SRS databases

From Wiki CEINGE

Revision as of 19:13, 1 June 2007 (edit) Leandra (Talk | contribs) (New page: ;BLOCKS :Protein Domains ;CD40LBASE :CD40 mutations ;EMBL :DNA Sequence Database ;EMBLCONTIGS :Contigs only ;EMBLTPA :Third part annotation sequences ;EMBLWGS :WGS DNA sequences ;ENSEMBL ...) ← Previous diff		Current revision (00:59, 28 June 2007) (edit) (undo) Giovanni (Talk | contribs)
(34 intermediate revisions not shown.)
Line 1:		Line 1:
-	;BLOCKS :Protein Domains	+	Aboout 70 DBs are locally mantained and available at CEINGE. [[SRS]] is used as the main web interface for accessing to these biological databases.
-	;CD40LBASE :CD40 mutations	+	An automatic procedure, specifically developed, takes care to mantain the databases up to date: every night public servers are checked and, in case of new releases, the new file data are downloaded and automatically indexed.<br>
-	;EMBL :DNA Sequence Database	+	Through SRS, more than 60 public databases are available at CEINGE, stored as flat-files on a dedicated file server, for a total of over 2 terabyte of HD space.
-	;EMBLCONTIGS :Contigs only	+
-	;EMBLTPA :Third part annotation sequences	+	The complete list of all the available databases on SRS is findable [http://bioinfo.ceinge.unina.it/srs7131bin/cgi-bin/wgetz?_AUTHS_-AUTHE_-page+databanks here].
-	;EMBLWGS :WGS DNA sequences	+
-	;ENSEMBL :Human chromosomes	+	===Available databases===
-	;ENSEMBL_HUM_CDNA :Human cDNA	+	Practically all the most used public databases are available, such as:
-	;ENSEMBL_HUM_PEP :Human proteins	+	*[[DNA databases]]
-	;ENTREZGENE:Genes Classification database	+	*[[Protein databases]]
-	;ENZYME :Enzyme Classification	+	*[[Gene-related databases]]
-	;EPD :Eukaryotic Promoter	+	*[[Protein-related databases]]
-	;FANTOM :Mouse cDNA	+	*[[Ontology databases]]
-	;G6PD :G6PD mutations	+	*[[3D structures databases]]
-	;GENETICCODE :Geneic Codes	+	*[[Metabolic pathway databases]]
-	;GO :Ontologies	+	*[[Reference databases]]
-	;GOA :Ontologies	+
-	;HGBASE :SNP database	+	{{footer|footername=footer biotools}}
-	;HSAGENES :Human gene classification	+
-	;IMGT :Immunoglobulins only sequences	+
-	;IMGTHLA :HLA only sequences	+
-	;INTERPRO :Protein Domains	+
-	;IPI :Protein Sequence Database	+
-	;LCOMPOUND:Methabolic Pathways	+
-	;LDLR :LDLR mutations	+
-	;LENZYME:Methabolic Pathways	+
-	;LOCUSLINK :Loci	+
-	;NRL3D :Proteins from PDB	+
-	;OMIM :Mendelian diseases	+
-	;OMIMALLELE :Mendelian diseases alleles	+
-	;P53 :P53 mutations	+
-	;PATHWAY:Methabolic Pathways	+
-	;PDB :Protein structure database	+
-	;PDBFINDER :Protein structure database	+
-	;PFAMA :Protein families	+
-	;PFAMB :Protein families	+
-	;PFAMHMM :Protein families	+
-	;PFAMSEED :Protein families	+
-	;PIR :Protein Sequence Database	+
-	;PRINTS :Protein Domains	+
-	;PRODOM :Protein families	+
-	;PROSITE :Protein Domains	+
-	;PROSITEDOC :Protein Domains	+
-	;REBASE :Restriction Enzymes daabase	+
-	;REMTREMBL :Protein Sequence Database	+
-	;RHDB :Radiation Hybrid Maps	+
-	;RHEXP :Radiation Hybrid Maps	+
-	;RHMAP :Radiation Hybrid Maps	+
-	;RHPANEL :Radiation Hybrid Maps	+
-	;SPTREMBL :Protein Sequence Database	+
-	;SWALL :Protein Sequence Database	+
-	;SWISSPFAM :Protein families	+
-	;SWISSPROT :Protein Sequence Database	+
-	;TAXONOMY :Organism Taxonomy	+
-	;TFCELL :Transcriptional Factor	+
-	;TFCLASS :Transcriptional Factor	+
-	;TFFACTOR :Transcriptional Factor	+
-	;TFGENE :Transcriptional Factor	+
-	;TFMATRIX :Transcriptional Factor	+
-	;TFSITE :Transcriptional Factor	+
-	;TREMBL :Translation of EMBL coding	+
-	;TREMBLNEW :Protein Sequence Database	+
-	;UNIGENE :Gene database	+
-	;UNIPROT:Protein Sequence Database	+
-	;UNIREF:Protein Sequence Database	+
-	;UNISEQ :DNA Sequence Database	+

---

Current revision

Aboout 70 DBs are locally mantained and available at CEINGE. SRS is used as the main web interface for accessing to these biological databases. An automatic procedure, specifically developed, takes care to mantain the databases up to date: every night public servers are checked and, in case of new releases, the new file data are downloaded and automatically indexed.
Through SRS, more than 60 public databases are available at CEINGE, stored as flat-files on a dedicated file server, for a total of over 2 terabyte of HD space.

The complete list of all the available databases on SRS is findable here.

[edit] Available databases

Practically all the most used public databases are available, such as:

• DNA databases
• Protein databases
• Gene-related databases
• Protein-related databases
• Ontology databases
• 3D structures databases
• Metabolic pathway databases
• Reference databases

---

Bioinformatics: Bioinfo Services: Bioinfo programs - Databases - Local facilities - Research DB