Live-Cell Imaging and Automation of Image Analysis

A Study of Nuclei Classification Methods in Histopathological Images

Published date : 21 May 2017

Cancer is a group of diseases involving abnormal cell growth with varying malignancy and extent across different patients. Cytological features like prominent nucleoli, nuclear enlargement, and hyperchromasia are important to the tumor pathologist in assessment of cancer malignancy from tissue biopsies. In a recent study, Yap et al. [21] proposed effective prominent nucleoli detectors in histopathological images and developed different feature generation methods.

type
Conference Paper/Poster
journal
Proceedings of the 5th KES International Conference on Innovation in Medicine and Healthcare (KES-InMed 2017)

Segment 2D and 3D Filaments by Learning Sructured and Contextual Features

Published date : 31 Oct 2016

We focus on the challenging problem of filamentary structure segmentation in both 2D and 3D images, including retinal vessels and neurons, among others. Despite the increasing amount of efforts in learning based methods to tackle this

type
Journal Paper
journal
IEEE Transactions on Medical Imaging, Issue 99, 2016, doi: 10.1109/TMI.2016.2623357
Impact Factor
2.536

Lie-X: Depth Image Based Articulated Object Pose Estimation, Tracking, and Action Recognition on Lie Groups

Published date : 12 Aug 2016

Pose estimation, tracking, and action recognition of articulated objects from depth images are important and challenging problems, which are normally considered separately. In this paper, a unied paradigm based on Lie group theory is proposed, which enables us to collectively address these related problems. Our approach is also applicable to a wide range of articulated objects. Empirically it is evaluated on lab animals including mouse and sh, as well as on human hand. On
these applications, it is shown to deliver competitive results compared to the state-of-the-arts, and non-trivial

type
Journal Paper
journal
International Journal of Computer Vision, 2016
Impact Factor
4.207

Live imaging of muscle histolysis in Drosophila metamorphosis

Published date : 04 May 2016

Background
The contribution of programmed cell death (PCD) to muscle wasting disorders remains a matter of debate. Drosophila melanogaster metamorphosis offers the opportunity to study muscle cell death in the context of development. Using live cell imaging of the abdomen, two groups of larval muscles can be observed, doomed muscles that undergo histolysis and persistent muscles that are remodelled and survive into adulthood.

Method

type
Journal Paper
journal
BMC Developmental Biology 2016, doi: 10.1186/s12861-016-0113-1
Impact Factor
2.096

A model of muscle atrophy based on live microscopy of muscle remodelling in Drosophila metamorphosis

Published date : 10 Feb 2016

Genes controlling muscle size and survival play important roles in muscle wasting diseases. In Drosophila melanogaster metamorphosis, larval abdominal muscles undergo two developmental fates. While a doomed population is eliminated by cell death, another persistent group is remodelled and survives into adulthood. To identify and characterize genes involved in the development of remodelled muscles, we devised a workflow consisting of in vivo imaging, targeted gene perturbation and quantitative image analysis.

type
Journal Paper
journal
Royal Society Open Science, Feb 2016, 3:150517, doi: 10.1098/rsos.150517

Muscle segmentation in time series images of Drosophila metamorphosis

Published date : 25 Aug 2015

In order to study genes associated with muscular disorders, we characterize the phenotypic changes in Drosophila muscle cells during metamorphosis caused by genetic perturbations. We collect in vivo images of muscle fibers during remodeling of larval to adult muscles. In this paper, we focus on the new image processing pipeline designed to quantify the changes in shape and size of muscles. We propose a new two-step approach to muscle segmentation in time series images.

type
Conference Paper/Poster
journal
Proceedings : 37th Annual International Conference of the IEEE, Engineering in Medicine and Biology Society (EMBC) 25-29 Aug 2015, doi: 10.1109/EMBC.2015.7319044

FMAj: a tool for high content analysis of muscle dynamics in Drosophila metamorphosis

Published date : 08 Dec 2014

Background
During metamorphosis in Drosophila melanogaster, larval muscles undergo two different developmental fates; one population is removed by cell death, while the other persistent subset undergoes morphological remodeling and survives to adulthood. Thanks to the ability to perform live imaging of muscle development in transparent pupae and the power of genetics, metamorphosis in Drosophila can be used as a model to study the regulation of skeletal muscle mass. However, time-lapse microscopy generates sizeable image data that require new tools for high throughput image analysis.

type
Journal Paper
journal
BMC Bioinformatics201415(Suppl 16):S6, doi: 10.1186/1471-2105-15-S16-S6
Impact Factor
2.435

Effects of Hydrogen Peroxide on Wound Healing in Mice in Relation to Oxidative Damage

Published date : 04 Oct 2012

It has been established that low concentrations of hydrogen peroxide (H2O2) are produced in wounds and is required for optimal healing. Yet at the same time, there is evidence that excessive oxidative damage is correlated with poor-healing wounds. In this paper, we seek to determine whether topical application of H2O2 can modulate wound healing and if its effects are related to oxidative damage. Using a C57BL/6 mice excision wound model, H2O2 was found to enhance angiogenesis and wound closure at 10 mM but retarded wound closure at 166 mM.

type
Journal Paper
journal
PLoS ONE Nov 2012, Vol. 7, Issue 11, doi: 10.1371/journal.pone.0049215
Impact Factor
4.092

The study of muscle remodeling in Drosophila metamorphosis using in vivo microscopy and bioimage informatics

Published date : 02 Oct 2012

Abstract
Background

Metamorphosis in insects transforms the larval into an adult body plan and comprises the destruction and remodeling of larval and the generation of adult tissues. The remodeling of larval into adult muscles promises to be a genetic model for human atrophy since it is associated with dramatic alteration in cell size. Furthermore, muscle development is amenable to 3D in vivo microscopy at high cellular resolution. However, multi-dimensional image acquisition leads to sizeable amounts of data that demand novel approaches in image processing and analysis.
Results

type
Conference Paper/Poster
journal
Proceedings of Asia Pacific Bioinformatics Network (APBioNet) Eleventh International Conference on Bioinformatics (InCoB2012), Bangkok, Thailand 2-5 Oct 2012
Impact Factor
2.751