By Martin J. Bishop
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Additional info for Guide to Human Genome Computing, 2nd edition
G. map position and marker type). GDB also offers a 'Find a gene' interface that searches through the various aliases to find the gene that you are searching for. Searches that recover individual map markers and clones will display them in a list of hypertext links similar to those displayed by Entrez and PDB. 15 The GDB home page provides access to the main repository for human genome mapping information. 16. Links on the page lead to citation information, information on maps this reagent has been assigned to, and cross-references to the GenBank sequence for the marker or clone.
35 36 Guide to Human Genome Computing To place STSs on the Whitehead map, reformat the hybrid panel screening results in standard 'radiation hybrid vector' format. The format looks like this: s t s_n ame 1 0010010110000010000000110100011011100111001010012110011101 s t s_n ame 2 0000011110000010000000110100000011100111001010012110011101... Each digit is the result of the polymerase chain reaction (PCR) on one of the radiation hybrid cell lines. '0' indicates that the PCR was negative (no reaction product), '1' that it was positive, and '2' is used for 'unknown' or 'not done'.
A button at the bottom of the output prompts us to import this alignment file back into Workbench. 24). 23 Performing an analysis with Biology Workbench is a matter of selecting the sequences to analyze and the analytic program to run. Interestingly (but not too surprisingly), the coding sequence that GenBank's two entries give for this gene are not quite the same. Regrettably there is no existing on-line artificial intelligence service that will help sort out this type of problem. 5 Physical Mapping Tools Several Web sites offer you the ability to map new STSs to one or more of the existing physical maps of the human genome.
Guide to Human Genome Computing, 2nd edition by Martin J. Bishop