A novel density peak clustering algorithm based on squared residual error

The density peak clustering (DPC) algorithm is designed to quickly identify intricate-shaped clusters with high dimensionality by finding high-density peaks in a non-iterative manner and using only one threshold parameter. However, DPC has certain limitations in processing low-density data points because it only takes the global data density distribution into account. As such, DPC may confine in forming low-density data clusters, or in other words, DPC may fail in detecting anomalies and borderline points. In this paper, we analyze the limitations of DPC and propose a novel density peak clustering algorithm to better handle low-density clustering tasks. Specifically, our algorithm provides a better decision graph comparing to DPC for the determination of cluster centroids. Experimental results show that our algorithm outperforms DPC and other clustering algorithms on the benchmarking datasets.NRF (Natl Research Foundation, S’pore)Accepted versio

Partial mixture model for tight clustering of gene expression time-course

Background: Tight clustering arose recently from a desire to obtain tighter and potentially more informative clusters in gene expression studies. Scattered genes with relatively loose correlations should be excluded from the clusters. However, in the literature there is little work dedicated to this area of research. On the other hand, there has been extensive use of maximum likelihood techniques for model parameter estimation. By contrast, the minimum distance estimator has been largely ignored. Results: In this paper we show the inherent robustness of the minimum distance estimator that makes it a powerful tool for parameter estimation in model-based time-course clustering. To apply minimum distance estimation, a partial mixture model that can naturally incorporate replicate information and allow scattered genes is formulated. We provide experimental results of simulated data fitting, where the minimum distance estimator demonstrates superior performance to the maximum likelihood estimator. Both biological and statistical validations are conducted on a simulated dataset and two real gene expression datasets. Our proposed partial regression clustering algorithm scores top in Gene Ontology driven evaluation, in comparison with four other popular clustering algorithms. Conclusion: For the first time partial mixture model is successfully extended to time-course data analysis. The robustness of our partial regression clustering algorithm proves the suitability of the ombination of both partial mixture model and minimum distance estimator in this field. We show that tight clustering not only is capable to generate more profound understanding of the dataset under study well in accordance to established biological knowledge, but also presents interesting new hypotheses during interpretation of clustering results. In particular, we provide biological evidences that scattered genes can be relevant and are interesting subjects for study, in contrast to prevailing opinion

Bridge damage detection based on vibration data: past and new developments

Overtime, bridge condition declines due to a number of degradation processes such as creep, corrosion, and cyclic loading, among others. Traditionally, vibration-based damage detection techniques in bridges have focused on monitoring changes to modal parameters. These techniques can often suffer to their sensitivity to changes in environmental and operational conditions, mistaking them as structural damage. Recent research has seen the emergence of more advanced computational techniques that not only allow the assessment of noisier and more complex data but also allow research to veer away from monitoring changes in modal parameters alone. This paper presents a review of the current state-of-the-art developments in vibration-based damage detection in small to medium span bridges with particular focus on the utilization of advanced computational methods that avoid traditional damage detection pitfalls. A case study based on the S101 bridge is also presented to test the damage sensitivity to a chosen methodology.Peer ReviewedPostprint (published version

Asteroid lightcurves from the Palomar Transient Factory survey: Rotation periods and phase functions from sparse photometry

We fit 54,296 sparsely-sampled asteroid lightcurves in the Palomar Transient Factory to a combined rotation plus phase-function model. Each lightcurve consists of 20+ observations acquired in a single opposition. Using 805 asteroids in our sample that have reference periods in the literature, we find the reliability of our fitted periods is a complicated function of the period, amplitude, apparent magnitude and other attributes. Using the 805-asteroid ground-truth sample, we train an automated classifier to estimate (along with manual inspection) the validity of the remaining 53,000 fitted periods. By this method we find 9,033 of our lightcurves (of 8,300 unique asteroids) have reliable periods. Subsequent consideration of asteroids with multiple lightcurve fits indicate 4% contamination in these reliable periods. For 3,902 lightcurves with sufficient phase-angle coverage and either a reliably-fit period or low amplitude, we examine the distribution of several phase-function parameters, none of which are bimodal though all correlate with the bond albedo and with visible-band colors. Comparing the theoretical maximal spin rate of a fluid body with our amplitude versus spin-rate distribution suggests that, if held together only by self-gravity, most asteroids are in general less dense than 2 g/cm$^3$, while C types have a lower limit of between 1 and 2 g/cm$^3$, in agreement with previous density estimates. For 5-20km diameters, S types rotate faster and have lower amplitudes than C types. If both populations share the same angular momentum, this may indicate the two types' differing ability to deform under rotational stress. Lastly, we compare our absolute magnitudes and apparent-magnitude residuals to those of the Minor Planet Center's nominal $G=0.15$, rotation-neglecting model; our phase-function plus Fourier-series fitting reduces asteroid photometric RMS scatter by a factor of 3.Comment: 35 pages, 29 figures. Accepted 15-Apr-2015 to The Astronomical Journal (AJ). Supplementary material including ASCII data tables will be available through the publishing journal's websit