<?xml version="1.0" encoding="UTF-8"?>
<Module>
<ModulePrefs 
	title="PUBMED Search" 
	description="Runs searches via Pubmed databases."
	author="Julien FERNANDEZ" 
	author_location="Paris, FRANCE"
	author_email="fjulien@ifrance.com"
	height="260"
>
	<Locale lang="fr" country="fr" />
</ModulePrefs>

<UserPref name="datab" display_name="DataBase" default_value="pubmed" datatype="enum" required="true">
	<EnumValue value="pubmed" display_value="PubMed" />
	<EnumValue value="protein" display_value="Protein" />
	<EnumValue value="nucleotide" display_value="Nucleotide" />
	<EnumValue value="nuccore" display_value="--CoreNucleotide" />
	<EnumValue value="nucgss" display_value="--GSS" />
	<EnumValue value="nucest" display_value="--EST" />
	<EnumValue value="structure" display_value="Structure" />
	<EnumValue value="genome" display_value="Genome" />
	<EnumValue value="books" display_value="Books" />
	<EnumValue value="cancerchromosomes" display_value="CancerChromosomes" />
	<EnumValue value="cdd" display_value="Conserved Domains" />
	<EnumValue value="domains" display_value="3D Domains" />
	<EnumValue value="gene" display_value="Gene" />
	<EnumValue value="genomeprj" display_value="Genome Project" />
	<EnumValue value="gensat" display_value="GENSAT" />
	<EnumValue value="geo" display_value="GEO Profiles" />
	<EnumValue value="gds" display_value="GEO DataSets" />
	<EnumValue value="homologene" display_value="HomoloGene" />
	<EnumValue value="journals" display_value="Journals" />
	<EnumValue value="mesh" display_value="MeSH" />
	<EnumValue value="ncbisearch" display_value="NCBI Web Site" />
	<EnumValue value="nlmcatalog" display_value="NLM Catalog" />
	<EnumValue value="omia" display_value="OMIA" />
	<EnumValue value="omim" display_value="OMIM" />
	<EnumValue value="pmc" display_value="PMC" />
	<EnumValue value="popset" display_value="PopSet" />
	<EnumValue value="probe" display_value="Probe" />
	<EnumValue value="pcassay" display_value="PubChem BioAssay" />
	<EnumValue value="pccompound" display_value="PubChem Compound" />
	<EnumValue value="pcsubstance" display_value="PubChem Substance" />
	<EnumValue value="snp" display_value="SNP" />
	<EnumValue value="taxonomy" display_value="Taxonomy" />
	<EnumValue value="unigene" display_value="UniGene" />
	<EnumValue value="unists" display_value="UniSTS" />
</UserPref> 

<UserPref name="ENTREZ_QUERY" display_name="Select from : " default_value="pubmed" datatype="enum" required="true">
	<EnumValue value="All organisms" display_value="All organisms" />
	<EnumValue value="Viruses [ORGN]" display_value="Viruses [ORGN]" />
	<EnumValue value="Archaea [ORGN]" display_value="Archaea [ORGN]" />
	<EnumValue value="Bacteria [ORGN]" display_value="Bacteria [ORGN]" />
	<EnumValue value="Eukaryota [ORGN]" display_value="Eukaryota [ORGN]" />
	<EnumValue value="Viridiplantae [ORGN]" display_value="Viridiplantae [ORGN]" />
	<EnumValue value="Fungi [ORGN]" display_value="Fungi [ORGN]" />
	<EnumValue value="Metazoa [ORGN]" display_value="Metazoa [ORGN]" />
	<EnumValue value="Arthropoda [ORGN]" display_value="Arthropoda [ORGN]" />
	<EnumValue value="Vertebrata [ORGN]" display_value="Vertebrata [ORGN]" />
	<EnumValue value="Mammalia [ORGN]" display_value="Mammalia [ORGN]" />
	<EnumValue value="Rodentia [ORGN]" display_value="Rodentia [ORGN]" />
	<EnumValue value="Primates [ORGN]" display_value="Primates [ORGN]" />
	<EnumValue value="" display_value="-------------------" />

</UserPref>

<UserPref name="ENTREZ_DATABASE" display_name="Chose DataBase : " default_value="nr" datatype="enum">
	<EnumValue value="nr" display_value="nr" />
	<EnumValue value="refseq_rna" display_value="refseq_rna" />
	<EnumValue value="refseq_genomic" display_value="refseq_genomic" />
	<EnumValue value="est" display_value="est" />
	<EnumValue value="est_human" display_value="est_human" />
	<EnumValue value="est_mouse" display_value="est_mouse" />
	<EnumValue value="est_others" display_value="est_others" />
	<EnumValue value="gss" display_value="gss" />
	<EnumValue value="htgs" display_value="htgs" />
	<EnumValue value="pat" display_value="pat" />
	<EnumValue value="pdb" display_value="pdb" />
	<EnumValue value="month" display_value="month" />
	<EnumValue value="dbsts" display_value="dbsts" />
	<EnumValue value="chromosome" display_value="chromosome" />
	<EnumValue value="wgs" display_value="wgs" />
	<EnumValue value="env_nt" display_value="env_nt" />
</UserPref>
<UserPref name="taxon" display_name="Taxonomic group" default_value="" datatype="enum" >
	<EnumValue value="" />
	<EnumValue value="Bacteria" />
	<EnumValue value="Archaea" />
	<EnumValue value="Viruses" />
	<EnumValue value="Eukaryota" />
	<EnumValue value="Viridiplantae" />
	<EnumValue value="Fungi" />
	<EnumValue value="Metazoa" />
	<EnumValue value="Arthropoda" />
	<EnumValue value="Vertebrata" />
	<EnumValue value="Mammalia" />
	<EnumValue value="Rodentia" />
	<EnumValue value="Primates" />
</UserPref> 
<UserPref name="curated" display_name="Curated entries only?" datatype="bool"/>

<Content type="html">

<![CDATA[
<style type="text/css">
	#button
		{
		border: 1px solid #3366CC;
		background: #E5ECF9;
		color: #000088;
		}
	#buttonBlast
		{
		border: 1px solid #3366CC;
		background: #b9ea45;
		color: #000088;
		}
	div#separation
		{
		background: #b9ea45;
		width: 100%;
		}

</style>

<p>
	<form method="POST" action="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi" target="_blank" name="frmQueryBox">
		<input name="cmd" type="hidden" value="Search">
		<input name="db" type="hidden" value="__UP_datab__" /> 
                <input name="term" type=text style="width: 80%">&nbsp;<input id ="button" type="submit" value="Search" style="margin-top: 0.5em">

	</form>
</p>
<p><div  id="separation">&nbsp;</div></p>

<p>

	<form method="POST" action="http://www.ncbi.nlm.nih.gov/blast/Blast.cgi?CMD=Web&ALIGNMENTS=50&ALIGNMENT_VIEW=Pairwise&AUTO_FORMAT=Semiauto&CLIENT=web&DESCRIPTIONS=100&EXPECT=10&FILTER=L&FORMAT_BLOCK_ON_RESPAGE=None&FORMAT_OBJECT=Alignment&FORMAT_TYPE=HTML&GET_SEQUENCE=on&LAYOUT=TwoWindows&MASK_CHAR=2&MASK_COLOR=1&NCBI_GI=on&PAGE=Nucleotides&PROGRAM=blastn&SERVICE=plain&SET_DEFAULTS=Yes&SET_DEFAULTS.x=32&SET_DEFAULTS.y=9&SHOW_LINKOUT=on&SHOW_OVERVIEW=on&WORD_SIZE=11&END_OF_HTTPGET=Yes" target="_blank" name="blast">
		<input name="ENTREZ_QUERY" type="hidden" value="__UP_ENTREZ_QUERY__" />
		<input name="FORMAT_ENTREZ_QUERY" type="hidden" value="__UP_ENTREZ_QUERY__" />
		<input name="DATABASE" type="hidden" value="__UP_ENTREZ_DATABASE__" />
                <textarea name="QUERY" style="width: 100%" rows="2"></textarea>
		<br />
		<input id ="buttonBlast" type="submit" value="Blast" style="margin-top: 0.5em">
	</form>
</p>
<p><div  id="separation">&nbsp;</div></p>
<p>
	<form method="GET" action="http://www.expasy.org/cgi-bin/blast.pl" target="_top" name="form">
		<input type="hidden" name="protdb_section" value="__UP_taxon__" />
		<input type="hidden" name="curated" value="__UP_curated__" />
		<input type="hidden" name="dbtype" value="UniProtKB" />
		<textarea name="sequence" style="width: 100%" rows="5"></textarea>
		<br />
		<input type="submit" value="Run" style="margin-top: 0.5em">
	</form>
</p>
]]>
</Content>
</Module>







