<?xml version="1.0" encoding="ISO-8859-1"?>
<GelML xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
		xsi:schemaLocation="http://www.psidev.info/gelml/GelML-v1_1.xsd"
		xmlns:fuge="http://fuge.sourceforge.net/fuge/1.0"
		xmlns="http://www.psidev.info/gelml/1.0"
		identifier="ExPASy:GelML:286">

<cvList>
<cv fullName="PSI sepCV" URI="https://psidev.svn.sourceforge.net/svnroot/psidev/psi/sepcv/trunk/sep.obo" id="sepCV" version="1.0"/>
<cv fullName="Unit Ontology" URI="https://psidev.svn.sourceforge.net/svnroot/psidev/psi/sepcv/trunk/unit.obo" id="UO" version="1.2"/>
</cvList>


 
		
<Gel2DExperiment id="ex127:Gel2DExperiment286"
	name="Lactobacillus acidophilus NCFM reference proteome (pI 6-11)" date="2009-09-01">
	<electrophoresisType>
		<cvParam cvRef="sepCV" accession="sep:00155" name="Two-Dimensional electrophoresis"/>
	</electrophoresisType>
	<ContactRole Contact_ref="ex127:Contact51">
        <role>
		<cvParam cvRef="sepCV" accession="sep:00035" name="principle investigator"/>
		</role>
	</ContactRole>








   



   

	
<Gel2DApplication Gel2DProtocol_ref="ex127:Gel2DProtocol286" id="ex127:Gel2DAppli286">


	
	
	<inputFirstDimension>
		


<Gel id="ex127:Gel1" name="Isoelectric focusing (IEF)" separationDimension="1">
	<gelType>IPG strip,Denaturing</gelType>
	
	<GelManufactureApplication>
		
		<make name="GE life sciences"/>
		<model name="Immobiline DryStrip pH 6-11, 18 cm">
			<userParam name="Model number" value="17-6001-97"/>
		</model>
		<userParam name="Batch number" value="unknown"/>
		
	</GelManufactureApplication>
	<Dimensions>
		
		
		<x value="180" unitName="millimeter" unitAccession="UO:0000082" unitCvRef="UO"/>
		<y value="3" unitName="millimeter" unitAccession="UO:0000082" unitCvRef="UO"/>
		<z value="0.5" unitName="millimeter" unitAccession="UO:0000082" unitCvRef="UO"/>
	</Dimensions>
	
	<percentAcrylamide>
		<AtomicValue><PropertyValue value="4"/></AtomicValue>
	</percentAcrylamide>
	<AcrylamideToCrossLinker acrylamide="4" crossLinker="3">
		<crossLinkerType>
			<cvParam cvRef="sepCV" accession="sep:00190" name="Bisacrylamide"/>
		</crossLinkerType>
	</AcrylamideToCrossLinker>	
</Gel>

	</inputFirstDimension>
	
   
	
	
	
	<inputSecondDimension>
		


<Gel id="ex127:Gel2" name="Sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE)" separationDimension="2">
	<gelType>slab gel,Denaturing</gelType>
	
	<GelManufactureApplication>
	
		<protocolText>
		Reagents Quantity for 900 ml of a 12.5% gel
Acrylamide/PAGE 40% (w/v)= 281.25 ml
PlusOne Methylenebisacrylamide 2% (w/v)= 150.3 ml
Tris (1.5 M, pH 8.8)= 225 ml
10% (w/v) SDS = 9.0 ml
10% (v/v) TEMED = 1.24 ml
10% (w/v) APS = 9.0 ml
Make up to 900 ml with distilled water
		</protocolText>
		
	</GelManufactureApplication>
	<Dimensions>
		
		
		<x value="27" unitName="centimeter" unitAccession="UO:0000015" unitCvRef="UO"/>
		<y value="21" unitName="centimeter" unitAccession="UO:0000015" unitCvRef="UO"/>
		<z value="0.015" unitName="centimeter" unitAccession="UO:0000015" unitCvRef="UO"/>
	</Dimensions>
	
	<percentAcrylamide>
		<AtomicValue><PropertyValue value="12.5"/></AtomicValue>
	</percentAcrylamide>
	<AcrylamideToCrossLinker acrylamide="37.5" crossLinker="1">
		<crossLinkerType>
			<cvParam cvRef="sepCV" accession="sep:00190" name="Bisacrylamide"/>
		</crossLinkerType>
	</AcrylamideToCrossLinker>	
</Gel>

	</inputSecondDimension>
	
   

<output>
<Gel2D id="ex127:Gel2D286">

    
	
	
    
	<PHRange dimension="1">
		<Range>
			<lowerLimit><PropertyValue value="200"/></lowerLimit>
			<upperLimit><PropertyValue value="3"/></upperLimit>
		</Range>
		<rangeType><cvParam cvRef="sepCV" accession="" name=""/></rangeType>
	</PHRange>
	

    
	
	
    
	
	<MolWeightRange dimension="2">
        <Range>
            <lowerLimit><PropertyValue value="" unitName="kilodaltons" unitCvRef="UO" unitAccession="UO:0000222"/></lowerLimit>
            <upperLimit><PropertyValue value="7" unitName="kilodaltons" unitCvRef="UO" unitAccession="UO:0000222"/></upperLimit>
        </Range>
		<rangeType><cvParam cvRef="sepCV" accession="sep:00019" name="logarithmic distribution"/></rangeType>
	</MolWeightRange>
	

</Gel2D>
</output>
<ChildProtocolApplications>
<!-- TO BE DONE -->

</ChildProtocolApplications>
</Gel2DApplication>

	

<ImageAcquisitionApplication Image_ref="ex127:Image117" Material_ref="ex127:Gel2D286" ImageAcquisitionProtocol_ref="ex127:ImageAcquisitionProtocol43" id="ex127:ImageAcquisitionApplication154">
	
	<protocolText>Default settings with 48 bit color and 16 bit grey scale scans with atleast 300 dpi</protocolText>
	
</ImageAcquisitionApplication>



	
</Gel2DExperiment>






	
		
		
	
<GelMLDataCollection>
<Image location="http://miapegeldb.expasy.org/download/405/hBGJeKOt/" id="ex127:Image117" name=" Lactobacillus acidophilus NCFM reference proteome (pI 6-11)" bitDepth="48 bits (BrilliantColor)" dimensionX="1070" dimensionY="1211">
<resolution>
<AtomicValue>
    
        
    
	<PropertyValue value="1000" unitAccession="UO:0000242" unitName="pixels per inch" unitCvRef="UO"/>
</AtomicValue>
</resolution>
<fileFormat>
	
		
	
	<cvParam cvRef="sepCV" accession="sep:00053" name="TIFF"/>
</fileFormat>
<userParam name="Standard image orientation" value="Yes"/>
</Image>
</GelMLDataCollection>




















<GelMLProtocolCollection>

    <ElectrophoresisProtocol
name="FirstDimension"
id="ex127:ElectrophoresisProtocol324" >
<protocolText>[Protocol text in here]</protocolText>
<AddBufferAction id="ex127:AddBufferAction" SubstanceMixtureProtocol_ref="ex127:SubstanceMixtureProtocol0"/>
</ElectrophoresisProtocol>

    <ElectrophoresisProtocol
name="SecondDimension"
id="ex127:ElectrophoresisProtocol325" >
<protocolText>[Protocol text in here]</protocolText>
<AddBufferAction id="ex127:AddBufferAction" SubstanceMixtureProtocol_ref="ex127:SubstanceMixtureProtocol0"/>
</ElectrophoresisProtocol>

    
<ImageAcquisitionProtocol id="ex127:ImageAcquisitionProtocol43">
	<equipment id="ex127:GenericEquipment49" name="Scan maker 9800XL">
		<userParam name="type of equipment" value="laser scanner" cvRef="sepCV" accession="sep:00100" />
		<userParam name="make" value="Microtek scanner"/>
		
		<userParam name="version" value="9800XL"/>
		
	</equipment>
	<software id="ex127:GenericSoftware135" name="Silverfast Ai" version="version 6"/>
	<AutoCalibration id="ex127:AutoCalib0">
		<BooleanValue value="false"/>
	</AutoCalibration>
	
	
</ImageAcquisitionProtocol>


</GelMLProtocolCollection>

<AuditCollection>

	<Person
id="ex127:Contact51"
name="Susanne Jacobsen"
email="sja@bio.dtu.dk"
address="Department of Systems Biology
Enzyme and Protein Chemistry
Technical University of Denmark
Søltofts Plads
Building 224, room 208
2800 Kgs. Lyngby
Denmark">
<affiliations
Organization_ref="ex127:Organization41"/>
</Person>

	<affiliations
Organization_ref="ex127:Organization41"
name="Technical University of Denmark"/>

</AuditCollection>
</GelML>



