Assessment of algorithms for mitosis detection in breast cancer histopathology images

The proliferative activity of breast tumors, which is routinely estimated by counting of mitotic figures in hematoxylin and eosin stained histology sections, is considered to be one of the most important prognostic markers. However, mitosis counting is laborious, subjective and may suffer from low inter-observer agreement. With the wider acceptance of whole slide images in pathology labs, automatic image analysis has been proposed as a potential solution for these issues. In this paper, the results from the Assessment of Mitosis Detection Algorithms 2013 (AMIDA13) challenge are described. The challenge was based on a data set consisting of 12 training and 11 testing subjects, with more than one thousand annotated mitotic figures by multiple observers. Short descriptions and results from the evaluation of eleven methods are presented. The top performing method has an error rate that is comparable to the inter-observer agreement among pathologists

Technical note : TRACKFlow, a new versatile microscope system forfission track analysis

We here present TRACKFlow, a new system with dedicated modules for the fission track (FT) laboratory. It is based on the motorised Nikon Eclipse Ni-E upright microscope with the Nikon DS-Ri2 full frame camera and is embedded within the Nikon NIS-Elements Advanced Research software package. TRACKFlow decouples image acquisition from analysis to decrease schedule stress of the microscope. The system further has the aim of being versatile, adaptable to multiple preparation protocols and analysis approaches. It is both suited for small-scale laboratories and is also ready for upscaling to high-throughput imaging. The versatility of the system, based on the operators’ full access to the NIS-Elements package, exceeds that of other systems for FT and further expands to stepping away from the dedicated FT microscope towards a general microscope for Earth Sciences, including dedicated modules for FT research. TRACKFlow consists of a number of user-friendly protocols which are based on the well plate design that allows sequential scanning of multiple samples without the need of replacing the slide on the stage. All protocols include a sub-protocol to scan a map of the mount for easy navigation through the samples on the stage. Two protocols are designed for the External Detector Method (EDM) and the LA–ICP–MS apatite fission track (LAFT) approach, with tools for repositioning and calibration to the external detector. Two other tools are designed for large crystals, such as the Durango age standard and U-doped glass external detectors. These protocols generate a regular grid of points and inspect if each point is suitable for analysis. Both protocols also include an option to image each withheld point. One more protocol is included for the measurement of etch pit diameters and one last protocol prepares a list of coordinates for correlative microscopy. In a following phase of development TRACKFlow can be expanded towards fully autonomous calibration, grain detection and imaging

Spectral imaging in preclinical research and clinical pathology.

Spectral imaging methods are attracting increased interest from researchers and practitioners in basic science, pre-clinical and clinical arenas. A combination of better labeling reagents and better optics creates opportunities to detect and measure multiple parameters at the molecular and cellular level. These tools can provide valuable insights into the basic mechanisms of life, and yield diagnostic and prognostic information for clinical applications. There are many multispectral technologies available, each with its own advantages and limitations. This chapter will present an overview of the rationale for spectral imaging, and discuss the hardware, software and sample labeling strategies that can optimize its usefulness in clinical settings

Maskless imaging of dense samples using pixel super-resolution based multi-height lensfree on-chip microscopy.

Lensfree in-line holographic microscopy offers sub-micron resolution over a large field-of-view (e.g., ~24 mm2) with a cost-effective and compact design suitable for field use. However, it is limited to relatively low-density samples. To mitigate this limitation, we demonstrate an on-chip imaging approach based on pixel super-resolution and phase recovery, which iterates among multiple lensfree intensity measurements, each having a slightly different sample-to-sensor distance. By digitally aligning and registering these lensfree intensity measurements, phase and amplitude images of dense and connected specimens can be iteratively reconstructed over a large field-of-view of ~24 mm2 without the use of any spatial masks. We demonstrate the success of this multi-height in-line holographic approach by imaging dense Papanicolaou smears (i.e., Pap smears) and blood samples