National Institute of Standards and Technology

Survey Statistics of Automated Segmentations Applied to Optical Imaging of Mammalian Cells


Classification of 72 publications according to the classification criteria described below. The image segmentation-related publications are at the intersection of optical microscopy-based cellular measurements and automated segmentation.

The first order (frequency of occurrence) and second order (co-occurrence) statistics derived from classifications of the surveyed literature consist of three layers of information:

    (1) a list of classification categories and their occurrences,
    (2) a table of co-occurring categories and their co-occurrences, and
    (3) the list of papers that are contributing to each occurrence or co-occurrence number.
These three layers of information would not fit into this manuscript and are easier to browse as a set of web hyperlinked web pages.

Access to 1st Order (Histogram) and 2nd Order (Co-Occurrence) Statistics of Classification Categories Applied to the Surveyed Publications


Access to 1st and 2nd Order Stats Object of Interest   Imaging Modality   Data Axes   Segmentation   Segmentation Evaluation   Segmentation Acceleration Platform   Object Measurement  
Object of Interest Click   Click   Click   Click   Click   Click  
Imaging Modality Click   Click   Click   Click   Click  
Data Axes Click   Click   Click   Click  
Segmentation Click   Click   Click  
Segmentation Evaluation Click   Click  
Segmentation Acceleration Platform Click  
Object Measurement

Classification Categories and Their Sub-categories Applied to the Surveyed Publications


Object of Interest

Imaging Modality

Data Axes

Segmentation

Segmentation Evaluation

Segmentation Acceleration Platform

Object Measurement

Cell

Phase Contrast

X-Y-T

Thresholding

Visual inspection

Unknown

Motility

Nucleus

Differential Interference Contrast

X-Y-Z

Region Growing

Unknown

Single-core Central Processing Unit (CPU)

Counting

Synthetic (digital model)

Bright-field

X-Y-Z-T

Morphological

Technique is not specified

Multi-core CPU

Geometry

Synthetic (reference material)

Dark-field

Watershed

Object-level evaluation

Graphics Processing Unit (GPU)

Location

Other (proteins, fibers, extracellular space, etc.)

Confocal fluorescence

Graph-based

Pixel-level evaluation

Cluster

Intensity

Wide-field fluorescence

Active contours & Level Set

Two-photon fluorescence

Partial Derivative Equations (PDE)

Light sheet

Other

Survey publication disclaimer:

The National Institute of Standards and Technology (NIST) uses substantial efforts to select publications that meet the publication survey criteria. However, NIST makes no warranties that the survey is exhaustive. The survey and its contents are provided by NIST as a public service and are strictly provided "AS IS" with no warranties of any type. Furthermore, NIST does not make any statements about quality of publications by including them in the survey classification and does not imply any recommendation or endorsement.

Contributors:

ITL-Software and Systems Division
Information Systems Group
MML-Biosystems and Biomaterials Division
Cell Systems Science Group
Lodz University of Technology, Poland

Publications:

Authors, "Survey Statistics of Automated Segmentations Applied to Optical Imaging of Mammalian Cells", BMC Bioinformatics, 2015, 16:330. doi: 10.1186/s12859-015-0762-2 (pdf)

Data Download:

(download Tab delimited txt file)

Contact:

Peter Bajcsy
peter.bajcsy@nist.gov
Phone: 301.975.2958

Date created: April 10, 2014 | Last updated: