org.sigpath.datamodel
Class Databases

java.lang.Object
  org.sigpath.datamodel.Databases

public final class Databases
extends Object

Represents databases known to SigPath. The constants should be used whenever a reference to a given database is needed.

Version:

$Revision: 7019 $

Author:

Fabien Campagne

See Also:

ExternalReferences

Field Summary

static String	AARHUS_GHENT
static String	ANU_2DPAGE
static String	ARAC_XYLS
static String	BLOCKS
static String	COMPLUYEAST_2DPAGE
static Map	DATABASE_MAP Used to map databases to database display names.
static String	DDBJ
static String	DICTYDB
static String	DIP
static String	ECO2DBASE
static String	ECOCYC
static String	ECOGENE
static String	EMBL
static String	ENSEMBLE
static String	ENZYME
static String	ENZYME_COMMISSION See sample URL for EC 1.1.1.
static String	FLYBASE
static String	GCRDB
static String	GENBANK See NCBI web server.
static String	GENECARDS
static String	GENECENSUS
static String	GENELYNX
static String	GENEWAYS
static String	GLYCOSUITEDB
static String	GPCRDB
static String	GRAMENE
static String	HIV
static String	HSC_2DPAGE
static String	HSSP
static String	HUGE
static String	IMGT
static String	INTERPRO
static String	LEPROMA
static String	LISTILIST
static String	MAIZE_2DPAGE
static String	MAIZEDB
static String	MENDEL
static String	MEROPS
static String	MGD
static String	MICADO
static String	MIM
static String	MODBASE
static String	MYPULIST
static String	NCIOPEN See NCBI Open download.
static String	NRSUB
static String	NUCLEARDB
static String	PDB
static String	PFAM
static String	PHCI_2DPAGE
static String	PIR
static String	PMMA_2DPAGE
static String	PRESAGE
static String	PRINTS
static String	PRODOM
static String	PROSITE
static String	PROTOMAP
static String	REBASE
static String	SGD
static String	SIENA_2DPAGE
static String	SIGPATH See http://www.sigpath.org/.
static String	SMART
static String	SOURCE
static String	STYGENE
static String	SUBTILIST
static String	SWISS_2DPAGE
static String	SWISSPROT See Expasy web server.
static String	TIGR
static String	TIGRFAMS
static String	TRANSFAC
static String	TUBERCULIST
static Map	URL_MAP Used to map databases to URLs.
static String	WORMPEP
static String	YPD
static String	ZFIN

Method Summary

static String	getDisplayName(String name) Retrieves the display name for a database given the database name.
static String	getURL(String name, String ac) Retrieves the url for a database given the database name and optional ac.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

SIGPATH

public static final String SIGPATH

See http://www.sigpath.org/.

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Constant Field Values

SWISSPROT

public static final String SWISSPROT

See Expasy web server.

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Constant Field Values

GENBANK

public static final String GENBANK

See NCBI web server.

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Constant Field Values

NCIOPEN

public static final String NCIOPEN

See NCBI Open download.

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Constant Field Values

ENZYME_COMMISSION

public static final String ENZYME_COMMISSION

See sample URL for EC 1.1.1.

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Constant Field Values

DATABASE_MAP

public static final Map DATABASE_MAP

Used to map databases to database display names.

URL_MAP

public static final Map URL_MAP

Used to map databases to URLs.

EMBL

public static final String EMBL

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Constant Field Values

INTERPRO

public static final String INTERPRO

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Constant Field Values

PROSITE

public static final String PROSITE

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Constant Field Values

PFAM

public static final String PFAM

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Constant Field Values

MEROPS

public static final String MEROPS

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Constant Field Values

PRODOM

public static final String PRODOM

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Constant Field Values

SMART

public static final String SMART

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Constant Field Values

MAIZEDB

public static final String MAIZEDB

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Constant Field Values

SGD

public static final String SGD

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Constant Field Values

HSSP

public static final String HSSP

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Constant Field Values

PIR

public static final String PIR

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Constant Field Values

MENDEL

public static final String MENDEL

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Constant Field Values

SUBTILIST

public static final String SUBTILIST

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Constant Field Values

PRINTS

public static final String PRINTS

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Constant Field Values

FLYBASE

public static final String FLYBASE

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Constant Field Values

WORMPEP

public static final String WORMPEP

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Constant Field Values

MGD

public static final String MGD

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Constant Field Values

DICTYDB

public static final String DICTYDB

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Constant Field Values

MIM

public static final String MIM

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Constant Field Values

AARHUS_GHENT

public static final String AARHUS_GHENT

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Constant Field Values

GCRDB

public static final String GCRDB

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Constant Field Values

SWISS_2DPAGE

public static final String SWISS_2DPAGE

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Constant Field Values

TIGR

public static final String TIGR

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Constant Field Values

ECOGENE

public static final String ECOGENE

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Constant Field Values

ZFIN

public static final String ZFIN

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Constant Field Values

PDB

public static final String PDB

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Constant Field Values

TUBERCULIST

public static final String TUBERCULIST

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Constant Field Values

HSC_2DPAGE

public static final String HSC_2DPAGE

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Constant Field Values

ANU_2DPAGE

public static final String ANU_2DPAGE

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Constant Field Values

ARAC_XYLS

public static final String ARAC_XYLS

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Constant Field Values

BLOCKS

public static final String BLOCKS

See Also:

Constant Field Values

COMPLUYEAST_2DPAGE

public static final String COMPLUYEAST_2DPAGE

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Constant Field Values

DDBJ

public static final String DDBJ

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Constant Field Values

DIP

public static final String DIP

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Constant Field Values

ECO2DBASE

public static final String ECO2DBASE

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Constant Field Values

ECOCYC

public static final String ECOCYC

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Constant Field Values

ENSEMBLE

public static final String ENSEMBLE

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Constant Field Values

ENZYME

public static final String ENZYME

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Constant Field Values

GENECARDS

public static final String GENECARDS

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Constant Field Values

GENECENSUS

public static final String GENECENSUS

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Constant Field Values

GENEWAYS

public static final String GENEWAYS

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Constant Field Values

GENELYNX

public static final String GENELYNX

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Constant Field Values

GLYCOSUITEDB

public static final String GLYCOSUITEDB

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Constant Field Values

GPCRDB

public static final String GPCRDB

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Constant Field Values

GRAMENE

public static final String GRAMENE

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Constant Field Values

HIV

public static final String HIV

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Constant Field Values

HUGE

public static final String HUGE

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Constant Field Values

IMGT

public static final String IMGT

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Constant Field Values

LEPROMA

public static final String LEPROMA

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Constant Field Values

LISTILIST

public static final String LISTILIST

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Constant Field Values

MAIZE_2DPAGE

public static final String MAIZE_2DPAGE

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Constant Field Values

MICADO

public static final String MICADO

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Constant Field Values

MODBASE

public static final String MODBASE

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Constant Field Values

MYPULIST

public static final String MYPULIST

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Constant Field Values

NRSUB

public static final String NRSUB

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Constant Field Values

NUCLEARDB

public static final String NUCLEARDB

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Constant Field Values

PHCI_2DPAGE

public static final String PHCI_2DPAGE

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Constant Field Values

PMMA_2DPAGE

public static final String PMMA_2DPAGE

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Constant Field Values

PRESAGE

public static final String PRESAGE

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Constant Field Values

PROTOMAP

public static final String PROTOMAP

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Constant Field Values

REBASE

public static final String REBASE

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Constant Field Values

SIENA_2DPAGE

public static final String SIENA_2DPAGE

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Constant Field Values

SOURCE

public static final String SOURCE

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Constant Field Values

TIGRFAMS

public static final String TIGRFAMS

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Constant Field Values

TRANSFAC

public static final String TRANSFAC

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Constant Field Values

YPD

public static final String YPD

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Constant Field Values

STYGENE

public static final String STYGENE

See Also:

Constant Field Values

Method Detail

getDisplayName

public static String getDisplayName(String name)

Retrieves the display name for a database given the database name.

Parameters:

name - of the database

Returns:

String display name of database

getURL

public static String getURL(String name,
                            String ac)

Retrieves the url for a database given the database name and optional ac.

Parameters:

name - of the database

ac - accession code of the item in the database.

Returns:

String url of database