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People matching "Modelling gene networks: the case of the quorum se"

Professor Nigel Bean
Chair of Applied Mathematics


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Professor Robert Elliott
Australian Research Council Professorial Fellow


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Dr Ali Eshragh
ARC Funded Research Associate


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Associate Professor Gary Glonek
Associate Professor in Statistics


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Dr David Green
Lecturer in Applied Mathematics


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Professor Tony Roberts
Professor of Applied Mathematics


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Dr Joshua Ross
Senior Lecturer in Applied Mathematics


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Professor Matthew Roughan
Professor of Applied Mathematics


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Professor Patty Solomon
Professor of Statistical Bioinformatics


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Courses matching "Modelling gene networks: the case of the quorum se"

Financial Modelling: Tools and Techniques

The growth of the range of financial products that are traded on financial markets or are available at other financial institutions, is a notable feature of the finance industry. A major factor contributing to this growth has been the development of sophisticated methods to price these products. The significance to the finance industry of developing a method for pricing options (financial derivatives) was recognized by the awarding of the Nobel Prize in Economics to Myron Scholes and Robert Merton in 1997. The mathematics upon which their method is built is stochastic calculus in continuous time. Binomial lattice type models provide another approach for pricing options. These models are formulated in discrete time and the examination of their structure and application in various financial settings takes place in a mathematical context that is less technically demanding than when time is continuous. This course discusses the binomial framework, shows how discrete-time models currently used in the financial industry are formulated within this framework and uses the models to compute prices and construct hedges to manage financial risk. Spreadsheets are used to facilitate computations where appropriate. Topics covered are: The no-arbitrage assumption for financial markets; no-arbitrage inequalities; formulation of the one-step binomial model; basic pricing formula; the Cox-Ross-Rubinstein (CRR) model; application to European style options, exchange rates and interest rates; formulation of the n-step binomial model; backward induction formula; forward induction formula; n-step CRR model; relationship to Black-Scholes; forward and future contracts; exotic options; path dependent options; implied volatility trees; implied binomial trees; interest rate models; hedging; real options; implementing the models using EXCEL spreadsheets.

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Information theory and networks

TBA

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Modelling and Simulation of Stochastic Systems

The course provides students with the skills to analyse and design systems using modelling and simulation techniques. Case studies will be undertaken involving hands-on use of simulation packages. The application of simulation in areas such as manufacturing, telecommunications and transport will be investigated. At the end of this course, students will be capable of identifying practical situations where simulation modelling can be helpful, reporting to management on how they would undertake such a project, collecting relevant data, building and validating a model, analysing the output and reporting their findings to management. Students complete a project in groups of two or three, write a concise summary of what they have done and report their findings to the class. The project report at the end of this course should be a substantial document that is a record of a student's practical ability in simulation modelling, which can also become part of a portfolio or CV. Topics covered are: Introduction to simulation, hand simulation, introduction to a simulation package, review of basic probabilty theory, introduction to random number generation, generation of random variates, anaylsis of simulation output, variance reduction techniques and basic analytic queeing models.

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Statistical Analysis and Modelling 1

This is a first course in Statistics for mathematically inclined students. It will address the key principles underlying commonly used statistical methods such as confidence intervals, hypothesis tests, inference for means and proportions, and linear regression. It will develop a deeper mathematical understanding of these ideas, many of which will be familiar from studies in secondary school. The application of basic and more advanced statistical methods will be illustrated on a range of problems from areas such as medicine, science, technology, government, commerce and manufacturing. The use of the statistical package SPSS will be developed through a sequence of computer practicals. Topics covered will include: basic probability and random variables, fundamental distributions, inference for means and proportions, comparison of independent and paired samples, simple linear regression, diagnostics and model checking, multiple linear regression, simple factorial models, models with factors and continuous predictors.

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Statistical Modelling and Inference

Statistical methods are important to all areas that rely on data including science, technology, government and commerce. To deal with the complex problems that arise in practice requires a sound understanding of fundamental statistical principles together with a range of suitable modelling techniques. Computing using a high level statistical package is also an essential element of modern statistical practice. This course provides an introduction to the principles of statistical inference and the development of linear statistical models with the statistical package R. Topics covered are: Point estimates, unbiasedness, mean-squared error, confidence intervals, tests of hypotheses, power calculations, derivation of one and two-sample procedures; simple linear regression, regression diagnostics, prediction; linear models, ANOVA, multiple regression, factorial experiments, analysis of covariance models, model building; likelihood based methods for estimation and testing, goodness of fit tests; sample surveys, population means, totals and proportions, simple random samples, stratified random samples. Topics covered are: point estimates, unbiasedness, mean-squared error, confidence intervals, tests of hypotheses, power calculations, derivation of one and two-sample procedures: simple linear regression, regression diagnostics, prediction: linear models, analysis of variance (ANOVA), multiple regression, factorial experiments, analysis of covariance models, model building; likelihood-based methods for estimation and testing and goodness-of-fit tests.

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Statistical Modelling III

One of the key requirements of an applied statistician is the ability to formulate appropriate statistical models and then apply them to data in order to answer the questions of interest. Most often, such models can be seen as relating a response variable to one or more explanatory variables. For example, in a medical experiment we may seek to evaluate a new treatment by relating patient outcome to treatment received while allowing for background variables such as age, sex and disease severity. In this course, a rigorous discussion of the linear model is given and various extensions are developed. There is a strong practical emphasis and the statistical package R is used extensively. Topics covered are: the linear model, least squares estimation, generalised least squares estimation, properties of estimators, the Gauss-Markov theorem; geometry of least squares, subspace formulation of linear models, orthogonal projections; regression models, factorial experiments, analysis of covariance and model formulae; regression diagnostics, residuals, influence diagnostics, transformations, Box-Cox models, model selection and model building strategies; models with complex error structure, split-plot experiments; logistic regression models.

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Events matching "Modelling gene networks: the case of the quorum se"

Stability of time-periodic flows
15:10 Fri 10 Mar 06 :: G08 Mathematics Building University of Adelaide :: Prof. Andrew Bassom, School of Mathematics and Statistics, University of Western Australia

Time-periodic shear layers occur naturally in a wide range of applications from engineering to physiology. Transition to turbulence in such flows is of practical interest and there have been several papers dealing with the stability of flows composed of a steady component plus an oscillatory part with zero mean. In such flows a possible instability mechanism is associated with the mean component so that the stability of the flow can be examined using some sort of perturbation-type analysis. This strategy fails when the mean part of the flow is small compared with the oscillatory component which, of course, includes the case when the mean part is precisely zero.

This difficulty with analytical studies has meant that the stability of purely oscillatory flows has relied on various numerical methods. Until very recently such techniques have only ever predicted that the flow is stable, even though experiments suggest that they do become unstable at high enough speeds. In this talk I shall expand on this discrepancy with emphasis on the particular case of the so-called flat Stokes layer. This flow, which is generated in a deep layer of incompressible fluid lying above a flat plate which is oscillated in its own plane, represents one of the few exact solutions of the Navier-Stokes equations. We show theoretically that the flow does become unstable to waves which propagate relative to the basic motion although the theory predicts that this occurs much later than has been found in experiments. Reasons for this discrepancy are examined by reference to calculations for oscillatory flows in pipes and channels. Finally, we propose some new experiments that might reduce this disagreement between the theoretical predictions of instability and practical realisations of breakdown in oscillatory flows.
Identifying the source of photographic images by analysis of JPEG quantization artifacts
15:10 Fri 27 Apr 07 :: G08 Mathematics Building University of Adelaide :: Dr Matthew Sorell

Media...
In a forensic context, digital photographs are becoming more common as sources of evidence in criminal and civil matters. Questions that arise include identifying the make and model of a camera to assist in the gathering of physical evidence; matching photographs to a particular camera through the camera’s unique characteristics; and determining the integrity of a digital image, including whether the image contains steganographic information. From a digital file perspective, there is also the question of whether metadata has been deliberately modified to mislead the investigator, and in the case of multiple images, whether a timeline can be established from the various timestamps within the file, imposed by the operating system or determined by other image characteristics. This talk is concerned specifically with techniques to identify the make, model series and particular source camera model given a digital image. We exploit particular characteristics of the camera’s JPEG coder to demonstrate that such identification is possible, and that even when an image has subsequently been re-processed, there are often sufficient residual characteristics of the original coding to at least narrow down the possible camera models of interest.
Flooding in the Sundarbans
15:10 Fri 18 May 07 :: G08 Mathematics Building University of Adelaide :: Steve Need

Media...
The Sunderbans is a region of deltaic isles formed in the mouth of the Ganges River on the border between India and Bangladesh. As the largest mangrove forest in the world it is a world heritage site, however it is also home to several remote communities who have long inhabited some regions. Many of the inhabited islands are low-lying and are particularly vulnerable to flooding, a major hazard of living in the region. Determining suitable levels of protection to be provided to these communities relies upon accurate assessment of the flood risk facing these communities. Only recently the Indian Government commissioned a study into flood risk in the Sunderbans with a view to determine where flood protection needed to be upgraded.

Flooding due to rainfall is limited due to the relatively small catchment sizes, so the primary causes of flooding in the Sunderbans are unnaturally high tides, tropical cyclones (which regularly sweep through the bay of Bengal) or some combination of the two. Due to the link between tidal anomaly and drops in local barometric pressure, the two causes of flooding may be highly correlated. I propose stochastic methods for analysing the flood risk and present the early work of a case study which shows the direction of investigation. The strategy involves linking several components; a stochastic approximation to a hydraulic flood routing model, FARIMA and GARCH models for storm surge and a stochastic model for cyclone occurrence and tracking. The methods suggested are general and should have applications in other cyclone affected regions.

Learning to Satisfy Actuator and Camera Networks
15:10 Fri 25 May 07 :: G08 Mathematics Building University of Adelaide :: Assistant Prof Mark Coates

Media...
Wireless sensor and actuator networks (SANETs) represent an important extension of sensor networks, allowing nodes within the network to make autonomous decisions and perform actions (actuation) in response to sensor measurements and shared information. SANETS combine aspects of sensor networks and multi-robot systems, and the merger gives rise to an array of challenges absent from conventional sensor networks. SANETs are active systems that must use the sensed information to modify the environment in order to elicit a desired response. This involves the development of an actuation strategy, a set of decision rules that specify how the network responds to sensed conditions. In this talk, I will discuss the challenges involved in using distributed algorithms to learn suitable actuation strategies. I will draw connections with the class of learning satisfiability problems, which includes a range of learning tasks involving multiple constraints.
Modelling gene networks: the case of the quorum sensing network in bacteria.
15:10 Fri 1 Jun 07 :: G08 Mathematics Building University of Adelaide :: Dr Adrian Koerber

The quorum sensing regulatory gene-network is employed by bacteria to provide a measure of their population-density and switch their behaviour accordingly. I will present an overview of quorum sensing in bacteria together with some of the modelling approaches I\'ve taken to describe this system. I will also discuss how this system relates to virulence and medical treatment, and the insights gained from the mathematics.
Finite Geometries: Classical Problems and Recent Developments
15:10 Fri 20 Jul 07 :: G04 Napier Building University of Adelaide :: Prof. Joseph A. Thas :: Ghent University, Belgium

In recent years there has been an increasing interest in finite projective spaces, and important applications to practical topics such as coding theory, cryptography and design of experiments have made the field even more attractive. In my talk some classical problems and recent developments will be discussed. First I will mention Segre's celebrated theorem and ovals and a purely combinatorial characterization of Hermitian curves in the projective plane over a finite field here, from the beginning, the considered pointset is contained in the projective plane over a finite field. Next, a recent elegant result on semiovals in PG(2,q), due to Gács, will be given. A second approach is where the object is described as an incidence structure satisfying certain properties; here the geometry is not a priori embedded in a projective space. This will be illustrated by a characterization of the classical inversive plane in the odd case. Another quite recent beautiful result in Galois geometry is the discovery of an infinite class of hemisystems of the Hermitian variety in PG(3,q^2), leading to new interesting classes of incidence structures, graphs and codes; before this result, just one example for GF(9), due to Segre, was known.
Likelihood inference for a problem in particle physics
15:10 Fri 27 Jul 07 :: G04 Napier Building University of Adelaide :: Prof. Anthony Davison

The Large Hadron Collider (LHC), a particle accelerator located at CERN, near Geneva, is (currently!) expected to start operation in early 2008. It is located in an underground tunnel 27km in circumference, and when fully operational, will be the world's largest and highest energy particle accelerator. It is hoped that it will provide evidence for the existence of the Higgs boson, the last remaining particle of the so-called Standard Model of particle physics. The quantity of data that will be generated by the LHC is roughly equivalent to that of the European telecommunications network, but this will be boiled down to just a few numbers. After a brief introduction, this talk will outline elements of the statistical problem of detecting the presence of a particle, and then sketch how higher order likelihood asymptotics may be used for signal detection in this context. The work is joint with Nicola Sartori, of the Università Ca' Foscari, in Venice.
Insights into the development of the enteric nervous system and Hirschsprung's disease
15:10 Fri 24 Aug 07 :: G08 Mathematics building University of Adelaide :: Assoc. Prof. Kerry Landman :: Department of Mathematics and Statistics, University of Melbourne

During the development of the enteric nervous system, neural crest (NC) cells must first migrate into and colonise the entire gut from stomach to anal end. The migratory precursor NC cells change type and differentiate into neurons and glia cells. These cells form the enteric nervous system, which gives rise to normal gut function and peristaltic contraction. Failure of the NC cells to invade the whole gut results in a lack of neurons in a length of the terminal intestine. This potentially fatal condition, marked by intractable constipation, is called Hirschsprung's Disease. The interplay between cell migration, cell proliferation and embryonic gut growth are important to the success of the NC cell colonisation process. Multiscale models are needed in order to model the different spatiotemporal scales of the NC invasion. For example, the NC invasion wave moves into unoccupied regions of the gut with a wave speed of around 40 microns per hour. New time-lapse techniques have shown that there is a web-like network structure within the invasion wave. Furthermore, within this network, individual cell trajectories vary considerably. We have developed a population-scale model for basic rules governing NC cell invasive behaviour incorporating the important mechanisms. The model predictions were tested experimentally. Mathematical and experimental results agreed. The results provide an understanding of why many of the genes implicated in Hirschsprung's Disease influence NC population size. Our recently developed individual cell-based model also produces an invasion wave with a well-defined wave speed; however, in addition Individual cell trajectories within the invasion wave can be extracted. Further challenges in modeling the various scales of the developmental system will be discussed.
Regression: a backwards step?
13:10 Fri 7 Sep 07 :: Maths G08 :: Dr Gary Glonek

Media...
Most students of high school mathematics will have encountered the technique of fitting a line to data by least squares. Those who have taken a university statistics course will also have heard this method referred to as regression. However, it is not obvious from common dictionary definitions why this should be the case. For example, "reversion to an earlier or less advanced state or form". In this talk, the mathematical phenomenon that gave regression its name will be explained and will be shown to have implications in some unexpected contexts.
The Linear Algebra of Internet Search Engines
15:10 Fri 5 Oct 07 :: G04 Napier Building University of Adelaide :: Dr Lesley Ward :: School of Mathematics and Statistics, University of South Australia

We often want to search the web for information on a given topic. Early web-search algorithms worked by counting up the number of times the words in a query topic appeared on each webpage. If the topic words appeared often on a given page, that page was ranked highly as a source of information on that topic. More recent algorithms rely on Link Analysis. People make judgments about how useful a given page is for a given topic, and they express these judgments through the hyperlinks they choose to put on their own webpages. Link-analysis algorithms aim to mine the collective wisdom encoded in the resulting network of links. I will discuss the linear algebra that forms the common underpinning of three link-analysis algorithms for web search. I will also present some work on refining one such algorithm, Kleinberg's HITS algorithm. This is joint work with Joel Miller, Greg Rae, Fred Schaefer, Ayman Farahat, Tom LoFaro, Tracy Powell, Estelle Basor, and Kent Morrison. It originated in a Mathematics Clinic project at Harvey Mudd College.
Moderated Statistical Tests for Digital Gene Expression Technologies
15:10 Fri 19 Oct 07 :: G04 Napier Building University of Adelaide :: Dr Gordon Smyth :: Walter and Eliza Hall Institute of Medical Research in Melbourne, Australia

Digital gene expression (DGE) technologies measure gene expression by counting sequence tags. They are sensitive technologies for measuring gene expression on a genomic scale, without the need for prior knowledge of the genome sequence. As the cost of DNA sequencing decreases, the number of DGE datasets is expected to grow dramatically. Various tests of differential expression have been proposed for replicated DGE data using over-dispersed binomial or Poisson models for the counts, but none of the these are usable when the number of replicates is very small. We develop tests using the negative binomial distribution to model overdispersion relative to the Poisson, and use conditional weighted likelihood to moderate the level of overdispersion across genes. A heuristic empirical Bayes algorithm is developed which is applicable to very general likelihood estimation contexts. Not only is our strategy applicable even with the smallest number of replicates, but it also proves to be more powerful than previous strategies when more replicates are available. The methodology is applicable to other counting technologies, such as proteomic spectral counts.
Similarity solutions for surface-tension driven flows
15:10 Fri 14 Mar 08 :: LG29 Napier Building University of Adelaide :: Prof John Lister :: Department of Applied Mathematics and Theoretical Physics, University of Cambridge, UK

The breakup of a mass of fluid into drops is a ubiquitous phenomenon in daily life, the natural environment and technology, with common examples including a dripping tap, ocean spray and ink-jet printing. It is a feature of many generic industrial processes such as spraying, emulsification, aeration, mixing and atomisation, and is an undesirable feature in coating and fibre spinning. Surface-tension driven pinch-off and the subsequent recoil are examples of finite-time singularities in which the interfacial curvature becomes infinite at the point of disconnection. As a result, the flow near the point of disconnection becomes self-similar and independent of initial and far-field conditions. Similarity solutions will be presented for the cases of inviscid and very viscous flow, along with comparison to experiments. In each case, a boundary-integral representation can be used both to examine the time-dependent behaviour and as the basis of a modified Newton scheme for direct solution of the similarity equations.
Groundwater: using mathematics to solve our water crisis
13:10 Wed 9 Apr 08 :: Napier 210 :: Dr Michael Teubner

'The driest state in the driest continent' is how South Australia used to be described. And that was before the drought! Now we have severe water restrictions, dead lawns, and dying gardens. But this need not be the case. Mathematics to the rescue! Groundwater exists below much of the Adelaide metro area. We can store winter stormwater in the ground and use it when we need it in summer. But we need mathematical models to understand where groundwater exists, where we can inject stormwater and how much can be stored, and where we can extract it: all through mathematical models. Come along and see that we don't have a water problem, we have a water management problem.
Computational Methods for Phase Response Analysis of Circadian Clocks
15:10 Fri 18 Jul 08 :: G04 Napier Building University of Adelaide. :: Prof. Linda Petzold :: Dept. of Mechanical and Environmental Engineering, University of California, Santa Barbara

Circadian clocks govern daily behaviors of organisms in all kingdoms of life. In mammals, the master clock resides in the suprachiasmatic nucleus (SCN) of the hypothalamus. It is composed of thousands of neurons, each of which contains a sloppy oscillator - a molecular clock governed by a transcriptional feedback network. Via intercellular signaling, the cell population synchronizes spontaneously, forming a coherent oscillation. This multi-oscillator is then entrained to its environment by the daily light/dark cycle.

Both at the cellular and tissular levels, the most important feature of the clock is its ability not simply to keep time, but to adjust its time, or phase, to signals. We present the parametric impulse phase response curve (pIPRC), an analytical analog to the phase response curve (PRC) used experimentally. We use the pIPRC to understand both the consequences of intercellular signaling and the light entrainment process. Further, we determine which model components determine the phase response behavior of a single oscillator by using a novel model reduction technique. We reduce the number of model components while preserving the pIPRC and then incorporate the resultant model into a couple SCN tissue model. Emergent properties, including the ability of the population to synchronize spontaneously are preserved in the reduction. Finally, we present some mathematical tools for the study of synchronization in a network of coupled, noisy oscillators.

Key Predistribution in Grid-Based Wireless Sensor Networks
15:10 Fri 12 Dec 08 :: Napier G03 :: Dr Maura Paterson :: Information Security Group at Royal Holloway, University of London.

Wireless sensors are small, battery-powered devices that are deployed to measure quantities such as temperature within a given region, then form a wireless network to transmit and process the data they collect. We discuss the problem of distributing symmetric cryptographic keys to the nodes of a wireless sensor network in the case where the sensors are arranged in a square or hexagonal grid, and we propose a key predistribution scheme for such networks that is based on Costas arrays. We introduce more general structures known as distinct-difference configurations, and show that they provide a flexible choice of parameters in our scheme, leading to more efficient performance than that achieved by prior schemes from the literature.
Quadrature domains, p-Laplacian growth, and bubbles contracting in Hele-Shaw cells with a power-law fluid.
15:10 Mon 15 Jun 09 :: Napier LG24 :: Dr Scott McCue :: Queensland University Technology

The classical Hele-Shaw flow problem is related to Laplacian growth and null-quadrature domains. A generalisation is constructed for power-law fluids, governed by the p-Laplace equation, and a number of results are established that are analogous to the classical case. Both fluid clearance and bubble extinction is considered, and by considering two extremes of extinction behaviour, a rather complete asymptotic description of possible behaviours is found.
Nonlinear diffusion-driven flow in a stratified viscous fluid
15:00 Fri 26 Jun 09 :: Macbeth Lecture Theatre :: Associate Prof Michael Page :: Monash University

In 1970, two independent studies (by Wunsch and Phillips) of the behaviour of a linear density-stratified viscous fluid in a closed container demonstrated a slow flow can be generated simply due to the container having a sloping boundary surface This remarkable motion is generated as a result of the curvature of the lines of constant density near any sloping surface, which in turn enables a zero normal-flux condition on the density to be satisfied along that boundary. When the Rayleigh number is large (or equivalently Wunsch's parameter $R$ is small) this motion is concentrated in the near vicinity of the sloping surface, in a thin `buoyancy layer' that has many similarities to an Ekman layer in a rotating fluid.

A number of studies have since considered the consequences of this type of `diffusively-driven' flow in a semi-infinite domain, including in the deep ocean and with turbulent effects included. More recently, Page & Johnson (2008) described a steady linear theory for the broader-scale mass recirculation in a closed container and demonstrated that, unlike in previous studies, it is possible for the buoyancy layer to entrain fluid from that recirculation. That work has since been extended (Page & Johnson, 2009) to the nonlinear regime of the problem and some of the similarities to and differences from the linear case will be described in this talk. Simple and elegant analytical solutions in the limit as $R \to 0$ still exist in some situations, and they will be compared with numerical simulations in a tilted square container at small values of $R$. Further work on both the unsteady flow properties and the flow for other geometrical configurations will also be described.

Modelling fluid-structure interactions in micro-devices
15:00 Thu 3 Sep 09 :: School Board Room :: Dr Richard Clarke :: University of Auckland

The flows generated in many modern micro-devices possess very little convective inertia, however, they can be highly unsteady and exert substantial hydrodynamic forces on the device components. Typically these components exhibit some degree of compliance, which traditionally has been treated using simple one-dimensional elastic beam models. However, recent findings have suggested that three-dimensional effects can be important and, accordingly, we consider the elastohydrodynamic response of a rapidly oscillating three-dimensional elastic plate that is immersed in a viscous fluid. In addition, a preliminary model will be presented which incorporates the presence of a nearby elastic wall.
Curved pipe flow and its stability
15:10 Fri 11 Sep 09 :: Badger labs G13 Macbeth Lecture Theatre :: Dr Richard Clarke :: University of Auckland

The unsteady flow of a viscous fluid through a curved pipe is a widely occuring and well studied problem. The stability of such flows, however, has largely been overlooked; this is in marked contrast to flow through a straight-pipe, examination of which forms a cornerstone of hydrodynamic stability theory. Importantly, however, flow through a curved pipe exhibits an array of flow structures that are simply not present in the zero curvature limit, and it is natural to expect these to substantially impact upon the flow's stability. By considering two very different kinds of flows through a curved pipe, we illustrate that this can indeed be the case.
Modelling and pricing for portfolio credit derivatives
15:10 Fri 16 Oct 09 :: MacBeth Lecture Theatre :: Dr Ben Hambly :: University of Oxford

The current financial crisis has been in part precipitated by the growth of complex credit derivatives and their mispricing. This talk will discuss some of the background to the `credit crunch', as well as the models and methods used currently. We will then develop an alternative view of large basket credit derivatives, as functions of a stochastic partial differential equation, which addresses some of the shortcomings.
Analytic torsion for twisted de Rham complexes
13:10 Fri 30 Oct 09 :: School Board Room :: Prof Mathai Varghese :: University of Adelaide

We define analytic torsion for the twisted de Rham complex, consisting of differential forms on a compact Riemannian manifold X with coefficients in a flat vector bundle E, with a differential given by a flat connection on E plus a closed odd degree differential form on X. The definition in our case is more complicated than in the case discussed by Ray-Singer, as it uses pseudodifferential operators. We show that this analytic torsion is independent of the choice of metrics on X and E, establish some basic functorial properties, and compute it in many examples. We also establish the relationship of an invariant version of analytic torsion for T-dual circle bundles with closed 3-form flux. This is joint work with Siye Wu.
Upper bounds for the essential dimension of the moduli stack of SL_n-bundles over a curve
11:10 Mon 14 Dec 09 :: School Board Room :: Dr Nicole Lemire :: University of Western Ontario, Canada

In joint work with Ajneet Dhillon, we find upper bounds for the essential dimension of various moduli stacks of SL_n-bundles over a curve. When n is a prime power, our calculation computes the essential dimension of the moduli stack of stable bundles exactly and the essential dimension is not equal to the dimension in this case.
A solution to the Gromov-Vaserstein problem
15:10 Fri 29 Jan 10 :: Engineering North N 158 Chapman Lecture Theatre :: Prof Frank Kutzschebauch :: University of Berne, Switzerland

Any matrix in $SL_n (\mathbb C)$ can be written as a product of elementary matrices using the Gauss elimination process. If instead of the field of complex numbers, the entries in the matrix are elements of a more general ring, this becomes a delicate question. In particular, rings of complex-valued functions on a space are interesting cases. A deep result of Suslin gives an affirmative answer for the polynomial ring in $m$ variables in case the size $n$ of the matrix is at least 3. In the topological category, the problem was solved by Thurston and Vaserstein. For holomorphic functions on $\mathbb C^m$, the problem was posed by Gromov in the 1980s. We report on a complete solution to Gromov's problem. A main tool is the Oka-Grauert-Gromov h-principle in complex analysis. Our main theorem can be formulated as follows: In the absence of obvious topological obstructions, the Gauss elimination process can be performed in a way that depends holomorphically on the matrix. This is joint work with Bj\"orn Ivarsson.
Proper holomorphic maps from strongly pseudoconvex domains to q-convex manifolds
13:10 Fri 5 Feb 10 :: School Board Room :: Prof Franc Forstneric :: University of Ljubljana

(Joint work with B. Drinovec Drnovsek, Amer. J. Math., in press.) I will discuss the existence of closed complex subvarieties of a complex manifold X that are proper holomorphic images of strongly pseudoconvex Stein domains. The main sufficient condition is expressed in terms of the Morse indices and of the number of positive Levi eigenvalues of an exhaustion function on X. Examples show that our condition cannot be weakened in general. I will describe optimal results for subvarieties of this type in complements of compact complex submanifolds with Griffiths positive normal bundle; in the projective case these generalize classical theorems of Remmert, Bishop and Narasimhan concerning proper holomorphic maps and embeddings to complex Euclidean spaces.
Modelling of the Human Skin Equivalent
15:10 Fri 26 Mar 10 :: Napier 102 :: Prof Graeme Pettet :: Queensland University of Technology

A brief overview will be given of the development of a so called Human Skin Equivalent Construct. This laboratory grown construct can be used for studying growth, response and the repair of human skin subjected to wounding and/or treatment under strictly regulated conditions. Details will also be provided of a series of mathematical models we have developed that describe the dynamics of the Human Skin Equivalent Construct, which can be used to assist in the development of the experimental protocol, and to provide insight into the fundamental processes at play in the growth and development of the epidermis in both healthy and diseased states.
Loop groups and characteristic classes
13:10 Fri 23 Apr 10 :: School Board Room :: Dr Raymond Vozzo :: University of Adelaide

Suppose $G$ is a compact Lie group, $LG$ its (free) loop group and $\Omega G \subseteq LG$ its based loop group. Let $P \to M$ be a principal bundle with structure group one of these loop groups. In general, differential form representatives of characteristic classes for principal bundles can be easily obtained using the Chern-Weil homomorphism, however for infinite-dimensional bundles such as $P$ this runs into analytical problems and classes are more difficult to construct. In this talk I will explain some new results on characteristic classes for loop group bundles which demonstrate how to construct certain classes---which we call string classes---for such bundles. These are obtained by making heavy use of a certain $G$-bundle associated to any loop group bundle (which allows us to avoid the problems of dealing with infinite-dimensional bundles). We shall see that the free loop group case naturally involves equivariant cohomology.
Estimation of sparse Bayesian networks using a score-based approach
15:10 Fri 30 Apr 10 :: School Board Room :: Dr Jessica Kasza :: University of Copenhagen

The estimation of Bayesian networks given high-dimensional data sets, with more variables than there are observations, has been the focus of much recent research. These structures provide a flexible framework for the representation of the conditional independence relationships of a set of variables, and can be particularly useful in the estimation of genetic regulatory networks given gene expression data.

In this talk, I will discuss some new research on learning sparse networks, that is, networks with many conditional independence restrictions, using a score-based approach. In the case of genetic regulatory networks, such sparsity reflects the view that each gene is regulated by relatively few other genes. The presented approach allows prior information about the overall sparsity of the underlying structure to be included in the analysis, as well as the incorporation of prior knowledge about the connectivity of individual nodes within the network.

Whole genome analysis of repetitive DNA
15:10 Fri 21 May 10 :: Napier 209 :: Prof David Adelson :: University of Adelaide

The interspersed repeat content of mammalian genomes has been best characterized in human, mouse and cow. We carried out de novo identification of repeated elements in the equine genome and identified previously unknown elements present at low copy number. The equine genome contains typical eutherian mammal repeats. We analysed both interspersed and simple sequence repeats (SSR) genome-wide, finding that some repeat classes are spatially correlated with each other as well as with G+C content and gene density. Based on these spatial correlations, we have confirmed recently-described ancestral vs clade-specific genome territories defined by repeat content. Territories enriched for ancestral repeats tended to be contiguous domains. To determine if these territories were evolutionarily conserved, we compared these results with a similar analysis of the human genome, and observed similar ancestral repeat enriched domains. These results indicate that ancestral, evolutionarily conserved mammalian genome territories can be identified on the basis of repeat content alone. Interspersed repeats of different ages appear to be analogous to geologic strata, allowing identification of ancient vs newly remodelled regions of mammalian genomes.
Interpolation of complex data using spatio-temporal compressive sensing
13:00 Fri 28 May 10 :: Santos Lecture Theatre :: A/Prof Matthew Roughan :: School of Mathematical Sciences, University of Adelaide

Many complex datasets suffer from missing data, and interpolating these missing elements is a key task in data analysis. Moreover, it is often the case that we see only a linear combination of the desired measurements, not the measurements themselves. For instance, in network management, it is easy to count the traffic on a link, but harder to measure the end-to-end flows. Additionally, typical interpolation algorithms treat either the spatial, or the temporal components of data separately, but in many real datasets have strong spatio-temporal structure that we would like to exploit in reconstructing the missing data. In this talk I will describe a novel reconstruction algorithm that exploits concepts from the growing area of compressive sensing to solve all of these problems and more. The approach works so well on Internet traffic matrices that we can obtain a reasonable reconstruction with as much as 98% of the original data missing.
Counting lattice points in polytopes and geometry
15:10 Fri 6 Aug 10 :: Napier G04 :: Dr Paul Norbury :: University of Melbourne

Counting lattice points in polytopes arises in many areas of pure and applied mathematics. A basic counting problem is this: how many different ways can one give change of 1 dollar into 5,10, 20 and 50 cent coins? This problem counts lattice points in a tetrahedron, and if there also must be exactly 10 coins then it counts lattice points in a triangle. The number of lattice points in polytopes can be used to measure the robustness of a computer network, or in statistics to test independence of characteristics of samples. I will describe the general structure of lattice point counts and the difficulty of calculations. I will then describe a particular lattice point count in which the structure simplifies considerably allowing one to calculate easily. I will spend a brief time at the end describing how this is related to the moduli space of Riemann surfaces.
Arbitrage bounds for weighted variance swap prices
15:05 Fri 3 Dec 10 :: Napier LG28 :: Prof Mark Davis :: Imperial College London

This paper builds on earlier work by Davis and Hobson (Mathematical Finance, 2007) giving model-free---except for a 'frictionless markets' assumption--- necessary and sufficient conditions for absence of arbitrage given a set of current-time put and call options on some underlying asset. Here we suppose that the prices of a set of put options, all maturing at the same time, are given and satisfy the conditions for consistency with absence of arbitrage. We now add a path-dependent option, specifically a weighted variance swap, to the set of traded assets and ask what are the conditions on its time-0 price under which consistency with absence of arbitrage is maintained. In the present work, we work under the extra modelling assumption that the underlying asset price process has continuous paths. In general, we find that there is always a non- trivial lower bound to the range of arbitrage-free prices, but only in the case of a corridor swap do we obtain a finite upper bound. In the case of, say, the vanilla variance swap, a finite upper bound exists when there are additional traded European options which constrain the left wing of the volatility surface in appropriate ways.
Queues with skill based routing under FCFS–ALIS regime
15:10 Fri 11 Feb 11 :: B17 Ingkarni Wardli :: Prof Gideon Weiss :: The University of Haifa, Israel

We consider a system where jobs of several types are served by servers of several types, and a bipartite graph between server types and job types describes feasible assignments. This is a common situation in manufacturing, call centers with skill based routing, matching of parent-child in adoption or matching in kidney transplants etc. We consider the case of first come first served policy: jobs are assigned to the first available feasible server in order of their arrivals. We consider two types of policies for assigning customers to idle servers - a random assignment and assignment to the longest idle server (ALIS) We survey some results for four different situations:

  • For a loss system we find conditions for reversibility and insensitivity.
  • For a manufacturing type system, in which there is enough capacity to serve all jobs, we discuss a product form solution and waiting times.
  • For an infinite matching model in which an infinite sequence of customers of IID types, and infinite sequence of servers of IID types are matched according to first come first, we obtain a product form stationary distribution for this system, which we use to calculate matching rates.
  • For a call center model with overload and abandonments we make some plausible observations.

This talk surveys joint work with Ivo Adan, Rene Caldentey, Cor Hurkens, Ed Kaplan and Damon Wischik, as well as work by Jeremy Visschers, Rishy Talreja and Ward Whitt.

Modelling of Hydrological Persistence in the Murray-Darling Basin for the Management of Weirs
12:10 Mon 4 Apr 11 :: 5.57 Ingkarni Wardli :: Aiden Fisher :: University of Adelaide

The lakes and weirs along the lower Murray River in Australia are aggregated and considered as a sequence of five reservoirs. A seasonal Markov chain model for the system will be implemented, and a stochastic dynamic program will be used to find optimal release strategies, in terms of expected monetary value (EMV), for the competing demands on the water resource given the stochastic nature of inflows. Matrix analytic methods will be used to analyse the system further, and in particular enable the full distribution of first passage times between any groups of states to be calculated. The full distribution of first passage times can be used to provide a measure of the risk associated with optimum EMV strategies, such as conditional value at risk (CVaR). The sensitivity of the model, and risk, to changing rainfall scenarios will be investigated. The effect of decreasing the level of discretisation of the reservoirs will be explored. Also, the use of matrix analytic methods facilitates the use of hidden states to allow for hydrological persistence in the inflows. Evidence for hydrological persistence of inflows to the lower Murray system, and the effect of making allowance for this, will be discussed.
Algebraic hypersurfaces arising from Gorenstein algebras
15:10 Fri 8 Apr 11 :: 7.15 Ingkarni Wardli :: Associate Prof Alexander Isaev :: Australian National University

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To every Gorenstein algebra of finite dimension greater than 1 over a field of characteristic zero, and a projection on its maximal ideal with range equal to the annihilator of the ideal, one can associate a certain algebraic hypersurface lying in the ideal. Such hypersurfaces possess remarkable properties. They can be used, for instance, to help decide whether two given Gorenstein algebras are isomorphic, which for the case of complex numbers leads to interesting consequences in singularity theory. Also, for the case of real numbers such hypersurfaces naturally arise in CR-geometry. In my talk I will discuss these hypersurfaces and some of their applications.
The Extended-Domain-Eigenfunction Method: making old mathematics work for new problems
15:10 Fri 13 May 11 :: 7.15 Ingkarni Wardli :: Prof Stan Miklavcic :: University of South Australia

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Standard analytical solutions to elliptic boundary value problems on asymmetric domains are rarely, if ever, obtainable. Several years ago I proposed a solution technique to cope with such complicated domains. It involves the embedding of the original domain into one with simple boundaries where the classical eigenfunction solution approach can be used. The solution in the larger domain, when restricted to the original domain is then the solution of the original boundary value problem. In this talk I will present supporting theory for this idea, some numerical results for the particular case of the Laplace equation and the Stokes flow equations in two-dimensions and discuss advantages and limitations of the proposal.
Knots, posets and sheaves
13:10 Fri 20 May 11 :: Mawson 208 :: Dr Brent Everitt :: University of York

The Euler characteristic is a nice simple integer invariant that one can attach to a space. Unfortunately, it is not natural: maps between spaces do not induce maps between their Euler characteristics, because it makes no sense to talk of a map between integers. This shortcoming is fixed by homology. Maps between spaces induce maps between their homologies, with the Euler characteristic encoded inside the homology. Recently it has become possible to play the same game with knots and the Jones polynomial: the Khovanov homology of a knot both encodes the Jones polynomial and is a natural invariant of the knot. After saying what all this means, this talk will observe that Khovanov homology is just a special case of sheaf homology on a poset, and we will explore some of the ramifications of this observation. This is joint work with Paul Turner (Geneva/Fribourg).
Lifting principal bundles and abelian extensions
13:10 Fri 27 May 11 :: Mawson 208 :: Prof Michael Murray :: School of Mathematical Sciences

I will review what it means to lift the structure group of a principal bundle and the topological obstruction to this in the case of a central extension. I will then discuss some new results in the case of abelian extensions.
Optimal experimental design for stochastic population models
15:00 Wed 1 Jun 11 :: 7.15 Ingkarni Wardli :: Dr Dan Pagendam :: CSIRO, Brisbane

Markov population processes are popular models for studying a wide range of phenomena including the spread of disease, the evolution of chemical reactions and the movements of organisms in population networks (metapopulations). Our ability to use these models effectively can be limited by our knowledge about parameters, such as disease transmission and recovery rates in an epidemic. Recently, there has been interest in devising optimal experimental designs for stochastic models, so that practitioners can collect data in a manner that maximises the precision of maximum likelihood estimates of the parameters for these models. I will discuss some recent work on optimal design for a variety of population models, beginning with some simple one-parameter models where the optimal design can be obtained analytically and moving on to more complicated multi-parameter models in epidemiology that involve latent states and non-exponentially distributed infectious periods. For these more complex models, the optimal design must be arrived at using computational methods and we rely on a Gaussian diffusion approximation to obtain analytical expressions for Fisher's information matrix, which is at the heart of most optimality criteria in experimental design. I will outline a simple cross-entropy algorithm that can be used for obtaining optimal designs for these models. We will also explore the improvements in experimental efficiency when using the optimal design over some simpler designs, such as the design where observations are spaced equidistantly in time.
From group action to Kontsevich's Swiss-Cheese conjecture through categorification
15:10 Fri 3 Jun 11 :: Mawson Lab G19 :: Dr Michael Batanin :: Macquarie University

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The Kontsevich Swiss-Cheese conjecture is a deep generalization of the Deligne conjecture on Hochschild cochains which plays an important role in the deformation quantization theory. Categorification is a method of thinking about mathematics by replacing set theoretical concepts by some higher dimensional objects. Categorification is somewhat of an art because there is no exact recipe for doing this. It is, however, a very powerful method of understanding (and producing) many deep results starting from simple facts we learned as undergraduate students. In my talk I will explain how Kontsevich Swiss-Cheese conjecture can be easily understood as a special case of categorification of a very familiar statement: an action of a group G (more generally, a monoid) on a set X is the same as group homomorphism from G to the group of automorphisms of X (monoid of endomorphisms of X in the case of a monoid action).
Inference and optimal design for percolation and general random graph models (Part I)
09:30 Wed 8 Jun 11 :: 7.15 Ingkarni Wardli :: Dr Andrei Bejan :: The University of Cambridge

The problem of optimal arrangement of nodes of a random weighted graph is discussed in this workshop. The nodes of graphs under study are fixed, but their edges are random and established according to the so called edge-probability function. This function is assumed to depend on the weights attributed to the pairs of graph nodes (or distances between them) and a statistical parameter. It is the purpose of experimentation to make inference on the statistical parameter and thus to extract as much information about it as possible. We also distinguish between two different experimentation scenarios: progressive and instructive designs.

We adopt a utility-based Bayesian framework to tackle the optimal design problem for random graphs of this kind. Simulation based optimisation methods, mainly Monte Carlo and Markov Chain Monte Carlo, are used to obtain the solution. We study optimal design problem for the inference based on partial observations of random graphs by employing data augmentation technique. We prove that the infinitely growing or diminishing node configurations asymptotically represent the worst node arrangements. We also obtain the exact solution to the optimal design problem for proximity (geometric) graphs and numerical solution for graphs with threshold edge-probability functions.

We consider inference and optimal design problems for finite clusters from bond percolation on the integer lattice $\mathbb{Z}^d$ and derive a range of both numerical and analytical results for these graphs. We introduce inner-outer plots by deleting some of the lattice nodes and show that the ëmostly populatedí designs are not necessarily optimal in the case of incomplete observations under both progressive and instructive design scenarios. Some of the obtained results may generalise to other lattices.

Inference and optimal design for percolation and general random graph models (Part II)
10:50 Wed 8 Jun 11 :: 7.15 Ingkarni Wardli :: Dr Andrei Bejan :: The University of Cambridge

The problem of optimal arrangement of nodes of a random weighted graph is discussed in this workshop. The nodes of graphs under study are fixed, but their edges are random and established according to the so called edge-probability function. This function is assumed to depend on the weights attributed to the pairs of graph nodes (or distances between them) and a statistical parameter. It is the purpose of experimentation to make inference on the statistical parameter and thus to extract as much information about it as possible. We also distinguish between two different experimentation scenarios: progressive and instructive designs.

We adopt a utility-based Bayesian framework to tackle the optimal design problem for random graphs of this kind. Simulation based optimisation methods, mainly Monte Carlo and Markov Chain Monte Carlo, are used to obtain the solution. We study optimal design problem for the inference based on partial observations of random graphs by employing data augmentation technique. We prove that the infinitely growing or diminishing node configurations asymptotically represent the worst node arrangements. We also obtain the exact solution to the optimal design problem for proximity (geometric) graphs and numerical solution for graphs with threshold edge-probability functions.

We consider inference and optimal design problems for finite clusters from bond percolation on the integer lattice $\mathbb{Z}^d$ and derive a range of both numerical and analytical results for these graphs. We introduce inner-outer plots by deleting some of the lattice nodes and show that the ëmostly populatedí designs are not necessarily optimal in the case of incomplete observations under both progressive and instructive design scenarios. Some of the obtained results may generalise to other lattices.

Object oriented data analysis
14:10 Thu 30 Jun 11 :: 7.15 Ingkarni Wardli :: Prof Steve Marron :: The University of North Carolina at Chapel Hill

Object Oriented Data Analysis is the statistical analysis of populations of complex objects. In the special case of Functional Data Analysis, these data objects are curves, where standard Euclidean approaches, such as principal components analysis, have been very successful. Recent developments in medical image analysis motivate the statistical analysis of populations of more complex data objects which are elements of mildly non-Euclidean spaces, such as Lie Groups and Symmetric Spaces, or of strongly non-Euclidean spaces, such as spaces of tree-structured data objects. These new contexts for Object Oriented Data Analysis create several potentially large new interfaces between mathematics and statistics. Even in situations where Euclidean analysis makes sense, there are statistical challenges because of the High Dimension Low Sample Size problem, which motivates a new type of asymptotics leading to non-standard mathematical statistics.
Modelling computer network topologies through optimisation
12:10 Mon 1 Aug 11 :: 5.57 Ingkarni Wardli :: Mr Rhys Bowden :: University of Adelaide

The core of the Internet is made up of many different computers (called routers) in many different interconnected networks, owned and operated by many different organisations. A popular and important field of study in the past has been "network topology": for instance, understanding which routers are connected to which other routers, or which networks are connected to which other networks; that is, studying and modelling the connection structure of the Internet. Previous study in this area has been plagued by unreliable or flawed experimental data and debate over appropriate models to use. The Internet Topology Zoo is a new source of network data created from the information that network operators make public. In order to better understand this body of network information we would like the ability to randomly generate network topologies resembling those in the zoo. Leveraging previous wisdom on networks produced as a result of optimisation processes, we propose a simple objective function based on possible economic constraints. By changing the relative costs in the objective function we can change the form of the resulting networks, and we compare these optimised networks to a variety of networks found in the Internet Topology Zoo.
Horocycle flows at prime times
13:10 Wed 10 Aug 11 :: B.19 Ingkarni Wardli :: Prof Peter Sarnak :: Institute for Advanced Study, Princeton

The distribution of individual orbits of unipotent flows in homogeneous spaces are well understood thanks to the work work of Marina Ratner. It is conjectured that this property is preserved on restricting the times from the integers to primes, this being important in the study of prime numbers as well as in such dynamics. We review progress in understanding this conjecture, starting with Dirichlet (a finite system), Vinogradov (rotation of a circle or torus), Green and Tao (translation on a nilmanifold) and Ubis and Sarnak (horocycle flows in the semisimple case).
Deformations of Oka manifolds
13:10 Fri 26 Aug 11 :: B.19 Ingkarni Wardli :: A/Prof Finnur Larusson :: University of Adelaide

We discuss the behaviour of the Oka property with respect to deformations of compact complex manifolds. We have recently proved that in a family of compact complex manifolds, the set of Oka fibres corresponds to a G_delta subset of the base. We have also found a necessary and sufficient condition for the limit fibre of a sequence of Oka fibres to be Oka in terms of a new uniform Oka property. The special case when the fibres are tori will be considered, as well as the general case of holomorphic submersions with noncompact fibres.
Oka properties of some hypersurface complements
13:10 Fri 2 Sep 11 :: B.19 Ingkarni Wardli :: Mr Alexander Hanysz :: University of Adelaide

Oka manifolds can be viewed as the "opposite" of Kobayashi hyperbolic manifolds. Kobayashi conjectured that the complement of a generic algebraic hypersurface of sufficiently high degree is hyperbolic. Therefore it is natural to ask whether the complement is Oka for the case of low degree or non-algebraic hypersurfaces. We provide a complete answer to this question for complements of hyperplane arrangements, and some results for graphs of meromorphic functions.
Alignment of time course gene expression data sets using Hidden Markov Models
12:10 Mon 5 Sep 11 :: 5.57 Ingkarni Wardli :: Mr Sean Robinson :: University of Adelaide

Time course microarray experiments allow for insight into biological processes by measuring gene expression over a time period of interest. This project is concerned with time course data from a microarray experiment conducted on a particular variety of grapevine over the development of the grape berries at a number of different vineyards in South Australia. The aim of the project is to construct a methodology for combining the data from the different vineyards in order to obtain more precise estimates of the underlying behaviour of the genes over the development process. A major issue in doing so is that the rate of development of the grape berries is different at different vineyards. Hidden Markov models (HMMs) are a well established methodology for modelling time series data in a number of domains and have been previously used for gene expression analysis. Modelling the grapevine data presents a unique modelling issue, namely the alignment of the expression profiles needed to combine the data from different vineyards. In this seminar, I will describe our problem, review HMMs, present an extension to HMMs and show some preliminary results modelling the grapevine data.
Twisted Morava K-theory
13:10 Fri 9 Sep 11 :: 7.15 Ingkarni Wardli :: Dr Craig Westerland :: University of Melbourne

Morava's extraordinary K-theories K(n) are a family of generalized cohomology theories which behave in some ways like K-theory (indeed, K(1) is mod 2 K-theory). Their construction exploits Quillen's description of cobordism in terms of formal group laws and Lubin-Tate's methods in class field theory for constructing abelian extensions of number fields. Constructed from homotopy-theoretic methods, they do not admit a geometric description (like deRham cohomology, K-theory, or cobordism), but are nonetheless subtle, computable invariants of topological spaces. In this talk, I will give an introduction to these theories, and explain how it is possible to define an analogue of twisted K-theory in this setting. Traditionally, K-theory is twisted by a three-dimensional cohomology class; in this case, K(n) admits twists by (n+2)-dimensional classes. This work is joint with Hisham Sati.
Statistical analysis of metagenomic data from the microbial community involved in industrial bioleaching
12:10 Mon 19 Sep 11 :: 5.57 Ingkarni Wardli :: Ms Susana Soto-Rojo :: University of Adelaide

In the last two decades heap bioleaching has become established as a successful commercial option for recovering copper from low-grade secondary sulfide ores. Genetics-based approaches have recently been employed in the task of characterizing mineral processing bacteria. Data analysis is a key issue and thus the implementation of adequate mathematical and statistical tools is of fundamental importance to draw reliable conclusions. In this talk I will give a recount of two specific problems that we have been working on. The first regarding experimental design and the latter on modeling composition and activity of the microbial consortium.
Estimating transmission parameters for the swine flu pandemic
15:10 Fri 23 Sep 11 :: 7.15 Ingkarni Wardli :: Dr Kathryn Glass :: Australian National University

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Following the onset of a new strain of influenza with pandemic potential, policy makers need specific advice on how fast the disease is spreading, who is at risk, and what interventions are appropriate for slowing transmission. Mathematical models play a key role in comparing interventions and identifying the best response, but models are only as good as the data that inform them. In the early stages of the 2009 swine flu outbreak, many researchers estimated transmission parameters - particularly the reproduction number - from outbreak data. These estimates varied, and were often biased by data collection methods, misclassification of imported cases or as a result of early stochasticity in case numbers. I will discuss a number of the pitfalls in achieving good quality parameter estimates from early outbreak data, and outline how best to avoid them. One of the early indications from swine flu data was that children were disproportionately responsible for disease spread. I will introduce a new method for estimating age-specific transmission parameters from both outbreak and seroprevalence data. This approach allows us to take account of empirical data on human contact patterns, and highlights the need to allow for asymmetric mixing matrices in modelling disease transmission between age groups. Applied to swine flu data from a number of different countries, it presents a consistent picture of higher transmission from children.
Understanding the dynamics of event networks
15:00 Wed 28 Sep 11 :: B.18 Ingkarni Wardli :: Dr Amber Tomas :: The University of Oxford

Within many populations there are frequent communications between pairs of individuals. Such communications might be emails sent within a company, radio communications in a disaster zone or diplomatic communications between states. Often it is of interest to understand the factors that drive the observed patterns of such communications, or to study how these factors are changing over over time. Communications can be thought of as events occuring on the edges of a network which connects individuals in the population. In this talk I'll present a model for such communications which uses ideas from social network theory to account for the complex correlation structure between events. Applications to the Enron email corpus and the dynamics of hospital ward transfer patterns will be discussed.
Statistical modelling for some problems in bioinformatics
11:10 Fri 14 Oct 11 :: B.17 Ingkarni Wardli :: Professor Geoff McLachlan :: The University of Queensland

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In this talk we consider some statistical analyses of data arising in bioinformatics. The problems include the detection of differential expression in microarray gene-expression data, the clustering of time-course gene-expression data and, lastly, the analysis of modern-day cytometric data. Extensions are considered to the procedures proposed for these three problems in McLachlan et al. (Bioinformatics, 2006), Ng et al. (Bioinformatics, 2006), and Pyne et al. (PNAS, 2009), respectively. The latter references are available at http://www.maths.uq.edu.au/~gjm/.
Mathematical opportunities in molecular space
15:10 Fri 28 Oct 11 :: B.18 Ingkarni Wardli :: Dr Aaron Thornton :: CSIRO

The study of molecular motion, interaction and space at the nanoscale has become a powerful tool in the area of gas separation, storage and conversion for efficient energy solutions. Modeling in this field has typically involved highly iterative computational algorithms such as molecular dynamics, Monte Carlo and quantum mechanics. Mathematical formulae in the form of analytical solutions to this field offer a range of useful and insightful advantages including optimization, bifurcation analysis and standardization. Here we present a few case scenarios where mathematics has provided insight and opportunities for further investigation.
Noncritical holomorphic functions of finite growth on algebraic Riemann surfaces
13:10 Fri 3 Feb 12 :: B.20 Ingkarni Wardli :: Prof Franc Forstneric :: University of Ljubljana

Given a compact Riemann surface X and a point p in X, we construct a holomorphic function without critical points on the punctured (algebraic) Riemann surface R=X-p which is of finite order at the point p. In the case at hand this improves the 1967 theorem of Gunning and Rossi to the effect that every open Riemann surface admits a noncritical holomorphic function, but without any particular growth condition. (Joint work with Takeo Ohsawa.)
Instability in standing waves in inhomogeneous nonlinear Schrodinger equations
13:10 Fri 30 Mar 12 :: B.17 Ingkarni Wardli :: Dr Robert Marangell :: The University of Sydney

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In this talk, I will describe a mechanism for determining instability of standing wave solutions to a class of inhomogeneous nonlinear Schrodinger (NLS) equations. The inhomogeneity in this case means that the equations will spatially alternate between NLS and the so-called Gross-Pitaevskii equation. Such equations are useful in 1-D models of Bose-Einstein Condensates (BECs). The mechanism is inherently topological and therefore robust, leading to its application to a number of different soliton solutions, such as gap solitons, surface gap solitons, and dark soliton among others.
Bundle gerbes and the Faddeev-Mickelsson-Shatashvili anomaly
13:10 Fri 30 Mar 12 :: B.20 Ingkarni Wardli :: Dr Raymond Vozzo :: University of Adelaide

The Faddeev-Mickelsson-Shatashvili anomaly arises in the quantisation of fermions interacting with external gauge potentials. Mathematically, it can be described as a certain lifting problem for an extension of groups. The theory of bundle gerbes is very useful for studying lifting problems, however it only applies in the case of a central extension whereas in the study of the FMS anomaly the relevant extension is non-central. In this talk I will explain how to describe this anomaly indirectly using bundle gerbes and how to use a generalisation of bundle gerbes to describe the (non-central) lifting problem directly. This is joint work with Pedram Hekmati, Michael Murray and Danny Stevenson.
Revenge of the undead statistician part II
13:10 Tue 24 Apr 12 :: 7.15 Ingkarni Wardli :: Mr Jono Tuke :: School of Mathematical Sciences

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If you only go to one undergraduate seminar this year, then you should have gone to Jim Denier's - it was cracking, but if you decide to go to another, then this one has cholera, Bayesian statistics, random networks and zombies. Warning: may contain an overuse of pop culture references to motivate an interest in statistics.
Spatial-point data sets and the Polya distribution
15:10 Fri 27 Apr 12 :: B.21 Ingkarni Wardli :: Dr Benjamin Binder :: The University of Adelaide

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Spatial-point data sets, generated from a wide range of physical systems and mathematical models, can be analyzed by counting the number of objects in equally sized bins. We find that the bin counts are related to the Polya distribution. New indexes are developed which quantify whether or not a spatial data set is at its most evenly distributed state. Using three case studies (Lagrangian fluid particles in chaotic laminar flows, cellular automata agents in discrete models, and biological cells within colonies), we calculate the indexes and predict the spatial-state of the system.
Modelling protective anti-tumour immunity using a hybrid agent-based and delay differential equation approach
15:10 Fri 11 May 12 :: B.21 Ingkarni Wardli :: Dr Peter Kim :: University of Sydney

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Although cancers seem to consistently evade current medical treatments, the body's immune defences seem quite effective at controlling incipient tumours. Understanding how our immune systems provide such protection against early-stage tumours and how this protection could be lost will provide insight into designing next-generation immune therapies against cancer. To engage this problem, we formulate a mathematical model of the immune response against small, incipient tumours. The model considers the initial stimulation of the immune response in lymph nodes and the resulting immune attack on the tumour and is formulated as a hybrid agent-based and delay differential equation model.
Geometric modular representation theory
13:10 Fri 1 Jun 12 :: Napier LG28 :: Dr Anthony Henderson :: University of Sydney

Representation theory is one of the oldest areas of algebra, but many basic questions in it are still unanswered. This is especially true in the modular case, where one considers vector spaces over a field F of positive characteristic; typically, complications arise for particular small values of the characteristic. For example, from a vector space V one can construct the symmetric square S^2(V), which is one easy example of a representation of the group GL(V). One would like to say that this representation is irreducible, but that statement is not always true: if F has characteristic 2, there is a nontrivial invariant subspace. Even for GL(V), we do not know the dimensions of all irreducible representations in all characteristics. In this talk, I will introduce some of the main ideas of geometric modular representation theory, a more recent approach which is making progress on some of these old problems. Essentially, the strategy is to re-formulate everything in terms of homology of various topological spaces, where F appears only as the field of coefficients and the spaces themselves are independent of F; thus, the modular anomalies in representation theory arise because homology with modular coefficients is detecting something about the topology that rational coefficients do not. In practice, the spaces are usually varieties over the complex numbers, and homology is replaced by intersection cohomology to take into account the singularities of these varieties.
Enhancing the Jordan canonical form
15:10 Fri 1 Jun 12 :: B.21 Ingkarni Wardli :: A/Prof Anthony Henderson :: The University of Sydney

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In undergraduate linear algebra, we teach the Jordan canonical form theorem: that every similarity class of n x n complex matrices contains a special matrix which is block-diagonal with each block having a very simple form (a single eigenvalue repeated down the diagonal, ones on the super-diagonal, and zeroes elsewhere). This is of course very useful for matrix calculations. After explaining some of the general context of this result, I will focus on a case which, despite its close proximity to the Jordan canonical form theorem, has only recently been worked out: the classification of pairs of a vector and a matrix.
Adventures with group theory: counting and constructing polynomial invariants for applications in quantum entanglement and molecular phylogenetics
15:10 Fri 8 Jun 12 :: B.21 Ingkarni Wardli :: Dr Peter Jarvis :: The University of Tasmania

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In many modelling problems in mathematics and physics, a standard challenge is dealing with several repeated instances of a system under study. If linear transformations are involved, then the machinery of tensor products steps in, and it is the job of group theory to control how the relevant symmetries lift from a single system, to having many copies. At the level of group characters, the construction which does this is called PLETHYSM. In this talk all this will be contextualised via two case studies: entanglement invariants for multipartite quantum systems, and Markov invariants for tree reconstruction in molecular phylogenetics. By the end of the talk, listeners will have understood why Alice, Bob and Charlie love Cayley's hyperdeterminant, and they will know why the three squangles -- polynomial beasts of degree 5 in 256 variables, with a modest 50,000 terms or so -- can tell us a lot about quartet trees!
Comparison of spectral and wavelet estimators of transfer function for linear systems
12:10 Mon 18 Jun 12 :: B.21 Ingkarni Wardli :: Mr Mohd Aftar Abu Bakar :: University of Adelaide

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We compare spectral and wavelet estimators of the response amplitude operator (RAO) of a linear system, with various input signals and added noise scenarios. The comparison is based on a model of a heaving buoy wave energy device (HBWED), which oscillates vertically as a single mode of vibration linear system. HBWEDs and other single degree of freedom wave energy devices such as the oscillating wave surge convertors (OWSC) are currently deployed in the ocean, making single degree of freedom wave energy devices important systems to both model and analyse in some detail. However, the results of the comparison relate to any linear system. It was found that the wavelet estimator of the RAO offers no advantage over the spectral estimators if both input and response time series data are noise free and long time series are available. If there is noise on only the response time series, only the wavelet estimator or the spectral estimator that uses the cross-spectrum of the input and response signals in the numerator should be used. For the case of noise on only the input time series, only the spectral estimator that uses the cross-spectrum in the denominator gives a sensible estimate of the RAO. If both the input and response signals are corrupted with noise, a modification to both the input and response spectrum estimates can provide a good estimator of the RAO. However, a combination of wavelet and spectral methods is introduced as an alternative RAO estimator. The conclusions apply for autoregressive emulators of sea surface elevation, impulse, and pseudorandom binary sequences (PRBS) inputs. However, a wavelet estimator is needed in the special case of a chirp input where the signal has a continuously varying frequency.
Complex geometry and operator theory
14:10 Mon 9 Jul 12 :: Ingkarni Wardli B19 :: Prof Ron Douglas :: Texas A&M University

In the study of bounded operators on Hilbert spaces of holomorphic functions, concepts and techniques from complex geometry are important. An anti-holomorphic bundle exists on which one can define the Chern connection. Its curvature turns out to be a complete invariant and various operator notions can't be reframed in terms of geometrical ones which leads to the solution of some problems. We will discuss this approach with an emphasis on natural examples in the one and multivariable case.
Infectious diseases modelling: from biology to public health policy
15:10 Fri 24 Aug 12 :: B.20 Ingkarni Wardli :: Dr James McCaw :: The University of Melbourne

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The mathematical study of human-to-human transmissible pathogens has established itself as a complementary methodology to the traditional epidemiological approach. The classic susceptible--infectious--recovered model paradigm has been used to great effect to gain insight into the epidemiology of endemic diseases such as influenza and pertussis, and the emergence of novel pathogens such as SARS and pandemic influenza. The modelling paradigm has also been taken within the host and used to explain the within-host dynamics of viral (or bacterial or parasite) infections, with implications for our understanding of infection, emergence of drug resistance and optimal drug-interventions. In this presentation I will provide an overview of the mathematical paradigm used to investigate both biological and epidemiological infectious diseases systems, drawing on case studies from influenza, malaria and pertussis research. I will conclude with a summary of how infectious diseases modelling has assisted the Australian government in developing its pandemic preparedness and response strategies.
Principal Component Analysis (PCA)
12:30 Mon 3 Sep 12 :: B.21 Ingkarni Wardli :: Mr Lyron Winderbaum :: University of Adelaide

Media...
Principal Component Analysis (PCA) has become something of a buzzword recently in a number of disciplines including the gene expression and facial recognition. It is a classical, and fundamentally simple, concept that has been around since the early 1900's, its recent popularity largely due to the need for dimension reduction techniques in analyzing high dimensional data that has become more common in the last decade, and the availability of computing power to implement this. I will explain the concept, prove a result, and give a couple of examples. The talk should be accessible to all disciplines as it (should?) only assume first year linear algebra, the concept of a random variable, and covariance.
Two classes of network structures that enable efficient information transmission
15:10 Fri 7 Sep 12 :: B.20 Ingkarni Wardli :: A/Prof Sanming Zhou :: The University of Melbourne

Media...
What network topologies should we use in order to achieve efficient information transmission? Of course answer to this question depends on how we measure efficiency of information dissemination. If we measure it by the minimum gossiping time under the store-and-forward, all-port and full-duplex model, we show that certain Cayley graphs associated with Frobenius groups are `perfect' in a sense. (A Frobenius group is a permutation group which is transitive but not regular such that only the identity element can fix two points.) Such graphs are also optimal for all-to-all routing in the sense that the maximum load on edges achieves the minimum. In this talk we will discuss this theory of optimal network design.
Krylov Subspace Methods or: How I Learned to Stop Worrying and Love GMRes
12:10 Mon 17 Sep 12 :: B.21 Ingkarni Wardli :: Mr David Wilke :: University of Adelaide

Media...
Many problems within applied mathematics require the solution of a linear system of equations. For instance, models of arterial umbilical blood flow are obtained through a finite element approximation, resulting in a linear, n x n system. For small systems the solution is (almost) trivial, but what happens when n is large? Say, n ~ 10^6? In this case matrix inversion is expensive (read: completely impractical) and we seek approximate solutions in a reasonable time. In this talk I will discuss the basic theory underlying Krylov subspace methods; a class of non-stationary iterative methods which are currently the methods-of-choice for large, sparse, linear systems. In particular I will focus on the method of Generalised Minimum RESiduals (GMRes), which is of the most popular for nonsymmetric systems. It is hoped that through this presentation I will convince you that a) solving linear systems is not necessarily trivial, and that b) my lack of any tangible results is not (entirely) a result of my own incompetence.
The space of cubic rational maps
13:10 Fri 26 Oct 12 :: Engineering North 218 :: Mr Alexander Hanysz :: University of Adelaide

For each natural number d, the space of rational maps of degree d on the Riemann sphere has the structure of a complex manifold. The topology of these manifolds has been extensively studied. The recent development of Oka theory raises some new and interesting questions about their complex structure. We apply geometric invariant theory to the degree 3 case, studying a double action of the Mobius group on the space of cubic rational maps. We show that the categorical quotient is C, and that the space of cubic rational maps enjoys the holomorphic flexibility properties of strong dominability and C-connectedness.
Asymptotic independence of (simple) two-dimensional Markov processes
15:10 Fri 1 Mar 13 :: B.18 Ingkarni Wardli :: Prof Guy Latouche :: Universite Libre de Bruxelles

Media...
The one-dimensional birth-and death model is one of the basic processes in applied probability but difficulties appear as one moves to higher dimensions. In the positive recurrent case, the situation is singularly simplified if the stationary distribution has product-form. We investigate the conditions under which this property holds, and we show how to use the knowledge to find product-form approximations for otherwise unmanageable random walks. This is joint work with Masakiyo Miyazawa and Peter Taylor.
Twistor space for rolling bodies
12:10 Fri 15 Mar 13 :: Ingkarni Wardli B19 :: Prof Pawel Nurowski :: University of Warsaw

We consider a configuration space of two solids rolling on each other without slipping or twisting, and identify it with an open subset U of R^5, equipped with a generic distribution D of 2-planes. We will discuss symmetry properties of the pair (U,D) and will mention that, in the case of the two solids being balls, when changing the ratio of their radii, the dimension of the group of local symmetries unexpectedly jumps from 6 to 14. This occurs for only one such ratio, and in such case the local group of symmetries of the pair (U,D) is maximal. It is maximal not only among the balls with various radii, but more generally among all (U,D)s corresponding to configuration spaces of two solids rolling on each other without slipping or twisting. This maximal group is isomorphic to the split real form of the exceptional Lie group G2. In the remaining part of the talk we argue how to identify the space U from the pair (U,D) defined above with the bundle T of totally null real 2-planes over a 4-manifold equipped with a split signature metric. We call T the twistor bundle for rolling bodies. We show that the rolling distribution D, can be naturally identified with an appropriately defined twistor distribution on T. We use this formulation of the rolling system to find more surfaces which, when rigidly rolling on each other without slipping or twisting, have the local group of symmetries isomorphic to the exceptional group G2.
On the chromatic number of a random hypergraph
13:10 Fri 22 Mar 13 :: Ingkarni Wardli B21 :: Dr Catherine Greenhill :: University of New South Wales

A hypergraph is a set of vertices and a set of hyperedges, where each hyperedge is a subset of vertices. A hypergraph is r-uniform if every hyperedge contains r vertices. A colouring of a hypergraph is an assignment of colours to vertices such that no hyperedge is monochromatic. When the colours are drawn from the set {1,..,k}, this defines a k-colouring. We consider the problem of k-colouring a random r-uniform hypergraph with n vertices and cn edges, where k, r and c are constants and n tends to infinity. In this setting, Achlioptas and Naor showed that for the case of r = 2, the chromatic number of a random graph must have one of two easily computable values as n tends to infinity. I will describe some joint work with Martin Dyer (Leeds) and Alan Frieze (Carnegie Mellon), in which we generalised this result to random uniform hypergraphs. The argument uses the second moment method, and applies a general theorem for performing Laplace summation over a lattice. So the proof contains something for everyone, with elements from combinatorics, analysis and algebra.
Filtering Theory in Modelling the Electricity Market
12:10 Mon 6 May 13 :: B.19 Ingkarni Wardli :: Ahmed Hamada :: University of Adelaide

Media...
In mathematical finance, as in many other fields where applied mathematics is a powerful tool, we assume that a model is good enough when it captures different sources of randomness affecting the quantity of interests, which in this case is the electricity prices. The power market is very different from other markets in terms of the randomness sources that can be observed in the prices feature and evolution. We start from suggesting a new model that simulates the electricity prices, this new model is constructed by adding a periodicity term, a jumps terms and a positives mean reverting term. The later term is driven by a non-observable Markov process. So in order to prices some financial product, we have to use some of the filtering theory to deal with the non-observable process, these techniques are gaining very much of interest from practitioners and researchers in the field of financial mathematics.
Crystallographic groups I: the classical theory
12:10 Fri 17 May 13 :: Ingkarni Wardli B19 :: Dr Wolfgang Globke :: University of Adelaide

A discrete isometry group acting properly discontinuously on the n-dimensional Euclidean space with compact quotient is called a crystallographic group. This name reflects the fact that in dimension n=3 their compact fundamental domains resemble a space-filling crystal pattern. For higher dimensions, Hilbert posed his famous 18th problem: "Is there in n-dimensional Euclidean space only a finite number of essentially different kinds of groups of motions with a [compact] fundamental region?" This problem was solved by Bieberbach when he proved that in every dimension n there exists only a finite number of isomorphic crystallographic groups and also gave a description of these groups. From the perspective of differential geometry these results are of major importance, as crystallographic groups are precisely the fundamental groups of compact flat Riemannian orbifolds. The quotient is even a manifold if the fundamental group is required to be torsion-free, in which case it is called a Bieberbach group. Moreover, for a flat manifold the fundamental group completely determines the holonomy group. In this talk I will discuss the properties of crystallographic groups, study examples in dimension n=2 and n=3, and present the three Bieberbach theorems on the structure of crystallographic groups.
K-homology and the quantization commutes with reduction problem
12:10 Fri 5 Jul 13 :: 7.15 Ingkarni Wardli :: Prof Nigel Higson :: Pennsylvania State University

The quantization commutes with reduction problem for Hamiltonian actions of compact Lie groups was solved by Meinrenken in the mid-1990s using geometric techniques, and solved again shortly afterwards by Tian and Zhang using analytic methods. In this talk I shall outline some of the close links that exist between the problem, the two solutions, and the geometric and analytic versions of K-homology theory that are studied in noncommutative geometry. I shall try to make the case for K-homology as a useful conceptual framework for the solutions and (at least some of) their various generalizations.

News matching "Modelling gene networks: the case of the quorum se"

Success in Learning and Teaching Grants
The School of Mathematical Sciences has been awarded two Faculty L&T awards. Congratulations to Dr David Green for his successful grant "One Simulation Modelling Instruction Module" and to Drs Adrian Koerber, Paul McCann and Jim Denier for their successful grant "Graphics Calculators and beyond". Posted Tue 11 Mar 08.
Australian Research Council Discovery Project Successes

Congratulations to the following members of the School for their success in the ARC Discovery Grants which were announced recently.

  • A/Prof M Roughan; Prof H Shen $315K Network Management in a World of Secrets
  • Prof AJ Roberts; Dr D Strunin $315K Effective and accurate model dynamics, deterministic and stochastic, across multiple space and time scales
  • A/Prof J Denier; Prof AP Bassom $180K A novel approach to controlling boundary-layer separation
Posted Wed 17 Sep 08.
Welcome to Dr Joshua Ross
We welcome Dr Joshua Ross as a new lecturer in the School of Mathematical Sciences. Joshua has moved over to Adelaide from the University of Cambridge. His research interests are mathematical modelling (especially mathematical biology) and operations research. Posted Mon 15 Mar 10.

More information...

ARC Linkage Success
Congratulations to Matt Roughan for his success in the current round of ARC Linkage Project grants. Matt has been awarded a grant of $104,000 for his project on "Autoconfiguration of critical network infrastructure". Posted Wed 23 Jun 10.
ARC Grant successes
The School of Mathematical Sciences has again had outstanding success in the ARC Discovery and Linkage Projects schemes. Congratulations to the following staff for their success in the Discovery Project scheme: Prof Nigel Bean, Dr Josh Ross, Prof Phil Pollett, Prof Peter Taylor, New methods for improving active adaptive management in biological systems, $255,000 over 3 years; Dr Josh Ross, New methods for integrating population structure and stochasticity into models of disease dynamics, $248,000 over three years; A/Prof Matt Roughan, Dr Walter Willinger, Internet traffic-matrix synthesis, $290,000 over three years; Prof Patricia Solomon, A/Prof John Moran, Statistical methods for the analysis of critical care data, with application to the Australian and New Zealand Intensive Care Database, $310,000 over 3 years; Prof Mathai Varghese, Prof Peter Bouwknegt, Supersymmetric quantum field theory, topology and duality, $375,000 over 3 years; Prof Peter Taylor, Prof Nigel Bean, Dr Sophie Hautphenne, Dr Mark Fackrell, Dr Malgorzata O'Reilly, Prof Guy Latouche, Advanced matrix-analytic methods with applications, $600,000 over 3 years. Congratulations to the following staff for their success in the Linkage Project scheme: Prof Simon Beecham, Prof Lee White, A/Prof John Boland, Prof Phil Howlett, Dr Yvonne Stokes, Mr John Wells, Paving the way: an experimental approach to the mathematical modelling and design of permeable pavements, $370,000 over 3 years; Dr Amie Albrecht, Prof Phil Howlett, Dr Andrew Metcalfe, Dr Peter Pudney, Prof Roderick Smith, Saving energy on trains - demonstration, evaluation, integration, $540,000 over 3 years Posted Fri 29 Oct 10.
Bushfire CRC post-graduate scholarship success
Congratulations to Mika Peace who has been awarded a PhD scholarship from the Bushfire Cooperative Research Centre. Mika is working with Trent Mattner and Graham Mills (from the Bureau of Meteorology) on coupled fire-weather modelling Posted Wed 6 Apr 11.
ARC Future Fellowship success
Associate Professor Zudi Lu has been awarded an ARC Future Fellowship. Associate Professor Lu, and Associate Professor in Statistics, will use the support provided by his Future Fellowship to further improve the theory and practice of econometric modelling of nonlinear spatial time series. Congratulations Zudi. Posted Thu 12 May 11.
ARC Grant Success
Congratulations to the following staff who were successful in securing funding from the Australian Research Council Discovery Projects Scheme. Associate Professor Finnur Larusson awarded $270,000 for his project Flexibility and symmetry in complex geometry; Dr Thomas Leistner, awarded $303,464 for his project Holonomy groups in Lorentzian geometry, Professor Michael Murray Murray and Dr Daniel Stevenson (Glasgow), awarded $270,000 for their project Bundle gerbes: generalisations and applications; Professor Mathai Varghese, awarded $105,000 for his project Advances in index theory and Prof Anthony Roberts and Professor Ioannis Kevrekidis (Princeton) awarded $330,000 for their project Accurate modelling of large multiscale dynamical systems for engineering and scientific simulation and analysis Posted Tue 8 Nov 11.
Best paper prize at Membrane Symposium
Congratulations to Wei Xian Lim who was awarded the prize for the best student presentation at the Membrane Society of Australasia 2011 ECR Membrane Symposium for her talk on "Mathematical modelling of gas capture in porous materials". Xian is working on her PhD with Jim Hill and Barry Cox. Posted Mon 28 Nov 11.
Top-up scholarship available
A PhD opportunity is available to help in mathematical modelling of the interaction of ocean waves and sea ice. For information, see this advertisement. Posted Thu 1 Nov 12.

Publications matching "Modelling gene networks: the case of the quorum se"

Publications
Maximizing networking lifetime in wireless sensor networks with regular topologies
Tian, Hui; Shen, Hong; Roughan, Matthew, Ninth International Conference on Parallel and Distributed Computing, Applications and Technologies, New Zealand 01/12/08
Modelling Water Blending-Sensitivity of Optimal Policies
Webby, Roger; Green, David; Metcalfe, Andrew, 17th Biennial Congress on Modeling and Simulation, New Zealand 01/12/08
Node localisation in wireless ad hoc networks using time difference of arrival
Arnold, Jonathan; Bean, Nigel, 2nd International Conference on Signal Processing and Communication Systems, Gold Coast 15/12/08
Stochastic cyclone modelling in the Bay of Bengal
Need, Steven; Lambert, Martin; Metcalfe, Andrew; Sen, D, Water Down Under 2008, Adelaide 14/04/08
Evolving gene frequencies in a population with three possible alleles at a locus
Hajek, Bronwyn; Broadbridge, P; Williams, G, Mathematical and Computer Modelling 47 (210–217) 2008
Gene profiling for determining pluripotent genes in a time course microarray experiment
Tuke, Simon; Glonek, Garique; Solomon, Patricia, Biostatistics 10 (80–93) 2008
Modelling survival in acute severe illness: Cox versus accelerated failure time models
Moran, John; Bersten, A; Solomon, Patricia; Edibam, C; Hunt, T, Journal of Evaluation in Clinical Practice 14 (83–93) 2008
Robust adaptive synchronization of chaotic neural networks by slide technique
Lou, X; Cui, B, Chinese Physics B 17 (520–528) 2008
Synchronization of neural networks based on parameter identification and via output or state coupling
Lou, X; Cui, B, Journal of Computational and Applied Mathematics 222 (440–457) 2008
The mathematical modelling of rotating capillary tubes for holey-fibre manufacture
Voyce, Christopher; Fitt, A; Monro, Tanya, Journal of Engineering Mathematics 60 (69–87) 2008
Internet scolobility: Properties and evolution
Roughan, Matthew; Uhlig, S; Willinger, W, IEEE Network 22 (4–5) 2008
Computer algebra derives discretisations via self-adjoint multiscale modelling (Unpublished)
Roberts, Anthony John,
Multiple target localisation in sensor networks with location privacy
Roughan, Matthew; Arnold, Jonathan, ESAS 2007, Cambridge, UK 02/07/07
Node localisation in wireless ad hoc networks
Arnold, Jonathan; Bean, Nigel; Kraetzl, Miro; Roughan, Matthew, 2007 15th IEEE International Conference on Networks, Adelaide, Australia 19/11/07
Topology reconstruction and characterisation of wireless ad hoc networks
Arnold, Jonathan; Bean, Nigel; Kraetzl, Miro; Roughan, Matthew; Sorell, Matthew, 2007 IEEE International Conference on Communications, Glasgow, Scotland 24/06/07
Do social networks affect the use of residential aged care among older Australians?
Giles, Lynne Catherine; Glonek, Garique; Luszcz, M; Andrews, G, BMC Geriatrics 7 (WWW 1–WWW 10) 2007
Gene expression analysis of multiple gastrointestinal regions reveals activation of common cell regulatory pathways following cytotoxic chemotherapy
Bowen, Joanne; Gibson, Rachel; Tsykin, Anna; Stringer, Andrea Marie; Logan, Richard; Keefe, Dorothy, International Journal of Cancer 121 (1847–1856) 2007
Inverse groundwater modelling in the Willunga Basin, South Australia
Knowles, I; Teubner, Michael; Yan, A; Rasser, Paul; Lee, Jong, Hydrogeology Journal 15 (1107–1118) 2007
Irinotecan changes gene expression in the small intestine of the rat with breast cancer
Bowen, Joanne; Gibson, Rachel; Cummins, Adrian; Tyskin, A; Keefe, Dorothy, Cancer Chemotherapy and Pharmacology 59 (337–348) 2007
Microarray gene expression profiling of osteoarthritic bone suggests altered bone remodelling, WNT and transforming growth factor-beta/bone morphogenic protein signalling
Hopwood, Blair; Tsykin, Anna; Findlay, David; Fazzalari, Nicola, Arthritis Research & Therapy 9 (WWW 1–WWW 21) 2007
The Mekong-applications of value at risk (VAR) and conditional value at risk (CVAR) simulation to the benefits, costs and consequences of water resources development in a large river basin
Webby, Roger; Adamson, Peter; Boland, J; Howlett, P; Metcalfe, Andrew; Piantadosi, J, Ecological Modelling 201 (89–96) 2007
Modelling extreme rainfall and tidal anomaly
Need, Steven; Lambert, Martin; Metcalfe, Andrew, 30th Hydrology and Water Resources Symposium, Launceston, Tasmania 04/12/06
Modelling multivariate extreme flood events
Wong, Hui; Need, Steven; Adamson, Peter; Lambert, Martin; Metcalfe, Andrew, 30th Hydrology and Water Resources Symposium, Launceston, Tasmania 04/12/06
Genetic regulators of myelopoiesis and leukemic signaling identified by gene profiling and linear modeling
Brown, Anna; Wilkinson, Christopher; Waterman, S; Kok, Chung; Salerno, Diana; Diakiw, Sonya; Reynolds, Brenton; Scott, Hamish; Tsykin, Anna; Glonek, Garique; Goodall, Gregory; Solomon, Patricia; Gonda, Thomas; D'Andrea, Richard, Journal of Leukocyte Biology 80 (433–447) 2006
Mathematical modelling of oxygen concentration in bovine and murine cumulus-oocyte complexes
Clark, Alys; Stokes, Yvonne; Lane, Michelle; Thompson, Jeremy, Reproduction 131 (999–1006) 2006
Secure distributed data-mining and its application to large-scale network measurements
Roughan, Matthew; Zhang, Y, Computer Communication Review 36 (7–14) 2006
T-duality for torus bundles with H-fluxes via noncommutative topology, II: the high-dimensional case and the T-duality group
Varghese, Mathai; Rosenberg, J, Advances in Theoretical and Mathematical Physics 10 (123–158) 2006
The many facets of Internet topology and traffic
Alderson, D; Chang, H; Roughan, Matthew; Uhlig, S; Willinger, W, Networks and Heterogeneous Media 1 (569–600) 2006
Public review for low complexity, stable scheduling algorithms for networks of input queued switches with no or very low speed-up
Roughan, Matthew, Computer Communication Review 36 (15–15) 2006
An analytic modelling approach for network routing algorithms that use "ant-like" mobile agents
Bean, Nigel; Costa, Andre, Computer Networks-The International Journal of Computer and Telecommunications Networking 49 (243–268) 2005
An inverse modelling technique for glass forming by gravity sagging
Agnon, Y; Stokes, Yvonne, European Journal of Mechanics B-Fluids 24 (275–287) 2005
Effect of social networks on 10 year survival in very old Australians: the Australian longitudinal study of aging
Giles, Lynne Catherine; Glonek, Garique; Luszcz, M; Andrews, G, Journal of Epidemiology and Community Health 59 (574–579) 2005
The cross-entropy method for network reliability estimation
Hui, Kin-Ping; Bean, Nigel; Kraetzl, Miro; Kroese, D, Annals of Operations Research 134 (101–118) 2005
Fundamental bounds on the accuracy of network performance measurements
Roughan, Matthew, 2005 ACM SIGMETRICS international conference on Measurement and modeling of computer systems, Banff, Alberta Canada 06/06/05
Fundamental bounds on the accuracy of network performance measurements
Roughan, Matthew, Winter 2005 SRCCS Workshop. Workshop on Internet Measurement, Modeling, and Analysis, Seoul, Korea 09/01/05
Network Anomography
Zhang, Y; Ge, Z; Greenberg, A; Roughan, Matthew, IMC '05, 2005 Internet Measurement Conference, Berkely, California USA 19/10/05
Network-wide inter-domain routing policies: Design and realization
Maennel, Olaf; Feldmann, A; Reiser, C; Volk, R; Bohm, H, Nanog34, Seatlle, WA USA 15/05/05
On the analysis of a case-control study with differential measurement error
Glonek, Garique, 20th International Workshop on Statistical Modelling, Sydney, Australia 10/07/05
Optimal designs for gene expression studies
Sanchez, Penny Susan; Glonek, Garique; Solomon, Patricia, Twentieth International Workshop on Statistical Modelling, Sydney, Sydney, Australia 10/07/05
Deterministic and stochastic modelling of endosome escape by Staphylococcus aureus: "quorum" sensing by a single bacterium
Koerber, Adrian; King, J; Williams, P, Journal of Mathematical Biology 50 (440–488) 2005
Investigation and modelling of traffic issues in immersive audio environments
McMahon, Jeremy; Rumsewicz, Michael; Boustead, P; Safaei, F, 2004 IEEE International Conference on Communications, Paris, France 20/06/04
Modelling thirty-day mortality in the acute respiratory distress syndrome (ARDS) in an adult ICU
Moran, John; Solomon, Patricia; Fox, V; Salagaras, M; Williams, P; Quinlan, K; Bersten, A, Anaesthesia and Intensive Care 32 (317–329) 2004
The effects of social networks on disability in older Australians
Giles, Lynne Catherine; Metcalf, P; Glonek, Garique; Luszcz, M; Andrews, G, Journal of Aging and Health 16 (517–538) 2004
Development of Non-Homogeneous and Hierarchical Hidden Markov Models for Modelling Monthly Rainfall and Streamflow Time Series
Whiting, Julian; Lambert, Martin; Metcalfe, Andrew; Kuczera, George, World Water and Environmental Resources Congress (2004), Salt Lake City, Utah, USA 27/06/04
Cell-signalling repression in bacterial quorum sensing
Ward, J; King, J; Koerber, Adrian; Croft, J; Sockett, R; Williams, P, Mathematical Medicine and Biology (Print Edition) 21 (169–204) 2004
Network reliability estimation using the tree cut and merge algorithm with importance sampling
Hui, Kin-Ping; Bean, Nigel; Kraetzl, Miro; Kroese, D, Design and Management of Highly Reliable Networks and Services, Banaff, Alberta, Canada 19/10/03
Stochastic modelling of tidal anomaly for estimation of flood risk in coastal areas
Ahmer, Ingrid; Lambert, Martin; Leonard, Michael; Metcalfe, Andrew, 28th International Hydrology and Water Resources Symposium, Wollongong, NSW, Australia 10/11/03
A Probabilistic algorithm for determining the fundamental matrix of a block M/G/1 Markov chain
Hunt, Emma, Mathematical and Computer Modelling 38 (1203–1209) 2003
A philosophy for the modelling of realistic nonlinear systems
Howlett, P; Torokhti, Anatoli; Pearce, Charles, Proceedings of the American Mathematical Society 132 (353–363) 2003
An approximate formula for the stress intensity factor for the pressurized star crack
Clements, David; Widana, Inyoman, Mathematical and Computer Modelling 37 (689–694) 2003
Method of hybrid approximations for modelling of multidimensional nonlinear systems
Torokhti, Anatoli; Howlett, P; Pearce, Charles, Multidimensional Systems and Signal Processing 14 (397–410) 2003
Modelling persistence in annual Australian point rainfall
Whiting, Julian; Lambert, Martin; Metcalfe, Andrew, Hydrology and Earth System Sciences 7 (197–211) 2003
Optimal mathematical models for nonlinear dynamical systems
Torokhti, Anatoli; Howlett, P; Pearce, Charles, Mathematical and Computer Modelling of Dynamical Systems 9 (327–343) 2003
Rumours, epidemics, and processes of mass action: Synthesis and analysis
Dickinson, Rowland; Pearce, Charles, Mathematical and Computer Modelling 38 (1157–1167) 2003
The tree cut and merge algorithm for estimation of network reliability
Hui, Kin-Ping; Bean, Nigel; Kraetzl, Miro; Kroese, D, Probability in the Engineering and Informational Sciences 17 (23–45) 2003
Low-dimensional modelling of dynamical systems applied to some dissipative fluid mechanics
Roberts, Anthony John, chapter in Nonlinear dynamics: from lasers to butterflies (World Scientific Publishing) 257–313, 2003
How to compute accurate traffic matrices for your network in seconds
Zhang, Y; Roughan, Matthew; Greenberg, A; Donoho, D; Duffield, N; Lund, C; Nguyen, Q, NANOG 29, Chicago, IL, USA 19/10/03
Traffic matrices and network topology
Roughan, Matthew, UCLA IPAM Workshop (2003: Lake Arrowhead, CA, USA), Los Angeles, CA, USA 28/09/03
Early development and quorum sensing in bacterial biofilms
Ward, J; King, J; Koerber, Adrian; Croft, J; Sockett, R; Williams, P, Journal of Mathematical Biology 47 (23–55) 2003
Modelling host tissue degradation by extracellular bacterial pathogens
King, J; Koerber, Adrian; Croft, J; Ward, J; Williams, P; Sockett, R, Mathematical Medicine and Biology (Print Edition) 20 (227–260) 2003
Modelling nonlinear dynamics of shape-memory-alloys with approximate models of coupled thermoelasticity
Melnik, R; Roberts, Anthony John, Zeitschrift fur Angewandte Mathematik und Mechanik 83 (93–104) 2003
Modelling the dynamics of turbulent floods
Mei, Z; Roberts, Anthony John; Li, Z, Siam Journal on Applied Mathematics 63 (423–458) 2003
Coastal flood modelling: Allowing for dependence between rainfall and tidal anomaly
Ahmer, Ingrid; Metcalfe, Andrew; Lambert, Martin; Deans, J, EMAC 2002, Brisbane, Australia 29/09/02
A concavity result for network design problems
Ketabi, Saeedeh; Salzborn, Franz, Journal of Global Optimization 24 (79–88) 2002
A mathematical study of peristaltic transport of a Casson fluid
Mernone, Anacleto; Mazumdar, Jagan; Lucas, S, Mathematical and Computer Modelling 35 (895–912) 2002
Bivariate stochastic modelling of ephemeral streamflow
Cigizoglu, H; Adamson, Peter; Metcalfe, Andrew, Hydrological Processes 16 (1451–1465) 2002
A case study of OSPF behavior in a large enterprise network
Shaikh, A; Isett, C; Greenberg, A; Roughan, Matthew; Gottlieb, J, 2nd ACM SIGCOMM Workshop on Internet measurment 2002, Marseille, France, 06/11/02
SNMP: Simple network measurements please
Roughan, Matthew, IPAM Workshop on 'Large-Scale Communication Networks: Topology, Routing, Traffic and Control', UCLA, Los Angeles, CA, USA 18/03/02
A mathematical model of partial-thickness burn-wound infection by Pseudomonas aeruginosa: Quorum sensing and the build-up to invasion
Koerber, Adrian; King, J; Ward, J; Williams, P; Croft, J; Sockett, R, Bulletin of Mathematical Biology 64 (239–259) 2002
Self-Similar Traffic and Network Dynamics
Erramilli, A; Roughan, Matthew; Veitch, D; Willinger, W, Proceedings of the IEEE 90 (800–819) 2002
A mapping technique for the synthesis of linear threshold gate networks used to implement Boolean functions
Celinski, Peter; Sherman, Gregory; Lopez, J; Abbott, Derek, chapter in Advances in Neural Networks and Applications (World Scientific Publishing) 224–228, 2001
Fractional Brownian motion and financial modelling
Elliott, Robert; Van Der Hoek, John, chapter in Mathematical Finance (Birkhauser) 140–151, 2001
Statistical modelling and prediction associated with the HIV/AIDS epidemic
Solomon, Patricia; Wilson, Susan, The Mathematical Scientist 26 (87–102) 2001
The modelling and numerical simulation of causal non-linear systems
Howlett, P; Torokhti, Anatoli; Pearce, Charles, Nonlinear Analysis-Theory Methods & Applications 47 (5559–5572) 2001
A mapping technique for the synthesis of linear threshold gate networks used to implement Boolean functions
Celinski, Peter; Sherman, Gregory; Lopez, J; Abbott, Derek, P Celinski, GD Sherman, D Abbott, Tenerife, Canary Islands, Spain 11/02/01
Modelling Overflow Traffic from Terrestrial Networks into Satellite Networks
Green, David, 8th International Conference on Telecommunications (June 2001), Bucharest, Romania 04/06/01
Modelling Service Time Distribution in Cellular Networks Using Phase-Type Service Distributions
Green, David; Asenstorfer, J; Jayasuriya, A,
Network performance for TCP networks part I: Persistent Sources
Roughan, Matthew; Erramilli, A; Veitch, D, International teletraffic Congress (ITC-17), Salvador Da Bahia, Brazil 24/09/01
Mathematical modelling of quorum sensing in bacteria
Ward, J; King, J; Koerber, Adrian; Williams, P; Croft, J; Sockett, R, Mathematical Medicine and Biology (Print Edition) 18 (263–292) 2001
A brief survey and synthesis of the roles of time in petri nets
Bowden, Fred David John, Mathematical and Computer Modelling 31 (55–68) 2000
A new perspective on the normalization of invariant measures for loss networks and other product form systems
Bean, Nigel; Stewart, Mark, Mathematical and Computer Modelling 31 (47–54) 2000
Algorithms for second moments in batch-movement queueing systems
Hunt, Emma, Mathematical and Computer Modelling 31 (299–305) 2000
Biomathematical modelling of physiological fluids using a Casson fluid with emphasis to peristalsis
Mernone, Anacleto; Mazumdar, Jagan, Australasian Physical and Engineering Sciences in Medicine 23 (94–100) 2000
Disease surveillance and data collection issues in epidemic modelling
Solomon, Patricia; Isham, V, Statistical Methods in Medical Research 9 (259–277) 2000
Local Constraints on Einstein-Weyl geometries: The 3-dimensional case
Eastwood, Michael; Tod, K, Annals of Global Analysis and Geometry 18 (1–27) 2000
Maximal profit dimensioning and tariffing of loss networks with cross-connects
Bean, Nigel; Brown, Deborah; Taylor, Peter, Mathematical and Computer Modelling 31 (21–30) 2000
Quasi-reversibility and networks of queues with nonstandard batch movements
Taylor, Peter, Mathematical and Computer Modelling 31 (335–341) 2000
The exact solution of the general stochastic rumour
Pearce, Charles, Mathematical and Computer Modelling 31 (289–298) 2000
When is a MAP poisson?
Bean, Nigel; Green, David, Mathematical and Computer Modelling 31 (31–46) 2000

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