Patents by Inventor Andrew Janowczyk

Andrew Janowczyk has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).

  • Publication number: 20230338419
    Abstract: Provided herein are methods, systems and apparatus for diagnosing, predicting and/or preventing acute allograft vasculopathy in an organ transplant patient. The method comprises executing on a processor the steps comprising: analyzing clinical risk factors of a cardiac, kidney or liver transplant patient in a model which distinguishes between clinical biomarkers of allograft vasculopathy patients and non-allograft vasculopathy patients, and analyzing digital biopsy images from the transplant patient to morphologically differentiate patients which are prE allograft vasculopathy or which have active allograft vasculopathy from patients without acute allograft vasculopathy; assigning prE-, active or non-allograft vasculopathy status to a patient based on the outcome of the analysis of the clinical biomarkers and morphologic biomarkers; and where preE or active statis is assigned, treating the patient.
    Type: Application
    Filed: March 20, 2023
    Publication date: October 26, 2023
    Applicants: The Trustees of the University of Pennsylvania, Case Western Reserve University
    Inventors: Eliot Peyster, Andrew Janowczyk
  • Patent number: 11645753
    Abstract: Embodiments discussed herein facilitate segmentation of histological primitives from stained histology of renal biopsies via deep learning and/or training deep learning model(s) to perform such segmentation. One example embodiment is configured to access a first histological image of a renal biopsy comprising a first type of histological primitives, wherein the first histological image is stained with a first type of stain; provide the first histological image to a first deep learning model trained based on the first type of histological primitive and the first type of stain; and receive a first output image from the first deep learning model, wherein the first type of histological primitives is segmented in the first output image.
    Type: Grant
    Filed: September 25, 2020
    Date of Patent: May 9, 2023
    Assignees: Case Western Reserve University, The Cleveland Clinic Foundation
    Inventors: Anant Madabhushi, Catherine Jayapandian, Yijiang Chen, Andrew Janowczyk, John Sedor, Laura Barisoni
  • Publication number: 20230059717
    Abstract: The present disclosure relates to a non-transitory computer-readable medium storing computer-executable instructions that, when executed, cause a processor to perform operations. The operations include extracting one or more image characterization metrics from respective ones of a plurality of digitized images within an imaging data set. The plurality of digitized images have batch effects. The operations further include identifying a plurality of batch effect groups of the digitized images using the one or more image characterization metrics, and dividing the plurality of batch effect groups between a training set and/or a validation set. The training set and/or the validation set include some of the plurality of digitized images associated with respective ones of the plurality of batch effect groups.
    Type: Application
    Filed: August 19, 2022
    Publication date: February 23, 2023
    Inventors: Anant Madabhushi, Andrew Janowczyk
  • Patent number: 11494900
    Abstract: Embodiments facilitate generating a biochemical recurrence (BCR) prognosis by accessing a digitized image of a region of tissue demonstrating prostate cancer (CaP) pathology associated with a patient; generating a set of segmented gland lumen by segmenting a plurality of gland lumen represented in the region of tissue using a deep learning segmentation model; generating a set of post-processed segmented gland lumen; extracting a set of quantitative histomorphometry (QH) features from the digitized image based, at least in part, on the set of post-processed segmented gland lumen; generating a feature vector based on the set of QH features; computing a histotyping risk score based on a weighted sum of the feature vector; generating a classification of the patient as BCR high-risk or BCR low-risk based on the histotyping risk score and a risk score threshold; generating a BCR prognosis based on the classification; and displaying the BCR prognosis.
    Type: Grant
    Filed: December 30, 2019
    Date of Patent: November 8, 2022
    Assignee: Case Western Reserve University
    Inventors: Anant Madabhushi, Patrick Leo, Andrew Janowczyk, Kaustav Bera
  • Publication number: 20210272694
    Abstract: Embodiments discussed herein facilitate determination of a likelihood of biochemical recurrence (BCR) of cancer (e.g., prostate cancer, etc.). One example embodiment is a method, comprising: accessing at least a portion of a digitized stained histology slide comprising a tumor; automatically segmenting, via a trained deep learning (DL) model, cribriform morphology in connection with the tumor on the at least the portion of the digitized stained histology slide; determining a cribriform-to-tumor area ratio (CAR) based at least in part on an area of the segmented cribriform morphology and an area of the tumor; and determining a risk of biochemical recurrence (BCR) of a cancer associated with the tumor based at least in part on the CAR.
    Type: Application
    Filed: January 4, 2021
    Publication date: September 2, 2021
    Inventors: Anant Madabhushi, Sacheth Chandramouli, Patrick Leo, Andrew Janowczyk
  • Publication number: 20210158524
    Abstract: Embodiments discussed herein facilitate segmentation of histological primitives from stained histology of renal biopsies via deep learning and/or training deep learning model(s) to perform such segmentation. One example embodiment is configured to access a first histological image of a renal biopsy comprising a first type of histological primitives, wherein the first histological image is stained with a first type of stain; provide the first histological image to a first deep learning model trained based on the first type of histological primitive and the first type of stain; and receive a first output image from the first deep learning model, wherein the first type of histological primitives is segmented in the first output image.
    Type: Application
    Filed: September 25, 2020
    Publication date: May 27, 2021
    Inventors: Anant Madabhushi, Catherine Jayapandian, Yijiang Chen, Andrew Janowczyk, John Sedor, Laura Barisoni
  • Publication number: 20210027459
    Abstract: Embodiments facilitate generating a biochemical recurrence (BCR) prognosis by accessing a digitized image of a region of tissue demonstrating prostate cancer (CaP) pathology associated with a patient; generating a set of segmented gland lumen by segmenting a plurality of gland lumen represented in the region of tissue using a deep learning segmentation model; generating a set of post-processed segmented gland lumen; extracting a set of quantitative histomorphometry (QH) features from the digitized image based, at least in part, on the set of post-processed segmented gland lumen; generating a feature vector based on the set of QH features; computing a histotyping risk score based on a weighted sum of the feature vector; generating a classification of the patient as BCR high-risk or BCR low-risk based on the histotyping risk score and a risk score threshold; generating a BCR prognosis based on the classification; and displaying the BCR prognosis.
    Type: Application
    Filed: December 30, 2019
    Publication date: January 28, 2021
    Inventors: Anant Madabhushi, Patrick Leo, Andrew Janowczyk, Kaustav Bera
  • Patent number: 10902591
    Abstract: Embodiments access a pre-neoadjuvant chemotherapy (NAC) radiological image of a region of tissue demonstrating breast cancer (BCa), the region of tissue including a tumoral region, the image having a plurality of pixels; extract a set of patches from the tumoral region; provide the set of patches to a convolutional neural network (CNN) configured to discriminate tissue that will experience pathological complete response (pCR) post-NAC from tissue that will not; receive, from the CNN, a pixel-level localized patch probability of pCR; compute a distribution of predictions across analyzed patches based on the pixel-level localized patch probability; classify the region of tissue as a responder or non-responder based on the distribution of predictions, and display the classification. Embodiments may further generate a probability mask based on the pixel-level localized patch probability; and generate a heatmap of likelihood of response to NAC based on the probability mask and the pre-NAC radiological image.
    Type: Grant
    Filed: February 6, 2019
    Date of Patent: January 26, 2021
    Assignee: Case Western Reserve University
    Inventors: Anant Madabhushi, Nathaniel Braman, Andrew Janowczyk, Kavya Ravichandran
  • Patent number: 10861156
    Abstract: Embodiments include accessing a set of digital pathology (DP) images having an imaging parameter; applying a low-computational cost histology quality control (HistoQC) pipeline to the DP images, where the low-computational cost HistoQC pipeline computes a first set of image metrics associated with a DP image, and assigns the DP image to a first or a second, different cohort based on the imaging parameter and the first set of image metrics; applying a first, higher-computational-cost HistoQC pipeline to a member of the first cohort; applying a second, different higher-computation-cost HistoQC pipeline to a member of the second cohort; where the first or second, higher-computational-cost HistoQC pipeline determines an artifact-free region of the member of the first or second cohort, respectively, and classifies the member of the first or second cohort, respectively, as suitable or unsuitable for downstream computation or diagnostic analysis based, at least in part, on the artifact free region.
    Type: Grant
    Filed: January 14, 2019
    Date of Patent: December 8, 2020
    Assignee: Case Western Reserve University
    Inventors: Anant Madabhushi, Andrew Janowczyk
  • Patent number: 10769783
    Abstract: Embodiments include controlling a processor to perform operations for predicting biochemical recurrence (BCR) in prostate cancer (PCa), including accessing a first digitized pathology slide having a first stain channel of a region of tissue demonstrating PCa; accessing a second digitized pathology slide having a second, different stain channel of the region of tissue; extracting morphology features from the first stain channel; extracting stain intensity features from the second stain channel, where a stain intensity feature quantifies an amount of a molecular biomarker present in a cellular nucleus; controlling a first machine learning classifier to generate a first probability of BCR based on the morphology features; controlling a second machine learning classifier to generate a second, different probability of BCR based on the stain intensity features; computing an aggregate probability of BCR based on the first probability and the second probability; and displaying the aggregate probability.
    Type: Grant
    Filed: December 12, 2018
    Date of Patent: September 8, 2020
    Assignee: Case Western Reserve University
    Inventors: Anant Madabhushi, Patrick Leo, Andrew Janowczyk, Sanjay Gupta
  • Patent number: 10528848
    Abstract: Methods, apparatus, and other embodiments predict heart failure from WSIs of cardiac histopathology using a deep learning convolutional neural network (CNN). One example apparatus includes a pre-processing circuit configured to generate a pre-processed WSI by downsampling a digital WSI; an image acquisition circuit configured to randomly select a set of non-overlapping ROIs from the pre-processed WSI, and configured to provide the set of non-overlapping ROIs to a deep learning circuit; a deep learning circuit configured to generate an image-level probability that a member of the set of non-overlapping ROIs is a failure/abnormal pathology ROI using a CNN; and a classification circuit configured to generate a patient-level probability that the patient from which the region of tissue represented in the WSI was acquired is experiencing failure or non-failure based, at least in part, on the image-level probability.
    Type: Grant
    Filed: October 31, 2017
    Date of Patent: January 7, 2020
    Assignee: Case Western Reserve University
    Inventors: Anant Madabhushi, Jeffrey John Nirschl, Andrew Janowczyk, Eliot G. Peyster, Michael D. Feldman, Kenneth B. Margulies
  • Publication number: 20190266726
    Abstract: Embodiments include accessing a set of digital pathology (DP) images having an imaging parameter; applying a low-computational cost histology quality control (HistoQC) pipeline to the DP images, where the low-computational cost HistoQC pipeline computes a first set of image metrics associated with a DP image, and assigns the DP image to a first or a second, different cohort based on the imaging parameter and the first set of image metrics; applying a first, higher-computational-cost HistoQC pipeline to a member of the first cohort; applying a second, different higher-computation-cost HistoQC pipeline to a member of the second cohort; where the first or second, higher-computational-cost HistoQC pipeline determines an artifact-free region of the member of the first or second cohort, respectively, and classifies the member of the first or second cohort, respectively, as suitable or unsuitable for downstream computation or diagnostic analysis based, at least in part, on the artifact free region.
    Type: Application
    Filed: January 14, 2019
    Publication date: August 29, 2019
    Inventors: Anant Madabhushi, Andrew Janowczyk
  • Publication number: 20190259157
    Abstract: Embodiments predict response to neoadjuvant chemotherapy (NAC) in breast cancer (BCa) from pre-treatment dynamic contrast enhanced magnetic resonance imaging (DCE-MRI).
    Type: Application
    Filed: February 20, 2019
    Publication date: August 22, 2019
    Inventors: Anant Madabhushi, Nathaniel Braman, Kavya Ravichandran, Andrew Janowczyk
  • Publication number: 20190251688
    Abstract: Embodiments access a pre-neoadjuvant chemotherapy (NAC) radiological image of a region of tissue demonstrating breast cancer (BCa), the region of tissue including a tumoral region, the image having a plurality of pixels; extract a set of patches from the tumoral region; provide the set of patches to a convolutional neural network (CNN) configured to discriminate tissue that will experience pathological complete response (pCR) post-NAC from tissue that will not; receive, from the CNN, a pixel-level localized patch probability of pCR; compute a distribution of predictions across analyzed patches based on the pixel-level localized patch probability; classify the region of tissue as a responder or non-responder based on the distribution of predictions, and display the classification. Embodiments may further generate a probability mask based on the pixel-level localized patch probability; and generate a heatmap of likelihood of response to NAC based on the probability mask and the pre-NAC radiological image.
    Type: Application
    Filed: February 6, 2019
    Publication date: August 15, 2019
    Inventors: Anant Madabhushi, Nathaniel Braman, Andrew Janowczyk, Kavya Ravichandran
  • Publication number: 20190251687
    Abstract: Embodiments include controlling a processor to perform operations for predicting biochemical recurrence (BCR) in prostate cancer (PCa), including accessing a first digitized pathology slide having a first stain channel of a region of tissue demonstrating PCa; accessing a second digitized pathology slide having a second, different stain channel of the region of tissue; extracting morphology features from the first stain channel; extracting stain intensity features from the second stain channel, where a stain intensity feature quantifies an amount of a molecular biomarker present in a cellular nucleus; controlling a first machine learning classifier to generate a first probability of BCR based on the morphology features; controlling a second machine learning classifier to generate a second, different probability of BCR based on the stain intensity features; computing an aggregate probability of BCR based on the first probability and the second probability; and displaying the aggregate probability.
    Type: Application
    Filed: December 12, 2018
    Publication date: August 15, 2019
    Inventors: Anant Madabhushi, Patrick Leo, Andrew Janowczyk, Sanjay Gupta
  • Publication number: 20180129911
    Abstract: Methods, apparatus, and other embodiments predict heart failure from WSIs of cardiac histopathology using a deep learning convolutional neural network (CNN). One example apparatus includes a pre-processing circuit configured to generate a pre-processed WSI by downsampling a digital WSI; an image acquisition circuit configured to randomly select a set of non-overlapping ROIs from the pre-processed WSI, and configured to provide the set of non-overlapping ROIs to a deep learning circuit; a deep learning circuit configured to generate an image-level probability that a member of the set of non-overlapping ROIs is a failure/abnormal pathology ROI using a CNN; and a classification circuit configured to generate a patient-level probability that the patient from which the region of tissue represented in the WSI was acquired is experiencing failure or non-failure based, at least in part, on the image-level probability.
    Type: Application
    Filed: October 31, 2017
    Publication date: May 10, 2018
    Inventors: Anant Madabhushi, Jeffrey John Nirschl, Andrew Janowczyk, Eliot G. Peyster, Michael D. Feldman, Kenneth B. Margulies
  • Publication number: 20160307305
    Abstract: A system is provided for standardizing digital histological images so that the color space for a histological image correlates with the color space of a template image of the histological image. The image data for the image is segmented into a plurality of subsets that correspond to different tissue classes in the image. The image data for each subset is then compared with a corresponding subset in the template image. Based on the comparison, the color channels for the histological image subsets are shifted to create a series of standardized subsets, which are then combined to create a standardized image.
    Type: Application
    Filed: October 23, 2014
    Publication date: October 20, 2016
    Applicant: RUTGERS, THE STATE UNIVERSITY OF NEW JERSEY
    Inventors: Anant Madabhushi, Ajay Basavanhally, Andrew Janowczyk
  • Patent number: 9111179
    Abstract: A method and apparatus for obtaining segmented images of the stained regions may comprise quantifying the extent of the presence of staining of a biomarker in an original image of a sample, which may comprise selecting a domain swatch of data based upon a user specified domain knowledge; clustering the data within the original image by conducting a frequency weighted mean shift of the data within the original image to convergence, forming a hierarchical plurality of layers each having a different data resolution to form a hierarchical data pyramid; segmenting the plurality of mean shifted data images to determine in each mean shifted data image within the hierarchical data pyramid data not excluded as outside of the swatch; mapping the data not excluded as outside the swatch spatially back to the original image to create a final image; and, storing the final image on a storage medium for further analysis.
    Type: Grant
    Filed: September 17, 2010
    Date of Patent: August 18, 2015
    Assignee: Rutgers, The State University of New Jersey
    Inventors: Andrew Janowczyk, Sharat Chandran, Anant Madabhushi
  • Publication number: 20120219206
    Abstract: A method and apparatus for obtaining segmented images of the stained regions may comprise quantifying the extent of the presence of staining of a biomarker in an original image of a sample, which may comprise selecting a domain swatch of data based upon a user specified domain knowledge; clustering the data within the original image by conducting a frequency weighted mean shift of the data within the original image to convergence, forming a hierarchical plurality of layers each having a different data resolution to form a hierarchical data pyramid; segmenting the plurality of mean shifted data images to determine in each mean shifted data image within the hierarchical data pyramid data not excluded as outside of the swatch; mapping the data not excluded as outside the swatch spatially back to the original image to create a final image; and, storing the final image on a storage medium for further analysis.
    Type: Application
    Filed: September 17, 2010
    Publication date: August 30, 2012
    Inventors: Andrew Janowczyk, Sharat Chandran, Anant Madabhushi