Imaging Informatics Division

Superresolution microscopy reveals distinct localisation of full length IRSp53 and its I-BAR domain protein within filopodia

Published date : 21 Feb 2019

Superresolution microscopy offers the advantage of imaging biological structures within cells at the nano-scale. Here we apply two superresolution microscopy techniques, specifically 3D structured illumination microscopy (3D-SIM) and direct stochastic optical reconstruction microscopy (dSTORM), a type of single molecule localisation microscopy, to localise IRSp53 protein and its I-BAR domain in relation to F-actin within filopodia. IRSp53 generates dynamic (extending and retracting) filopodia 300 nm wide with a distinct gap between IRSp53 and F-actin.

type
Journal Paper
journal
Scientific Reports 9, Article no: 2524(2019). doi: 10.1038/s41598-019-38851-w
Impact Factor
4.122

Anisotropic traction stresses and focal adhesion polarization mediates topography-induced cell elongation

Published date : 30 Jul 2018

Cell elongation and differentiation has been shown to be modulated by topographical cues provided by grating substratum. However, little is known about the mechanisms and forces involved in the grating-induced cell elongation, due to the difficulty in fabricating soft elastic gels that allow 3-dimensional (3D) cell traction stress measurements. In this paper, we present a method to fabricate soft elastic polyacrylamide grating substrates, using an imprinted polyethylene terephthalate mould, for 3D cell traction stress measurements.

type
Journal Paper
journal
Biomaterials, Vol. 181, October 2018, Pg 103-112, doi: 10.1016/j.biomaterials.2018.07.057
Impact Factor
8.806

Supervised Segmentation of Un-annotated Retinal Fundus Images by Synthesis

Published date : 24 Jul 2018

We focus on the practical challenge of segmenting new retinal fundus images that are dissimilar to existing well-annotated datasets. It is addressed in this paper by a supervised learning pipeline, with its core being the construction of a synthetic fundus image dataset using the proposed R-sGAN technique. The resulting synthetic images are realistic-looking in terms of the query images, while maintaining the annotated vessel structures from the existing dataset. This helps to bridge the mismatch between the query images and the existing well-annotated dataset.

type
Journal Paper
journal
IEEE Transactions on Medical Imaging, 2018 Jul 24. doi: 10.1109/TMI.2018.2854886
Impact Factor
6.131

Emerging technologies for food and drug safety

Published date : 23 Jul 2018

Emerging technologies are playing a major role in the generation of new approaches to assess the safety of both foods and drugs. However, the integration of emerging technologies in the regulatory decision-making process requires rigorous assessment and consensus amongst international partners and research communities.

type
Journal Paper
journal
Regulatory Toxicology and Pharmacology, Vol. 98, Oct 2018, Pg 115-128, doi: 10.1016/j.yrtph.2018.07.013
Impact Factor
2.815

Synthesizing retinal and neuronal images with generative adversarial nets

Published date : 04 Jul 2018

This paper aims at synthesizing multiple realistic-looking retinal (or neuronal) images from an unseen tubular structured annotation that contains the binary vessel (or neuronal) morphology. The generated phantoms are expected to preserve the same tubular structure, and resemble the visual appearance of the training images. Inspired by the recent progresses in generative adversarial nets (GANs) as well as image style transfer, our approach enjoys several advantages.

type
Journal Paper
journal
Medical Image Analysis, 2018 Jul 4;49:14-26. doi: 10.1016/j.media.2018.07.001
Impact Factor
5.356

Enhanced Delta-Notch Lateral Inhibition Model Incorporating Intracellular Notch Heterogeneity and Tension-Dependent Rate of Delta-Notch Binding that Reproduces Sprouting Angiogenesis Patterns

Published date : 22 Jun 2018

Endothelial cells adopt unique cell fates during sprouting angiogenesis, differentiating into tip or stalk cells. The fate selection process is directed by Delta-Notch lateral inhibition pathway. Classical Delta-Notch models produce a spatial pattern of tip cells separated by a single stalk cell, or the salt-and-pepper pattern. However, classical models cannot explain alternative tip-stalk patterning, such as tip cells that are separated by two or more stalk cells.

type
Journal Paper
journal
Scientific Reports 8, No. 9519, 2018, doi: 10.1038/s41598-018-27645-1
Impact Factor
4.122

Three-dimensional computational model of multiphase flow driven by a bed of active cilia

Published date : 02 May 2018

Micro-scale physiological fluid propulsion is often accomplished with arrays of beating cilia. It is well-known that cilia can spontaneously coordinate their beat patterns to form metachronal waves. While it is generally agreed upon that metachronal waves arise largely due to hydrodynamic coupling, their effects on fluid propulsion are not thoroughly explored. There are presently complex, nonlinear models where cilia motion mimics their internal mechanisms; however these models are often computationally challenging and expensive to perform.

type
Journal Paper
journal
Computers & Fluids, Vol. 170, 15 Jul 2018, Pg 222-235, doi: 10.1016/j.compfluid.2018.05.001
Impact Factor
2.221

Building predictive in vitro pulmonary toxicity assays using high-throughput imaging and artificial intelligence

Published date : 28 Apr 2018

Human lungs are susceptible to the toxicity induced by soluble xenobiotics. However, the direct cellular effects of many pulmonotoxic chemicals are not always clear, and thus, a general in vitro assay for testing pulmonotoxicity applicable to a wide variety of chemicals is not currently available. Here, we report a study that uses high-throughput imaging and artificial intelligence to build an in vitro pulmonotoxicity assay by automatically comparing and selecting human lung-cell lines and their associated quantitative phenotypic features most predictive of in vivo pulmonotoxicity.

type
Journal Paper
journal
Archives of Toxicology, April 2018, doi: 10.1007/s00204-018-2213-0
Impact Factor
5.901

Human mesenchymal stem cell basal membrane bending on gratings is dependent on both grating width and curvature

Published date : 24 Apr 2018

The topography of the extracellular substrate provides physical cues to elicit specific downstream biophysical and biochemical effects in cells. An example of such a topographical substrate is periodic gratings, where the dimensions of the periodic gratings influence cell morphology and directs cell differentiation.

type
Journal Paper
journal
Scintific Reports 8, No. 6444, 2018, doi: 10.1038/s41598-018-24123-6
Impact Factor
4.122