Limits...
Development of an integrated suite of software in analysing of large DNA databases.

Kong KS, Ng EY - Open Med Inform J (2008)

Bottom Line: The integrated software tool has great potential and that the results obtained during the tests were satisfactory.The recent South Asia Tsunami incident has renewed the need to establish a quick and reliable system for DNA matching and comparison.Fault tolerance enhancement to the system is one of the key areas that can further help to make the entire application efficient, robust and reliable.

View Article: PubMed Central - PubMed

Affiliation: DS Center/IEP, DSO National Laboratories, 20 Science Park Drive, Singapore 118230.

ABSTRACT
The work showed that the integrated suite of software tools for detecting criminals using DNA databases has achieved the overall objective by providing a working platform for sequence analysis. The work also demonstrated that by integrating BLAST and FASTA (two widely used and freely available algorithms), plus an additional implementation of PSA (custom-built pairwise sequence alignment algorithms) and TR analysis tools (for detecting tandem repeats) with the rest of the utilities supporting tools (databases and files management) developed, it is entirely possible to have an initial working version of the software tool for criminal DNA analysis and detection work. The integrated software tool has great potential and that the results obtained during the tests were satisfactory. The recent South Asia Tsunami incident has renewed the need to establish a quick and reliable system for DNA matching and comparison. This work may also contribute towards the quick identification of victims in many disasters.Future works are to further enhance the existing tools by adding more options and controls, improve upon the visualisation display, and to build robust software architecture to better manage the system loadings. Fault tolerance enhancement to the system is one of the key areas that can further help to make the entire application efficient, robust and reliable.

No MeSH data available.


Dotplot Input & Output Parameters.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC2666961&req=5

Figure 9: Dotplot Input & Output Parameters.

Mentions: The Dotplot software component has four input parameters as shown in Fig. (8). They are the input sequences to be compared and their homology determined via the Dotplot algorithm. The window size determines the word size on each axis to be examined, moving from left to right for the horizontal axis (sequence A) and moving from bottom to top for the vertical axis (Sequence B). A dot will be plotted on (x, y) coordinate if the number of matches between sequence A[x, x + windowsize] and sequence B[y, y + windowsize] > threshold on a diagram. The output is a plot diagram indicating those sections with two identical sequences as illustrated in Fig. (9).


Development of an integrated suite of software in analysing of large DNA databases.

Kong KS, Ng EY - Open Med Inform J (2008)

Dotplot Input & Output Parameters.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC2666961&req=5

Figure 9: Dotplot Input & Output Parameters.
Mentions: The Dotplot software component has four input parameters as shown in Fig. (8). They are the input sequences to be compared and their homology determined via the Dotplot algorithm. The window size determines the word size on each axis to be examined, moving from left to right for the horizontal axis (sequence A) and moving from bottom to top for the vertical axis (Sequence B). A dot will be plotted on (x, y) coordinate if the number of matches between sequence A[x, x + windowsize] and sequence B[y, y + windowsize] > threshold on a diagram. The output is a plot diagram indicating those sections with two identical sequences as illustrated in Fig. (9).

Bottom Line: The integrated software tool has great potential and that the results obtained during the tests were satisfactory.The recent South Asia Tsunami incident has renewed the need to establish a quick and reliable system for DNA matching and comparison.Fault tolerance enhancement to the system is one of the key areas that can further help to make the entire application efficient, robust and reliable.

View Article: PubMed Central - PubMed

Affiliation: DS Center/IEP, DSO National Laboratories, 20 Science Park Drive, Singapore 118230.

ABSTRACT
The work showed that the integrated suite of software tools for detecting criminals using DNA databases has achieved the overall objective by providing a working platform for sequence analysis. The work also demonstrated that by integrating BLAST and FASTA (two widely used and freely available algorithms), plus an additional implementation of PSA (custom-built pairwise sequence alignment algorithms) and TR analysis tools (for detecting tandem repeats) with the rest of the utilities supporting tools (databases and files management) developed, it is entirely possible to have an initial working version of the software tool for criminal DNA analysis and detection work. The integrated software tool has great potential and that the results obtained during the tests were satisfactory. The recent South Asia Tsunami incident has renewed the need to establish a quick and reliable system for DNA matching and comparison. This work may also contribute towards the quick identification of victims in many disasters.Future works are to further enhance the existing tools by adding more options and controls, improve upon the visualisation display, and to build robust software architecture to better manage the system loadings. Fault tolerance enhancement to the system is one of the key areas that can further help to make the entire application efficient, robust and reliable.

No MeSH data available.