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    HI Trish, <br>
    I went ahead and changed the abbreviations on the files below when I
    was updating the PO_PAE (Plant Anatomy) and PO_PSDS (Plant
    Development stage) files on Bioportal.  I did not realize that I
    could do that, but now I see the purl links are now broken:<br>
    <br>
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    <a href="http://purl.bioontology.org/ontology/PO_PSDS"
      target="_blank">http://purl.bioontology.org/ontology/PO_PSDS</a><br>
    <br>
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      charset=windows-1252">
    <a href="http://purl.bioontology.org/ontology/PO_PAE"
      target="_blank">http://purl.bioontology.org/ontology/PO_PAE</a><br>
    <br>
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      charset=windows-1252">
    <a href="http://purl.bioontology.org/ontology/GRO_CPD"
      target="_blank">http://purl.bioontology.org/ontology/GRO_CPD</a><br>
    <br>
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    <a href="http://purl.bioontology.org/ontology/GRO_CPGA"
      target="_blank">http://purl.bioontology.org/ontology/GRO_CPGA</a><br>
    <br>
    Can you see about getting those fixed on your end? Otherwise, let me
    know and I will change them back.<br>
    <br>
    Thanks, Laurel<br>
    <br>
    <br>
    <div class="moz-cite-prefix">On 7/13/12 12:08 AM, Laurel Cooper
      wrote:<br>
    </div>
    <blockquote cite="mid:4FFFC954.4040103@science.oregonstate.edu"
      type="cite">
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      Any resolution on these?  I see the link on GRO_CPG is still going
      to
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      Gene Regulation Ontology<br>
      Laurel<br>
      <br>
      <div class="moz-cite-prefix">On 6/20/12 2:24 PM, Laurel Cooper
        wrote:<br>
      </div>
      <blockquote cite="mid:4FE23FA9.7070803@science.oregonstate.edu"
        type="cite">
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        Yes,<br>
        I see that we had a conversation about these a while back, but
        it was never followed up on from our end.<br>
        you had suggested: <br>
        <div>
          <div>Cereal plant gross anatomy: GRO --> GRO-CPGAO</div>
          <div>Cereal Plant Development GRO --> GRO-CPDO<br>
            <br>
            I would suggest: <br>
            <div>Cereal plant gross anatomy: GRO --> GRO_CPG</div>
            Cereal Plant Development GRO --> GRO_CPD<br>
          </div>
        </div>
        <br>
        For the PO ontologies, I would suggest using PO_PAE (Plant
        Anatomy) and PO_PSDS (Plant Development stage) and keeping PO
        for the main Plant Ontology file.  (Since Jan 2011, the PO was
        combined into one file, but for the time being we are still
        offering the two aspects of the main ontology as separate files
        by request of some of our users.)  <br>
        <br>
        Would these changes affect any other features, such as how the
        searches work?  Or is it strictly on the backend?<br>
        <br>
        <br>
        Thanks!<br>
        Laurel<br>
        <br>
        <br>
        On 6/20/12 2:03 PM, Trish Whetzel wrote:
        <blockquote
          cite="mid:E1CA54C8-E916-410E-97B2-78412F94D8C5@stanford.edu"
          type="cite">
          <div>Yes, that is another case of duplicated ontology
            abbreviations that needs to be resolved. Do you manage (or
            can suggest) an alternative display abbreviation for the
            Cereal plant development ontology?</div>
          <div><br>
          </div>
          <div>Trish </div>
          <div><br>
          </div>
          <br>
          <div>
            <div>On Jun 20, 2012, at 1:49 PM, Laurel Cooper wrote:</div>
            <br class="Apple-interchange-newline">
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              <div bgcolor="#FFFFFF" text="#000000"> Hi Trish, noticed
                something weird today:<br>
                the link:
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                <a moz-do-not-send="true"
                  href="http://purl.bioontology.org/ontology/GRO"
                  target="_blank">http://purl.bioontology.org/ontology/GRO</a><br>
                <br>
                from this page: Cereal plant development: <a
                  moz-do-not-send="true" class="moz-txt-link-freetext"
                  href="http://bioportal.bioontology.org/ontologies/1047">http://bioportal.bioontology.org/ontologies/1047</a> 
                (this is a retired ontology, legacy data)<br>
                <br>
                Takes you to:
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                Gene Regulation Ontology <a moz-do-not-send="true"
                  tabindex="0"
href="http://bioportal.bioontology.org/ontologies/44629?p=terms#navigate"
                  class="fg-button fg-button-icon-right ui-widget
                  ui-state-default" id="ont_nav"><span class="ui-icon
                    ui-icon-triangle-1-s"></span></a><a
                  moz-do-not-send="true" tabindex="0"
href="http://bioportal.bioontology.org/ontologies/44629?p=terms#navigate"
                  class="fg-button fg-button-icon-right ui-widget
                  ui-state-default" id="ont_nav"><span id="nav_text"></span></a>
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                <span style="color: white; font-size: xx-large;"></span>:
                <a moz-do-not-send="true" class="moz-txt-link-freetext"
href="http://bioportal.bioontology.org/ontologies/44629?p=terms">http://bioportal.bioontology.org/ontologies/44629?p=terms</a><br>
                <br>
                Thanks, Laurel<br>
                <br>
                On 6/19/12 5:43 PM, Trish Whetzel wrote:
                <blockquote
                  cite="mid:BF6AFE56-7D1A-4906-90A4-6F52DD3B7649@stanford.edu"
                  type="cite">
                  <div>
                    <div style="margin-top: 0in; margin-right: 0in;
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                      serif; "><span style="font-size: 11pt;
                        font-family: Cambria, serif; ">We are pleased to
                        announce the release of<span
                          class="apple-converted-space"> </span><b>BioPortal


                          3.9</b>. The major new features in this
                        release are:</span><span style="font-size: 11pt;
                        font-family: Calibri, sans-serif; "><o:p></o:p></span></div>
                    <div style="margin-top: 0in; margin-right: 0in;
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                      serif; "><span style="font-size: 11pt;
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                    <div style="margin-top: 0in; margin-right: 0in;
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                        style="font-size: 11pt; font-family: Symbol; "><span>·<span
                            style="font: normal normal normal 7pt/normal
                            'Times New Roman'; ">         </span></span></span><span
                        style="font-size: 11pt; font-family: Cambria,
                        serif; ">We have revised the search interface,
                        both for specifying a search and in the format
                        of the returned results. The new “advanced
                        search” capability allows users to specify more
                        clearly exactly what terms they would like to
                        find. This capability also allows us to choose
                        better (more commonly desired) defaults for the
                        “basic search”. The returned search results are
                        now grouped by ontology and the results are
                        ranked so that terms from “better”  ontologies
                        are returned first. We also show definitions for
                        terms that have them. In general this response
                        format was inspired by the Google search
                        response interface so we hope that it looks
                        familiar. <b>We are specifically soliciting
                          feedback from users on this revision. Please
                          send any comments to <a moz-do-not-send="true"
                            href="mailto:support@bioontology.org"
                            style="color: blue; text-decoration:
                            underline; ">support@bioontology.org</a></b>.
                         <span style="color: red; ">*</span><o:p></o:p></span></div>
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                      serif; "><span style="font-size: 11pt;
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                        style="font-size: 11pt; font-family: Symbol; "><span>·<span
                            style="font: normal normal normal 7pt/normal
                            'Times New Roman'; ">         </span></span></span><span
                        style="font-size: 11pt; font-family: Cambria,
                        serif; ">We include the first version of the
                        BioMixer visualization software (available
                        through the “Visualize” links). This software
                        replaces the older FlexViz system. There are a
                        number of technology improvements (i.e. the
                        removal of Flash technology) over the older
                        system and the newer system is more powerful as
                        well (i.e. you can now navigate mappings from
                        the basic interface). More complete versions of
                        BioMixer will be introduced in subsequent
                        releases. Please provide any feedback you can on
                        this new system. </span><span
                        class="apple-style-span"><b><span
                            style="font-family: Cambria, serif; color:
                            rgb(255, 37, 0); ">*</span></b></span><span
                        style="font-size: 11pt; font-family: Cambria,
                        serif; "><o:p></o:p></span></div>
                    <div style="margin-top: 0in; margin-right: 0in;
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                      serif; "><span style="font-size: 11pt;
                        font-family: Cambria, serif; "><o:p> </o:p></span></div>
                    <div style="margin-top: 0in; margin-right: 0in;
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                      serif; text-indent: -0.25in; "><span
                        style="font-size: 11pt; font-family: Symbol; "><span>·<span
                            style="font: normal normal normal 7pt/normal
                            'Times New Roman'; ">         </span></span></span><span
                        style="font-size: 11pt; font-family: Cambria,
                        serif; ">We have regenerated all automatically
                        generated mappings in the system. These include
                        lexical mappings, UMLS CUI mappings, identical
                        identifier mappings, and OBO-xref mappings. We
                        have also loaded mappings between selected UMLS
                        ontologies as specified in the UMLS database
                        (MRMAP).<o:p></o:p></span></div>
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                      serif; "><o:p> </o:p></div>
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                      serif; "><span class="apple-style-span"><b><span
                            style="font-family: Cambria, serif; color:
                            rgb(255, 37, 0); ">*  </span></b></span><span
                        style="font-size: 11pt; font-family: Cambria,
                        serif; ">This item was requested via the <a
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                          href="https://mailman.stanford.edu/mailman/listinfo/bioontology-support"
                          style="color: blue; text-decoration:
                          underline; "><span style="font-size: 12pt; ">User
                            Support mailing list</span></a>. Thank you
                        for your comments and suggestions!</span></div>
                  </div>
                  <div><br>
                  </div>
                  <br>
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                                          Biomedical Ontology</div>
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                  <pre wrap="">_______________________________________________
bioportal-announce mailing list
<a moz-do-not-send="true" class="moz-txt-link-abbreviated" href="mailto:bioportal-announce@lists.stanford.edu">bioportal-announce@lists.stanford.edu</a>
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</pre>
                </blockquote>
                <br>
                <pre class="moz-signature" cols="72">-- 
**********************************************************
Laurel (Lol) Cooper, PhD
Coordinator, Plant Ontology Consortium
Dept. of Botany and Plant Pathology
Rm 3086, Cordley Hall
Oregon State University
Corvallis, OR 97331
Web: <a moz-do-not-send="true" class="moz-txt-link-abbreviated" href="http://www.plantontology.org/">www.plantontology.org</a>

Phone: 541-737-5272
Fax: 541-737-3573
Skype: cooperlol910
***********************************************************</pre>
              </div>
            </blockquote>
          </div>
          <br>
          <br>
        </blockquote>
        <br>
        <pre class="moz-signature" cols="72">-- 
**********************************************************
Laurel (Lol) Cooper, PhD
Coordinator, Plant Ontology Consortium
Dept. of Botany and Plant Pathology
Rm 3086, Cordley Hall
Oregon State University
Corvallis, OR 97331
Web: <a moz-do-not-send="true" class="moz-txt-link-abbreviated" href="http://www.plantontology.org">www.plantontology.org</a>

Phone: 541-737-5272
Fax: 541-737-3573
Skype: cooperlol910
***********************************************************</pre>
      </blockquote>
      <br>
      <pre class="moz-signature" cols="72">-- 
**********************************************************
Laurel (Lol) Cooper, PhD
Coordinator, Plant Ontology Consortium
Dept. of Botany and Plant Pathology
Rm 3086, Cordley Hall
Oregon State University
Corvallis, OR 97331
Web: <a moz-do-not-send="true" class="moz-txt-link-abbreviated" href="http://www.plantontology.org">www.plantontology.org</a>

Phone: 541-737-5272
Fax: 541-737-3573
Skype: cooperlol910
***********************************************************</pre>
      <br>
      <br>
    </blockquote>
    <br>
    <pre class="moz-signature" cols="72">-- 
**********************************************************
Laurel (Lol) Cooper, PhD
Coordinator, Plant Ontology Consortium
Dept. of Botany and Plant Pathology
Rm 3086, Cordley Hall
Oregon State University
Corvallis, OR 97331
Web: <a class="moz-txt-link-abbreviated" href="http://www.plantontology.org">www.plantontology.org</a>

Phone: 541-737-5272
Fax: 541-737-3573
Skype: cooperlol910
***********************************************************</pre>
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