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BioSCAN Server - Query Update

Raj Kumar Singh singh at CS.UNC.EDU
Tue May 10 10:18:53 EST 1994

	   BBBBBB         OOOOO    SSSSSS   CCCCCC    AAA    N     N    
	   B     B    @  O     O  S        C         A   A   NN    N    
	   B     B    i  O     O  S        C        A     A  N N   N    
	   BBBBBBB   ii  O     O   SSSSS   C        AAAAAAA  N  N  N    
	   B     B   ii  O     O        S  C        A     A  N   N N    
	   B     B   ii  O     O        S  C        A     A  N    NN    
	   BBBBBB   iii   OOOOO   SSSSSS    CCCCCC  A     A  N     N    

			* U P D A T E -- 5/10/94  *

	o In addition to specifying query sequences in FASTA format, 
	  the BioSCAN e-mail server also accepts queries by "locus name"
	  and/or "accession number".  This is useful for specifying 
	  sequences that are already in the databases.  This is helpful
	  in minimizing Internet traffic.  The syntax is as follows:
	  	QUERY <database abbrev>:<locus name> 
	  	QUERY <database abbrev>:<accession number>.

	  The database abbreviations used are "gb" for GenBank (individual
	  divisions can be also specified as "gbrod", "gbmam", "gbbct", etc.),
	  'pir for PIR' (individual sections "pir1", "pir2", and "pir3" can 
	  be also specified), and 'sw for SWISS-PROT'.  For example,
	  	QUERY sw:10KS_HUMAN	/* Swiss-Prot by locus name */
	  	QUERY sw:P11684		/* Swiss-Prot by accession number */
	  	QUERY gbmam:BOV33DPTP	/* GenBank by locus name */
	  	QUERY gb:M33529		/* GenBank by accession number */
	  	QUERY pir1:CCKGG	/* PIR by locus name */
	  	QUERY pir:A00011	/* PIR by accession number */
	  	QUERY gp:X59645		/* GenPept by accession number */
	  	QUERY gp:AFHGDC_1	/* GenPept by locus name */

	  Thus, a search request can also look like the following:
	     	PROGRAM bscan
	       	MATRIX PAM120
		EXPECT 0.01

        o BioSCAN (Biological Sequence Comparative Analysis Node) is a 
          computational tool designed for similarity analysis of biological
          sequences.  Its massively parallel computer system performs rapid,
          rigorous, searches of biosequence databases and is compatible with 
          popular software packages such as BLAST and FASTA. 

          To receive current set of instructions on using the BioSCAN 
          e-mail server, send an e-mail to the address "bioscan at cs.unc.edu".
          Put the word "HELP" on a line by itself in the body of the 
          message.  A tutorial ("tutor.txt") can be retrieved via anonymous
          FTP to "ftp.cs.unc.edu" from "/pub/bioscan" directory.  Please 
          send your questions and comments to "bioscan-info at cs.unc.edu".

	o Searches: bioscan at cs.unc.edu, User support: bioscan-info at cs.unc.edu

	o This research was supported in part by NSF under grant MIP-9024585.
	Raj K. Singh		singh at cs.unc.edu	 +1 (919) 962-1744

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