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We present a self-supervised algorithm for several classification tasks within hematoxylin and eosin (H&E) stained images of breast cancer. Our method is robust to stain variations inherent to the histology images acquisition process, which…
The evaluation of human epidermal growth factor receptor 2 (HER2) expression is essential to formulate a precise treatment for breast cancer. The routine evaluation of HER2 is conducted with immunohistochemical techniques (IHC), which is…
Fluorescence microscopy is a key driver to promote discoveries of biomedical research. However, with the limitation of microscope hardware and characteristics of the observed samples, the fluorescence microscopy images are susceptible to…
Breast cancer is one of the most common cancer in women around the world. For diagnosis, pathologists evaluate biomarkers such as HER2 protein using immunohistochemistry over tissue extracted by a biopsy. Through microscopic inspection,…
We propose approaches based on deep learning to localize objects in images when only a small training dataset is available and the images have low quality. That applies to many problems in medical image processing, and in particular to the…
In the last several years deep learning based approaches have come to dominate many areas of computer vision, and image denoising is no exception. Neural networks can learn by example to map noisy images to clean images. However, access to…
Counting cells in fluorescent microscopy is a tedious, time-consuming task that researchers have to accomplish to assess the effects of different experimental conditions on biological structures of interest. Although such objects are…
In the effort to aid cytologic diagnostics by establishing automatic single cell screening using high throughput digital holographic microscopy for clinical studies thousands of images and millions of cells are captured. The bottleneck lies…
Molecular classification has transformed the management of brain tumors by enabling more accurate prognostication and personalized treatment. However, timely molecular diagnostic testing for patients with brain tumors is limited,…
Breast Cancer (BC) is among women's most lethal health concerns. Early diagnosis can alleviate the mortality rate by helping patients make efficient treatment decisions. Human Epidermal Growth Factor Receptor (HER2) has become one the most…
Despite the advances in machine learning and digital pathology, it is not yet clear if machine learning methods can accurately predict molecular information merely from histomorphology. In a quest to answer this question, we built a…
We present an ultra-fast, precise, parameter-free method, which we term Deep-STORM, for obtaining super-resolution images from stochastically-blinking emitters, such as fluorescent molecules used for localization microscopy. Deep-STORM uses…
High throughput real-time instruments are needed to acquire large data sets for detection and classification of rare events. Enabled by the photonic time stretch digitizer, a new class of instruments with record throughputs have led to the…
Indirect Immunofluorescence (IIF) HEp-2 cell image is an effective evidence for diagnosis of autoimmune diseases. Recently computer-aided diagnosis of autoimmune diseases by IIF HEp-2 cell classification has attracted great attention.…
Multiplex immunofluorescence and immunohistochemistry benefit patients by allowing cancer pathologists to identify several proteins expressed on the surface of cells, enabling cell classification, better understanding of the tumour…
In this paper, we focus on identifying differentially activated brain regions using a light sheet fluorescence microscopy - a recently developed technique for whole-brain imaging. Most existing statistical methods solve this problem by…
Gene expression can be used to subtype breast cancer with improved prediction of risk of recurrence and treatment responsiveness over that obtained using routine immunohistochemistry (IHC). However, in the clinic, molecular profiling is…
Standard of care diagnostic procedure for suspected skin cancer is microscopic examination of hematoxylin \& eosin stained tissue by a pathologist. Areas of high inter-pathologist discordance and rising biopsy rates necessitate higher…
This paper presents an innovative framework designed to train an image deblurring algorithm tailored to a specific camera device. This algorithm works by transforming a blurry input image, which is challenging to deblur, into another blurry…
Immunohistochemistry (IHC) analysis is a well-accepted and widely used method for molecular subtyping, a procedure for prognosis and targeted therapy of breast carcinoma, the most common type of tumor affecting women. There are four…