FLAT DB E-Mail Network Server in Japan
		--------------------------------------

Sanzo Miyazawa
smiyazaw@smlab.eg.gunma-u.ac.jp

FLAT E-mail network server for DNA/protein databases is now available at
flat-netserv@smlab.eg.gunma-u.ac.jp in Japan, which is reachable via Internet,
Bitnet, Csnet, Janet, Junet, and others.

One of characteristics in this database server is that it provides a function
of keyword serach over database entries such as author name, Journal name, 
and any sequence description. 

Available databases are

	GenBank; regular release + new entries retrieved from "Bionet".
	EMBL;	 regular release + new entries
	DDBJ
	GenPept
	SwissProt
	PIR
	PRF (Protein Research Foundation peptide database)

The following is a brief manual for this database server.


--------------------

		FLAT DB E-Mail Network Server

					Sanzo Miyazawa
					smiyazaw@smlab.eg.gunma-u.ac.jp
					Gunma Univ., Faculty of Technology
				FAX:   +81 277 40 1026
				Phone: +81 277 22 3181 ext. 262

E-mail address for the server:	flat-netserv@smlab.eg.gunma-u.ac.jp
				   or netserv@smlab.eg.gunma-u.ac.jp
E-mail address for inquiries:	sanzo.miyazawa@smlab.eg.gunma-u.ac.jp
				   or smiyazaw@smlab.eg.gunma-u.ac.jp

Following commands are available:
  - Commands must be written not at the "Subject:" field but in a mail. 
  - Command names and others are case sensitive, unless specified.
  - Output may be limited to 2400 lines.
  - Character strings may be represented in the regular expression.

scandir db-name [options] 'keyword[|keyword...]' ['keyword[|keyword...]'] ...
	Scan directory files of the "db-name" database to find "keywords"
	and output entry names and their definitions; keywords should be
	expressed in the regular expression, that is,
		key-1|key-2 key3	means "(key-1 or key-2) and key-3"
	Options:
	-i	case insensitive

scanjou db-name ['journal'] ['vol:'['page[-page]']] ['(year)']
	Scan journal index files of the "db-name" database to find specified
	journals and output journal names and corresponding entry names.
	Journal names in the command line are not case sensitive.

scanaut db-name 'Last-name,[First.Middle-Initial.]' ...
	Scan author index files of the "db-name" database to find specified
	author names and output author names and corresponding entry names
	with their definitions.
	Author names in the command line are not case sensitive.

scanacc db-name '#acc' ...
	Scan accession number index files of the "db-name" database to find
	specified accession numbers and output corresponding entry names
	with their definitions.

scandb db-name [-1] [-o] {['entry'...]|[-a '#acc'...]}
	Scan the "db-name" database to find specified entries or accession
	numbers and output those entries.
	Options:
	-1	'Entry' or '#acc' may specify multiple entries in the DB.
	-o	The order of arguments is not significant; the order of entries
		output may not be in the order specified in the command line.

Available databases:
	db-name = gb | embl | ddbj | gp | swiss | pir | prf

	gb or genbank:	GenBank DNA database
			Regular release and new entries which are updated
			twice a day.
	embl:		EMBL DNA database; regular release + new entries
	ddbj:		DDBJ DNA database; regular release + new entries
			It is included in the GenBank and EMBL DBs.
	gp or genpept:	GenBank Gene Product Database;
			protein database translated from GenBank DNA database
	swiss:		SwissProt protein database
	pir:		PIR protein database
	prf:		Protein Research Foundation peptide database

Examples:
   "|" is not ";" but "bar".

	scandir gb -i 'oncogene' 'human'		# oncogene and human
	scanjou	gb 'J. Biochem.' '107:316-323' '(1990)'	# case insensitive
	scanaut	gb 'Miyazawa,S.'			# case insensitive
	scanacc gb 'M11391' 'd00611'			# case insensitive
	scandb gb 'AGMERLTR1' 'musbas'			# case insensitive
	scandb gb -a 'M11391' 'd00611'			# case insensitive
	scandb gb 'ECO.*'				# all ECO.*

	scandir gb -i ' e.*coli' | scandb gb	# try to collect E. coli
	scanjou gb 'J. Biochem,' '(1991)' | scandb gb	

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