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The rear panel houses a 9-pin serial port, a 25-pin parallel port, six USB ports, an RJ45 connector for the integrated Broadcom 5761 Gigabit Ethernet LAN, PS/2 mouse and keyboard connectors, audio-in and out, and an eSATA connector. The backlit power button is center just above the Dell medallion. Down from there, a sloping panel contained microphone and headphone jacks and two USB ports, with cleverly concealed hard drive and network activity LEDs as well as four numbered diagnostic lights that help identify any problems during startup. Below these, a smaller 3.5-inch flex bay contained a 19-in-1 media card reader. The front panel provides two 5.25-inch drive bays that came filled with a pair of optical drives: a 16X DVD-ROM and a 16X DVD+/-RW drive. Although configured as a tower, the T3500 can also be reoriented as a desktop system. The Precision T3500 comes housed in a similar gray and black case measuring 6.8 in. 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The Dell Precision T3500 workstation looks strikingly similar to earlier workstations, but is now equipped with a single Intel Xeon Nehalem-based quad-core CPU. ![]() ![]() The BLAST algorithm and the computer program that implements it were developed by Stephen Altschul, Warren Gish, and David Lipman at the U.S. What other genes encode proteins that exhibit structures or motifs such as ones that have just been determined?īLAST is also often used as part of other algorithms that require approximate sequence matching.Where does a certain sequence of DNA originate?.Which bacterial species have a protein that is related in lineage to a certain protein with known amino-acid sequence?.This could be further realized by understanding the algorithm of BLAST introduced below.Įxamples of other questions that researchers use BLAST to answer are: The optimality of Smith-Waterman "ensured the best performance on accuracy and the most precise results" at the expense of time and computer power.īLAST is more time-efficient than FASTA by searching only for the more significant patterns in the sequences, yet with comparative sensitivity. While BLAST is faster than Smith-Waterman, it cannot "guarantee the optimal alignments of the query and database sequences" as Smith-Waterman does. This emphasis on speed is vital to making the algorithm practical on the huge genome databases currently available, although subsequent algorithms can be even faster.īefore fast algorithms such as BLAST and FASTA were developed, doing database searches for protein or nucleic sequences was very time consuming because a full alignment procedure (e.g., the Smith–Waterman algorithm) was used. 11 Comparing BLAST and the Smith-Waterman ProcessīLAST is one of the most widely used bioinformatics programs, because it addresses a fundamental problem and the heuristic algorithm it uses is much faster than calculating an optimal alignment.Lipman at the NIH and was published in the Journal of Molecular Biology in 1990. The BLAST program was designed by Stephen Altschul, Warren Gish, Webb Miller, Eugene Myers, and David J. For example, following the discovery of a previously unknown gene in the mouse, a scientist will typically perform a BLAST search of the human genome to see if humans carry a similar gene BLAST will identify sequences in the human genome that resemble the mouse gene based on similarity of sequence. Different types of BLASTs are available according to the query sequences. A BLAST search enables a researcher to compare a query sequence with a library or database of sequences, and identify library sequences that resemble the query sequence above a certain threshold. In bioinformatics, Basic Local Alignment Search Tool, or BLAST, is an algorithm for comparing primary biological sequence information, such as the amino-acid sequences of different proteins or the nucleotides of DNA sequences. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ, NCBIĢ.2.27+ / 11 September 2012 6 months ago ( ) ![]() |
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