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Issue 1, Volume 4, January 2007
ISSN: 1109-9518
E-ISSN: 2224-2902







Title of the Paper: Allowing Mismatches in Anchors for Whole Genome Alignment


Authors: S.M. Yiu P.Y. Chan T.W. Lam W.K. Sung H.F. Ting P.W.H. Wong

Abstract: Recent work on whole genome alignment has resulted in efficient tools to locate (possibly) conserved regions of two genomic sequences. Most of such tools start with locating a set of short and highly similar substrings (called anchors) that are present in both genomes. These anchors provide clues for the conserved regions, and the effectiveness of the tools is highly related to the quality of the anchors. Some popular software tools use the exact match maximal unique substrings (EM-MUM) as anchors. However, the result is not satisfactory especially for genomes with high mutation rates (e.g. virus). In our experiments, we found that more than 40% of the conserved genes are not recovered. In this paper, we consider anchors with mismatches in order to increase the effectiveness of locating conserved regions.

Keywords: Whole genome alignment, anchors with mismatches, conserved regions

Title of the Paper: An Overview and Biological Tissues Characteristics Using Optical Simulation Method


Authors: G. Jagajothi, S. Raghavan

Abstract: A new low cost optical measurement system was developed for testing of biological soft tissues. Other technique creates backscattered light on a tissue surface by piercing three sets of small conducting optical fibres. The optical properties of the skin lesion was determined with the help of laser reflectometry. The result was compared with phantoms and simulation values to get accurate result.These profiles measured at various locations of the tissues on the forearm the corresponding optical parameters, the scattering (μs ) and absorption(μa) coefficient and the anisotropy parameter g ,by matching these with profiles as simulated by Monte Carlo procedure were determined. A large area photodiode located below the tissue sample detects the light emitted from the set of optical fibres. Analog to Digital circuitry analyze the current signal from the Photo detector to determine the amount of light falls on tissue as simulated by the familiar Monte Carlo Simulation Method. Numerical results were compared with original results. These findings are necessary to trace the presence of any abnormal in the biological tissue.

Keywords: 820nm Laser diode,Laser reflectometry, tissue equivalent wax, phantoms, optical fibres, ADC card and optical power meter.

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