microplates wherein the microplates' test well wall boundaries are identified through the use of a candidate edge image wherein the candidate edge image represents locations of one or more segments of the wall boundaries.

Abstract: The present techniques provide systems and methods for registering images of tissue spots on a tissue microarray (TMA). In studies involving multiple biomarkers being studied on the same TMA, the TMA slide is removed from the microscope, stained, and then imaged, often multiple times. The present techniques relate to validation of the registration of the acquired images of the same TMA. An automatic approach to register the images and detect registration failures as provided herein may enhance the rapid analysis of the tissues. Artifacts such as tissue folding and tissue loss are also determined automatically.

Abstract: The present techniques provide fully automated methods for quantifying the location, strength and percent of expressed target molecules or other biological markers in immunohistochemically stained biological samples. The samples may be automatically segmented, for example into subcellular compartments, from images of compartmental markers. Then, the distribution of a target molecule on each of these compartments is calculated that includes the percentage and strength of expression. This is different than existing intensity or ratio based methods where abundant low expression levels are indistinguishable from scarce high expression levels.

Abstract: The present techniques include methods and systems for finding correspondences between tissue spots in tissue microarray serial sections belonging to the same recipient block. The present techniques may also be used to relate individual tissue cores to clinical information. Using either a whole slide image or the relative x-y coordinates of the tissue spots on the slide, individual tissue spots in different tissue microarrays may be linked to one another and their clinical information.

Abstract: Techniques for removing image autoflourescence from fluorescently stained biological images are provided herein. The techniques utilize non-negative matrix factorization that may constrain mixing coefficients to be non-negative. The probability of convergence to local minima is reduced by using smoothness constraints. The non-negative matrix factorization algorithm provides the advantage of removing both dark current and autofluorescence.