121 research outputs found
Dataset in support of the Southampton doctoral thesis 'The boatbuilding tradition of the Aegean during the Late Neolithic – Early Bronze Age periods. Typological classification, digital reconstruction and seakeeping assessment'
No full textDataset in support of the Southampton doctoral thesis 'The boatbuilding tradition of the Aegean during the Late Neolithic – Early Bronze Age periods. Typological classification, digital reconstruction and seakeeping assessment' Appendix D - Resistance data and Appendix C - Stability data.
This dataset is focused on two appendices:
Appendix D - Resistance data. D.1 Resistance data produced by the author via MAXSURF Resistance for this thesis.
Appendix C - Stability data
C1. Stability data – STIX and ISO criteria, produced by the author via MAXSURF Stability software for his thesis
This research was funded by Southampton Marine and Maritime Institute (SMMI), Vice-Chancellor's Scholarship, Greek Archaeological Committee UK (GACUK)
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Tracking Single-Cells in Overcrowded Bacterial Colonies
No full textCell tracking enables data extraction from timelapse "cell movies" and promotes modeling biological processes at the single-cell level. We introduce a new fully automated computational strategy to track accurately cells across frames in time-lapse movies. Our method is based on a dynamic neighborhoods formation and matching approach, inspired by motion estimation algorithms for video compression. Moreover, it exploits "divide and conquer" opportunities to solve effectively the challenging cells tracking problem in overcrowded bacterial colonies. Using cell movies generated by different labs we demonstrate that the accuracy of the proposed method remains very high (exceeds 97%) even when analyzing large overcrowded microbial colonies
Reconstructing the forest of lineage trees of diverse bacterial communities using bio-inspired image analysis
No full textKinetics of epoxy-asphalt oxidation
No full textIn-depth understanding of the temperature effect on oxidative aging in epoxy-asphalt blends is needed to enable accurate predictions on material response through their service life. Details of the significance of developing prediction models and tools on oxidative aging of pavement materials are presented in a companion paper (Apostolidis et al., Oxidation Simulation of Thin Bitumen Film. AM3P). In this research, the chemical compositional changes of epoxy modified asphalt binders, with and without filler, were analysed after oven-conditioning by means of Fourier transform infrared (FTIR) spectroscopy. With the carbonyl and sulfoxide compounds as aging indices, the sensitivity of chemical compositional changes of bituminous and epoxy-based systems due to the applied temperatures was observed.Accepted Author ManuscriptPavement Engineerin
Author Correction: AGREE-S: AGREE II extension for surgical interventions: appraisal instrument (Surgical Endoscopy, (2022), 36, 8, (5547-5558), 10.1007/s00464-022-09354-z)
No full textThis article was updated to correct Alessandro Montedori’s name. Collaborative authorship: The GAP Consortium: Yasser Sami Abdel Dayem, Luca Bertolaccini, Pablo Alonso- Coello, Elie Akl, Manish Chand, John J. Como, Gert J. de Borst, Salomone Di Saverio, Sameh Emile, Bang Wool Eom, Ramon Gorter, George Hanna, Kaisa Immonen, Quirino Lai, Nicolaas Lumen, Joseph L. Mathew, Alessandro Montendori, Martin Moya, Gianluca Pellino, Alvaro Sanabria, Athanasios Saratzis, Neil Smart, Dimitrios Stefanidis, Giovanni Zaninotto
Analytics and visualization tools to characterize single-cell stochasticity using bacterial single-cell movie cytometry data
No full textBackground: Time-lapse microscopy live-cell imaging is essential for studying the evolution of bacterial communities at single-cell resolution. It allows capturing detailed information about the morphology, gene expression, and spatial characteristics of individual cells at every time instance of the imaging experiment. The image analysis of bacterial “single-cell movies” (videos) generates big data in the form of multidimensional time series of measured bacterial attributes. If properly analyzed, these datasets can help us decipher the bacterial communities’ growth dynamics and identify the sources and potential functional role of intra- and inter-subpopulation heterogeneity. Recent research has highlighted the importance of investigating the role of biological “noise” in gene regulation, cell growth, cell division, etc. Single-cell analytics of complex single-cell movie datasets, capturing the interaction of multiple micro-colonies with thousands of cells, can shed light on essential phenomena for human health, such as the competition of pathogens and benign microbiome cells, the emergence of dormant cells (”persisters”), the formation of biofilms under different stress conditions, etc. However, highly accurate and automated bacterial bioimage analysis and single-cell analytics methods remain elusive, even though they are required before we can routinely exploit the plethora of data that single-cell movies generate. Results: We present visualization and single-cell analytics using R (ViSCAR), a set of methods and corresponding functions, to visually explore and correlate single-cell attributes generated from the image processing of complex bacterial single-cell movies. They can be used to model and visualize the spatiotemporal evolution of attributes at different levels of the microbial community organization (i.e., cell population, colony, generation, etc.), to discover possible epigenetic information transfer across cell generations, infer mathematical and statistical models describing various stochastic phenomena (e.g., cell growth, cell division), and even identify and auto-correct errors introduced unavoidably during the bioimage analysis of a dense movie with thousands of overcrowded cells in the microscope’s field of view. Conclusions: ViSCAR empowers researchers to capture and characterize the stochasticity, uncover the mechanisms leading to cellular phenotypes of interest, and decipher a large heterogeneous microbial communities’ dynamic behavior. ViSCAR source code is available from GitLab at
Bacterial Image Analysis and Single-Cell Analytics to Decipher the Behavior of Large Microbial Communities
No full textOptical breakdown acoustics : transduction and sensing underwater
No full textThis electronic version was submitted by the student author. The certified thesis is available in the Institute Archives and Special Collections.Thesis: Ph. D., Massachusetts Institute of Technology, Department of Mechanical Engineering, 2019Cataloged from student-submitted PDF version of thesis.Includes bibliographical references (pages 191-199).In the sea, infrastructures such as ships, pipelines, and wind turbines are exposed to harsh conditions that can wear down the structures through wave loading and corrosion. Because of these wear mechanisms, maritime structures require regular inspections to identify early signs of damage or fatigue. Currently, inspections are performed visually or with contact acoustic transducers, often by a human diver. However, these methods are slow and costly, and can be hindered by surface irregularities like biofouling. Therefore, new sensing techniques are needed to meet the rising demand for offshore infrastructure monitoring. In this thesis, I develop optical breakdown as an acoustic source for non-contact measurements of underwater structures. Optical breakdown occurs when a high-power laser is focused to a small spot, causing nonlinear interactions between the light and water. A compact plasma forms at the focus and expands explosively, radiating a loud, broadband pressure wave.Since this source is compact, laser-controlled and broadband, it provides unique sensing capabilities that overcome challenges faced by traditional transducers. First, I demonstrate how the breakdown source can be used to remotely measure the internal properties of submerged plates. The source is used to excite leaky Lamb waves in the plates, and broadband elastic dispersion spectra are measured using hydrophones in the water. The dispersion spectra are used to calculate the thicknesses and sound speeds in aluminum, steel, bronze and glass plates of varying thickness. Second, I characterize how the source can be controlled and scaled up by combining acoustic measurements with high-speed images of the breakdown plasma. In general, breakdown produces a loud (>100kPa at 10cm), ultra-broadband (5kHz-5MHz) source, whose characteristics depend on measurement orientation and laser properties.This transduction behavior is explained by modeling the breakdown plasma as an array of laser-driven explosions. When the laser is tightly focused, the plasma is compact, producing a loud and omnidirectional signal. However, for weak focusing and high energies, the plasma lengthens and becomes erratic, producing a weaker signal with less consistent behavior. These results reveal design challenges, tradeoffs and opportunities when adapting the breakdown source for dierent applications.by Athanasios G. Athanassiadis.Ph. D.Ph.D. Massachusetts Institute of Technology, Department of Mechanical Engineerin
Genome wide high density SNP-based linkage analysis of childhood absence epilepsy identifies a susceptibility locus on chromosome 3p23-p14
No full textChildhood absence epilepsy (CAE) is an idiopathic generalised epilepsy (IGE) characterised by typical absence seizures manifested by transitory loss of awareness with 2.5–4 Hz spike-wave complexes on ictal EEG. A genetic component to the aetiology is well recognised but the mechanism of inheritance and the genes involved are yet to be fully established.
A genome wide single nucleotide polymorphism (SNP)-based high density linkage scan was carried out using 41 nuclear pedigrees with at least two affected members. Multipoint parametric and non-parametric linkage analyses were performed using MERLIN 1.1.1 and a susceptibility locus was identified on chromosome 3p23-p14 (Zmean = 3.9, p < 0.0001; HLOD = 3.3, α = 0.7). The linked region harbours the functional candidate genes TRAK1 and CACNA2D2. Fine-mapping using a tagSNP approach demonstrated disease association with variants in TRAK1
Microwave heating simulation of asphalt pavements
No full textMicrowave heating is a promising heating technology for the maintenance, recycling and deicing of pavement structures. Many experimental studies have been conducted to investigate the microwave heating properties of asphalt mixtures in the laboratory. However, very few studies investigated the application of microwave heating on asphalt pavements. This study aims to simulate microwave heating of paving materials using the finite element method. Results show that the developed three-dimensional model, which couples the physics of electromagnetic waves and heat transfer, shows a great potential for optimizing the design of microwave heating prototypes for pavement applications.Accepted Author ManuscriptPavement Engineerin
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