- Author:
- David Nickerson <nickerso@users.sourceforge.net>
- Date:
- 2015-02-03 18:03:13+13:00
- Desc:
- adding an initial attempt at starting to create a comprehensive renal epithelial cell showing all the possible transporters and annotating them with UniProt terms. Currently this is just a basic start, but will gradually refine and add details. Using encapsulation to indicate location of the transporter on the apical or basolateral membrane, but this probably isn't the best way and should annotate containment, but not sure how to do this in OpenCOR. Also, OpenCOR doesn't provide direct access to UniProt terms for creating the annotations as it is not currently supported via PMR2, so I am manually adding the UniProt annotations. They are correctly displayed in OpenCOR.
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/19f/rawfile/ce9d2edc7bf724ecdd4ee9917967adf49163f613/units/units.xml
<?xml version="1.0" encoding="iso-8859-1"?>
<model name="units" cmeta:id="units" xmlns="http://www.cellml.org/cellml/1.1#"
xmlns:cellml="http://www.cellml.org/cellml/1.1#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#">
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:cmeta="http://www.cellml.org/metadata/1.0#" xmlns:bqs="http://www.cellml.org/bqs/1.0#"
xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description rdf:about="">
<dc:creator rdf:parseType="Resource">
<vCard:N rdf:parseType="Resource">
<vCard:Family>Nickerson</vCard:Family>
<vCard:Given>David</vCard:Given>
</vCard:N>
<vCard:EMAIL rdf:parseType="Resource">
<rdf:value>d.nickerson@auckland.ac.nz</rdf:value>
<rdf:type rdf:resource="http://imc.org/vCard/3.0#internet" />
</vCard:EMAIL>
<vCard:ORG rdf:parseType="Resource">
<vCard:Orgname>The University of Auckland</vCard:Orgname>
<vCard:Orgunit>Bioengineering Institute</vCard:Orgunit>
</vCard:ORG>
</dc:creator>
<dcterms:created rdf:parseType="Resource">
<dcterms:W3CDTF>2004-12-27</dcterms:W3CDTF>
</dcterms:created>
<dc:publisher>
Bioengineering Institute, The University of Auckland
</dc:publisher>
</rdf:Description>
<rdf:Description rdf:about="#units">
<dc:title>
Some useful units.
</dc:title>
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
A CellML description of some of the common units used in whole cell
models.
</rdf:value>
<dc:creator rdf:parseType="Resource">
<vCard:FN>David Nickerson</vCard:FN>
</dc:creator>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<units name="mm">
<unit units="metre" prefix="milli" />
</units>
<units name="cm">
<unit units="metre" prefix="centi" />
</units>
<units name="ng">
<unit units="gram" prefix="nano" />
</units>
<units name="ms">
<unit units="second" prefix="milli" />
</units>
<units name="uA">
<unit units="ampere" prefix="micro" />
</units>
<units name="pA">
<unit units="ampere" prefix="pico" />
</units>
<units name="K">
<unit units="kelvin" />
</units>
<units name="nmol">
<unit units="mole" prefix="nano" />
</units>
<units name="mmsq">
<unit units="mm" exponent="2" />
</units>
<units name="mmcu">
<unit units="mm" exponent="3" />
</units>
<units name="cmsq">
<unit units="cm" exponent="2" />
</units>
<units name="cmcu">
<unit units="cm" exponent="3" />
</units>
<units name="cmsq_per_cmsq">
<unit units="cmsq"/>
<unit units="cmsq" exponent="-1"/>
</units>
<units name="cmcu_per_cmsq">
<unit units="cmcu"/>
<unit units="cmsq" exponent="-1"/>
</units>
<units name="mssq">
<unit units="ms" exponent="2" />
</units>
<units name="mscu">
<unit units="ms" exponent="3" />
</units>
<units name="mV">
<unit units="volt" prefix="milli" />
</units>
<units name="mVsq">
<unit units="mV" exponent="2" />
</units>
<units name="mV_per_ms">
<unit units="mV" />
<unit units="ms" exponent="-1" />
</units>
<units name="mS">
<unit units="siemens" prefix="milli" />
</units>
<units name="mS_per_mmsq">
<unit units="mS" />
<unit units="mm" exponent="-2" />
</units>
<units name="mS_per_mm">
<unit units="mS" />
<unit units="mm" exponent="-1" />
</units>
<units name="uA_per_mmsq">
<unit units="uA" />
<unit units="mm" exponent="-2" />
</units>
<units name="uA_per_cmsq">
<unit units="uA" />
<unit units="cm" exponent="-2" />
</units>
<units name="uA_per_mmcu">
<unit units="uA" />
<unit units="mm" exponent="-3" />
</units>
<units name="nC">
<unit units="coulomb" prefix="nano" />
</units>
<units name="uF">
<unit units="farad" prefix="micro" />
</units>
<units name="uF_per_mmsq">
<unit units="uF" />
<unit units="mm" exponent="-2" />
</units>
<units name="mM">
<unit units="nmol" />
<unit units="mm" exponent="-3" />
</units>
<units name="mM_per_ms">
<unit units="mM" />
<unit units="ms" exponent="-1" />
</units>
<units name="nN">
<unit units="newton" prefix="nano" />
</units>
<units name="mPa">
<unit units="pascal" prefix="milli" />
</units>
<units name="pJ">
<unit units="joule" prefix="pico" />
</units>
<units name="nW">
<unit units="watt" prefix="nano" />
</units>
<units name="nS">
<unit units="siemens" prefix="nano" />
</units>
<units name="per_ms">
<unit units="ms" exponent="-1" />
</units>
<units name="per_mm">
<unit units="mm" exponent="-1" />
</units>
<units name="per_mV">
<unit units="mV" exponent="-1" />
</units>
<units name="per_mV_per_ms">
<unit units="mV" exponent="-1" />
<unit units="per_ms" />
</units>
<units name="per_mM_per_ms">
<unit units="mM" exponent="-1" />
<unit units="per_ms" />
</units>
<units name="uA_per_mmsq_per_mM">
<unit units="uA" />
<unit units="mm" exponent="-2" />
<unit units="mM" exponent="-1" />
</units>
<units name="mm_per_ms">
<unit units="mm" />
<unit units="per_ms" />
</units>
<units name="cm_per_ms">
<unit units="cm" />
<unit units="per_ms" />
</units>
<units name="gas_constant">
<unit units="pJ" />
<unit units="nmol" exponent="-1" />
<unit units="K" exponent="-1" />
</units>
<units name="faradays_constant">
<unit units="nC" />
<unit units="nmol" exponent="-1" />
</units>
<!-- These are some dodgy units from the ten Tusscher model -->
<units name="pA_per_pF">
<unit units="ampere" prefix="pico" />
<unit units="farad" prefix="pico" exponent="-1" />
</units>
<units name="nS_per_pF">
<unit units="siemens" prefix="nano" />
<unit units="farad" prefix="pico" exponent="-1" />
</units>
<units name="uF_per_cmsq">
<unit units="farad" prefix="micro" />
<unit units="metre" prefix="centi" exponent="-2" />
</units>
<units name="um">
<unit units="metre" prefix="micro" />
</units>
<units name="umsq">
<unit units="metre" prefix="micro" exponent="2" />
</units>
<units name="umcu">
<unit units="metre" prefix="micro" exponent="3" />
</units>
<units name="cmcu_per_uF_per_s">
<unit units="metre" prefix="centi" exponent="3" />
<unit units="farad" prefix="micro" exponent="-1" />
<unit units="second" exponent="-1" />
</units>
<units name="mmcu_per_uF_per_ms">
<unit units="metre" prefix="milli" exponent="3" />
<unit units="farad" prefix="micro" exponent="-1" />
<unit units="second" prefix="milli" exponent="-1" />
</units>
<units name="mM_per_s">
<unit units="mM" />
<unit units="second" exponent="-1" />
</units>
<units name="dyne">
<unit units="gram"/>
<unit units="cm"/>
<unit units="second" exponent="-2"/>
</units>
<units name="cmcu_per_dyne_per_s">
<unit units="cmcu"/>
<unit units="dyne" exponent="-1"/>
<unit units="second" exponent="-1"/>
</units>
<units name="s">
<unit units="second"/>
</units>
</model>
