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All Outputs (46)

A conceptual framework for social movements analytics for national security (2018)
Conference Proceeding
Cárdenas, P., Theodoropoulos, G., Obara, B., & Kureshi, I. (2018). A conceptual framework for social movements analytics for national security. In Computational Science – ICCS 2018 : 18th International Conference, Wuxi, China, June 11–13, 2018, Proceedings, Part I (302-315). https://doi.org/10.1007/978-3-319-93698-7_23

Social media tools have changed our world due to the way they convey information between individuals; this has led to many social movements either starting on social media or being organised and managed through this medium. At times however, certain... Read More about A conceptual framework for social movements analytics for national security.

Visual siamese clustering for cosmetic product recommendation (2018)
Conference Proceeding
Holder, C., & Obara, B. (2018). Visual siamese clustering for cosmetic product recommendation.

We investigate the problem of a visual similarity-based recommender system, where cosmetic products are recommended based on the preferences of people who share similarity of visual features. In this work we train a Siamese convolutional neural netwo... Read More about Visual siamese clustering for cosmetic product recommendation.

Interactive GPU Active Contours for Segmenting Inhomogeneous Objects (2017)
Journal Article
Willcocks, C. G., Jackson, P. T., Nelson, C. J., Nasrulloh, A., & Obara, B. (2019). Interactive GPU Active Contours for Segmenting Inhomogeneous Objects. Journal of Real-Time Image Processing, 16(6), 2305-2318. https://doi.org/10.1007/s11554-017-0740-1

We present a segmentation software package primarily targeting medical and biological applications, with a high level of visual feedback and several usability enhancements over existing packages. Specifically, we provide a substantially faster GPU im... Read More about Interactive GPU Active Contours for Segmenting Inhomogeneous Objects.

Threonine 150 phosphorylation of keratin 5 is linked to EBS and regulates filament assembly, cell cycle and oxidative stress response (2017)
Journal Article
Sawant, M., Schwarz, N., Windoffer, R., Magin, T., Krieger, J., Mucke, N., …Leube, R. E. (2018). Threonine 150 phosphorylation of keratin 5 is linked to EBS and regulates filament assembly, cell cycle and oxidative stress response. Journal of Investigative Dermatology, 138(3), 627-636. https://doi.org/10.1016/j.jid.2017.10.011

A characteristic feature of the skin blistering disease epidermolysis bullosa simplex is keratin filament (KF) network collapse caused by aggregation of the basal epidermal keratin type II (KtyII) K5 and its type I partner keratin 14 (K14). Here, we... Read More about Threonine 150 phosphorylation of keratin 5 is linked to EBS and regulates filament assembly, cell cycle and oxidative stress response.

Multi-scale Segmentation and Surface Fitting for Measuring 3D Macular Holes (2017)
Journal Article
Nasrulloh, A., Willcocks, C., Jackson, P., Geenen, C., Habib, M., Steel, D., & Obara, B. (2018). Multi-scale Segmentation and Surface Fitting for Measuring 3D Macular Holes. IEEE Transactions on Medical Imaging, 37(2), 580-589. https://doi.org/10.1109/tmi.2017.2767908

Macular holes are blinding conditions where a hole develops in the central part of retina, resulting in reduced central vision. The prognosis and treatment options are related to a number of variables including the macular hole size and shape. High-r... Read More about Multi-scale Segmentation and Surface Fitting for Measuring 3D Macular Holes.

Contrast-independent curvilinear structure enhancement in 3D biomedical images (2017)
Conference Proceeding
Sazak, Ç., & Obara, B. (2017). Contrast-independent curvilinear structure enhancement in 3D biomedical images. In 2017 IEEE 14th International Symposium on Biomedical Imaging (ISBI 2017) : From Nano to Macro, Melbourne, Australia, 18-21 April 2017 ; proceedings (1165-1168). https://doi.org/10.1109/isbi.2017.7950723

A wide range of biomedical applications require detection, quantification and modelling of curvilinear structures in 3D images. Here we propose a 3D contrast-independent approach to enhance curvilinear structures based on the 3D Phase Congruency Tens... Read More about Contrast-independent curvilinear structure enhancement in 3D biomedical images.

Automated analysis of Physarum network structure and dynamics (2017)
Journal Article
Fricker, M. D., Akita, D., Heaton, L. L., Jones, N., Obara, B., & Nakagaki, T. (2017). Automated analysis of Physarum network structure and dynamics. Journal of Physics D: Applied Physics, 50(25), Article 254005. https://doi.org/10.1088/1361-6463/aa72b9

We evaluate different ridge-enhancement and segmentation methods to automatically extract the network architecture from time-series of Physarum plasmodia withdrawing from an arena via a single exit. Whilst all methods gave reasonable results, judged... Read More about Automated analysis of Physarum network structure and dynamics.

Avoiding over-detection: towards combined object detection and counting (2017)
Conference Proceeding
Jackson, P. T., & Obara, B. (2017). Avoiding over-detection: towards combined object detection and counting. In Artificial intelligence and soft computing : 16th International Conference, ICAISC 2017, Zakopane, Poland, June 11-15, 2017. Proceedings. Part I (75-85). https://doi.org/10.1007/978-3-319-59063-9_7

Existing object detection frameworks in the deep learning field generally over-detect objects, and use non-maximum suppression (NMS) to filter out excess detections, leaving one bounding box per object. This works well so long as the ground-truth bou... Read More about Avoiding over-detection: towards combined object detection and counting.

2D adaptive grid-based image analysis approach for biological networks (2016)
Conference Proceeding
Alhasson, H. F., & Obara, B. (2016). 2D adaptive grid-based image analysis approach for biological networks. In 2016 IEEE 16th International Conference on Bioinformatics and Bioengineering (BIBE) : 31 October–2 November 2016 Taichung, Taiwan ; proceedings (230-237). https://doi.org/10.1109/bibe.2016.17

The accurate analysis of biological networks, enabled by the precise capture of their individual components, can reveal important underlying biological principles. Efficient image processing techniques are required to precisely identify and quantify... Read More about 2D adaptive grid-based image analysis approach for biological networks.

Extracting 3D parametric curves from 2D images of helical objects (2016)
Journal Article
Willcocks, C., Jackson, P. T., Nelson, C. J., & Obara, B. (2016). Extracting 3D parametric curves from 2D images of helical objects. IEEE Transactions on Pattern Analysis and Machine Intelligence, 39(9), 1757-1769. https://doi.org/10.1109/tpami.2016.2613866

Helical objects occur in medicine, biology, cosmetics, nanotechnology, and engineering. Extracting a 3D parametric curve from a 2D image of a helical object has many practical applications, in particular being able to extract metrics such as tortuosi... Read More about Extracting 3D parametric curves from 2D images of helical objects.

Evolution of Electronic Circuits using Carbon Nanotube Composites (2016)
Journal Article
Massey, M., Kotsialos, A., Volpati, D., Vissol-Gaudin, E., Pearson, C., Bowen, L., …Petty, M. (2016). Evolution of Electronic Circuits using Carbon Nanotube Composites. Scientific Reports, 6, Article 32197. https://doi.org/10.1038/srep32197

Evolution-in-materio concerns the computer controlled manipulation of material systems using external stimuli to train or evolve the material to perform a useful function. In this paper we demonstrate the evolution of a disordered composite material,... Read More about Evolution of Electronic Circuits using Carbon Nanotube Composites.

Runway detection in high resolution remote sensing data (2015)
Conference Proceeding
Jackson, P. T., Nelson, C. J., Schiefeley, J., & Obara, B. (2015). Runway detection in high resolution remote sensing data. In ISPA 2015 : 9th International Symposium on Image and Signal Processing and Analysis, 7-9 September 2015, Zagreb, Croatia ; proceedings (170-175). https://doi.org/10.1109/ispa.2015.7306053

Runways are vital descriptive features of airports and knowledge of their location is important to many aviation and military applications. With the recent wide availability of remote sensing data, there is demand for an automatic process of extracti... Read More about Runway detection in high resolution remote sensing data.

Three-dimensional visualization and quantification of lipids in microalgae using confocal laser scanning microscopy (2015)
Book Chapter
Chansawang, N., Obara, B., Geider, R. J., & Laissue, P. P. (2015). Three-dimensional visualization and quantification of lipids in microalgae using confocal laser scanning microscopy. In T. J. McGenity, K. N. Timmis, & B. Nogales Fernández (Eds.), Hydrocarbon and lipid microbiology protocols : ultrastructure and imaging (145-161). Springer Verlag. https://doi.org/10.1007/8623_2015_142

Fluorescence microscopy and digital imaging allow the selective visualisation and quantification of cellular components and can convey research findings in an appealing and intuitive way. These techniques are regularly used in biomedical research lab... Read More about Three-dimensional visualization and quantification of lipids in microalgae using confocal laser scanning microscopy.

Blobs and curves: object-based colocalisation for plant cells (2014)
Journal Article
Nelson, C., Duckney, P., Hawkins, T., Deeks, M., Laissue, P., Hussey, P., & Obara, B. (2014). Blobs and curves: object-based colocalisation for plant cells. Functional Plant Biology, 42(5), 471-485. https://doi.org/10.1071/fp14047

Blobs and curves occur everywhere in plant bioimaging: from signals of fluorescence-labelled proteins, through cytoskeletal structures, nuclei staining and cell extensions such as root hairs. Here we look at the problem of colocalisation of blobs wit... Read More about Blobs and curves: object-based colocalisation for plant cells.

Speeding Up Active Mesh Segmentation by Local Termination of Nodes (2014)
Conference Proceeding
Nelson, C. J., Dixon, M., Laissue, P. P., Obara, B., Reyes-Aldasoro, C. C., & Slabaugh, G. (2014). Speeding Up Active Mesh Segmentation by Local Termination of Nodes. In Medical image understanding and analysis 2014 (179-184)

This article outlines a procedure for speeding up segmentation of images using active mesh systems. Active meshes and other deformable models are very popular in image segmentation due to their ability to capture weak or missing boundary information;... Read More about Speeding Up Active Mesh Segmentation by Local Termination of Nodes.

A bioimage informatics QVEST: quick, versatile and easy segmentation & tracking system (2014)
Conference Proceeding
Nelson, C. J., & Obara, B. (2014). A bioimage informatics QVEST: quick, versatile and easy segmentation & tracking system.

Often bioimage informatics solutions are developed on a case-by-case system and, once complete, may not be developed or used in a wide spread of applications. Here we demonstrate how a single image analysis technique can be used to segment objects in... Read More about A bioimage informatics QVEST: quick, versatile and easy segmentation & tracking system.