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en:show_database_entries [2013/06/09 10:09] (current)
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 +~~NOTOC~~
 +
 +
 +<select Languages>​
 +bio:​show_database_entries|日本語
 +bio:​en:​show_database_entries|English
 +</​select>​
 +
 +
 +====== How to show an entry from databases ======
 +
 +In this Wiki, you can directly create a link for some scientific database by using '​Interwiki mechanism'​ of DokuWiki.
 +
 +====NCBI====
 +^  Database ​ ^  Description ​ ^  ID  ^  How to write  ^  How displayed ​ ^
 +^  PubMed ​ |Journals from PubMed ​ |  PMID  |  %%[[pubmed>​17803915]]%% ​ |  [[pubmed>​17803915]] ​ |
 +^Nucleotide ​ | ||||
 +^  Core|Nucleotide core  |  Gi  |  %%[[nuccore>​156766568]]%% ​ |  [[nuccore>​156766568]] ​ |
 +^  EST|EST ​ |  Gi  |  %%[[nucest>​161594556]]%% ​ |  [[nucest>​161594556]] ​ |
 +^  GSS|GSS ​ |  Gi  |  %%[[nucgss>​158853604]]%% ​ |  [[nucgss>​158853604]] ​ |
 +^  Protein ​ |Protein from Gi  |  Gi  |  %%[[protein>​156766569]]%% ​ |  [[protein>​156766569]] ​ |
 +^  Genome ​ |Genome map view  |  Taxon ID  |  %%[[genomemap>​420245]]%% ​ |  [[genomemap>​420245]] ​ |
 +^  MeSH  |Medical Subject Heading Terms| ​ MeSH ID  |  %%[[mesh>​68013012]]%% ​ |  [[mesh>​68013012]] ​ |
 +^  PubChem ​ |Chemical property ​ |  CID  |  %%[[pubchem>​5957]]%% ​ |  [[pubchem>​5957]] ​ |
 +^  Taxonomy ​ |Taxonomy lineage ​ |  TaxID  |  %%[[taxonomy>​10090]]%% ​ |  [[taxonomy>​10090]] ​ |
 +====Gene====
 +
 +====Protein====
 +^  Database ​ ^  Description ​ ^  ID  ^  How to write  ^  How displayed ​ ^
 +^  PDB  |Protein structure ​ |  PDB-ID ​ |  %%[[pdb>​2J4C]]%% ​ |  [[pdb>​2J4C]] ​ |
 +^  Enzyme ​ |Expasy enzyme database ​ |  EC number ​ |  %%[[enzyme>​3.5.2.6]]%% ​ |  [[enzyme>​3.5.2.6]] ​ |
 +^  Brenda ​ |Comprehensive enzyme database ​ |  EC number ​ |  %%[[BrendaEC>​3.5.2.6]]%% ​ |  [[BrendaEC>​3.5.2.6]] ​ |
 +^  Brenda ​ |Comprehensive enzyme database ​ |  Enzyme name  |  %%[[BrendaName>​beta-lactamase]]%% ​ |  [[BrendaName>​beta-lactamase]] ​ |
 +^  InterPro ​ |Protein family/​domain| ​ IPRO accession ID  |  %%[[interpro>​IPR001466]]%% ​ |  [[interpro>​IPR001466]] ​ |
 +^  UniProt ​ |Universal protein knowledgebase ​ |  UniProt entry name  |  %%[[uniprot>​LACTB_HUMAN]]%% ​ |  [[uniprot>​LACTB_HUMAN]] ​ |
 +
 +====Products====
 +^  Database ​ ^  Description ​ ^  ID  ^  How to write  ^  How displayed ​ ^
 +^  Merck products ​ |Products of Merck  |  ID  |  %%[[merck>​04-12-1065]]%% ​ |  [[merck>​04-12-1065]] ​ |
 +
 +====Symplus====
 +^symplus ​ |Symplus Wiki  |  Page name  |  %%[[symplus>​bio:​en:​buffer_solution]]%% ​ |  [[symplus>​bio:​en:​buffer_solution]] ​ |
 +^labwiki ​ |Lab-Wiki ​ |  Page name  |  %%[[labwiki>​start]]%% ​ |  [[labwiki>​start]] ​ |
 +
 +
 +
 +{{tag>​HowToWrite DokuWiki Database}}
 +
 +
 +====== for DokuWiki owner ======
 +You can add this functionality by adding some lines to your '​conf/​interwiki.conf'​. Insert the following code into your '​conf/​interwiki.conf'​.
 +
 +<​code>​
 +#​---------------------------------------------
 +#
 +# Symplus InterWiki for lifescience
 +# @author Ikuo Obataya (I.Obataya[at]gmail.com)
 +#
 +#​---------------------------------------------
 +# NIH
 +#​---------------------------------------------
 +pubmed ​       http://​www.ncbi.nlm.nih.gov/​sites/​entrez?​Db=pubmed&​Cmd=ShowDetailView&​TermToSearch=
 +gene          http://​www.ncbi.nlm.nih.gov/​entrez/​query.fcgi?​db=gene&​cmd=retrieve&​dopt=default&​rn=1&​list_uids=
 +nuccore ​      ​http://​www.ncbi.nlm.nih.gov/​entrez/​viewer.fcgi?​db=nuccore&​id=
 +nucgss ​       http://​www.ncbi.nlm.nih.gov/​entrez/​viewer.fcgi?​db=nucgss&​id=
 +nucest ​       http://​www.ncbi.nlm.nih.gov/​entrez/​viewer.fcgi?​db=nucest&​id=
 +protein ​      ​http://​www.ncbi.nlm.nih.gov/​sites/​entrez?​Db=protein&​Cmd=ShowDetailView&​TermToSearch=
 +genomemap ​    ​http://​www.ncbi.nlm.nih.gov/​mapview/​maps.cgi?​taxid=
 +mesh          http://​www.ncbi.nlm.nih.gov/​sites/​entrez?​Db=mesh&​Cmd=ShowDetailView&​TermToSearch=
 +omim          http://​www.ncbi.nlm.nih.gov/​Omim/​getmap.cgi?​chromosome=
 +pubchem ​      ​http://​pubchem.ncbi.nlm.nih.gov/​summary/​summary.cgi?​cid=
 +taxonomy ​     http://​www.ncbi.nlm.nih.gov/​Taxonomy/​Browser/​wwwtax.cgi?​id=
 +dailymed ​     http://​dailymed.nlm.nih.gov/​dailymed/​drugInfo.cfm?​id=
 +#​---------------------------------------------
 +# Gene
 +#​---------------------------------------------
 +
 +#​---------------------------------------------
 +# Protein
 +#​---------------------------------------------
 +enzyme ​       http://​www.expasy.org/​enzyme/​
 +BrendaEC ​     http://​www.brenda-enzymes.info/​php/​result_flat.php4?​ecno=
 +BrendaName ​   http://​www.brenda-enzymes.info/​php/​search_result.php4?​a=9&​T%5B2%5D=2&​Search=Search&​l=10&​RNV=1&​RN=&​T%5B0%5D=2&​W%5B1%5D=&​T%5B1%5D=2&​W%5B2%5D=
 +interpro ​     http://​www.ebi.ac.uk/​interpro/​DisplayIproEntry?​ac=
 +uniprot ​      ​http://​www.ebi.uniprot.org/​uniprot-srv/​uniProtView.do?​proteinId=
 +pdb           ​http://​www.rcsb.org/​pdb/​explore.do?​structureId=
 +#​---------------------------------------------
 +# Products
 +#​---------------------------------------------
 +merck         ​http://​www.merckbiosciences.co.uk/​product/​
 +#​---------------------------------------------
 +# Symplus
 +#​---------------------------------------------
 +symplus ​      ​http://​wiki.symplus.co.jp/​doku.php?​id=
 +labwiki ​      ​http://​lab-wiki.org/​doku.php?​id=
 +#​---------------------------------------------
 +</​code>​