<?xml version="1.0" encoding="UTF-8"?>
<atom:entry xmlns:dcterms="http://purl.org/dc/terms/"
    xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
    xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" xmlns:atom="http://www.w3.org/2005/Atom"
    xmlns:ore="http://www.openarchives.org/ore/terms/"
    xmlns:tl="http://purl.org/NET/c4dm/timeline.owl#" xmlns:dcels="http://purl.org/dc/elements/1.1/"
    xmlns:dcmitype="http://purl.org/dc/dcmitype/"
    xmlns:oreatom="http://www.openarchives.org/ore/atom/" xmlns:foaf="http://xmlns.com/foaf/0.1/"
    xmlns:grddl="http://www.w3.org/2003/g/data-view#" xmlns:dc="http://purl.org/dc/terms/"
    xmlns:bibo="http://purl.org/ontology/bibo/"
    xmlns:orechem="http://orechem.org/ontologies/document/"
    xmlns:chemdomain="http://www.polymerinformatics.com/ChemAxiom/ChemDomain.owl#"
    xmlns:vcard="http://www.w3.org/2006/vcard/ns#" xmlns:event="http://purl.org/NET/c4dm/event.owl#"
    grddl:transformation="http://cheminfo.informatics.indiana.edu/~schalla/atom-grddl.xsl">
    <!-- ******************************** -->
    <!-- INFORMATION ABOUT THE ATOM ENTRY -->
    <!-- ******************************** -->
    <!-- Internal atom id -->
    <atom:id>tag:examples.net,2008:ResourceMaps:RM1</atom:id>
    <!--  this is the URL of the original crawled source -->
    <atom:link rel="alternate" type="text/html" href="http://egon.cheme.cmu.edu/Papers/GrossmannCaballeroYeoAdv.pdf"/>
    <!--  -->
    <!-- ********************************** -->
    <!-- INFORMATION ABOUT THE RESOURCE MAP -->
    <!-- ********************************** -->
    <!--  -->
    <!-- Express URI-R, the URI of this Atom Resource Map  -->
    <atom:link href="http://examples.net/ResourceMaps/RM1" rel="self" type="application/atom+xml"/>
    <!-- Express URI-A, the URI of Aggregation described by this Atom Resource Map  -->
    <atom:link rel="http://www.openarchives.org/ore/terms/describes"
        href="http://examples.net/Aggregation/A1"/>
    <!-- Resource Map Creation and Modification date/time -->
    <atom:published>2009-10-23T04:01:23Z</atom:published>
    <atom:updated>2009-10-18T06:16:15Z</atom:updated>
    <!-- Express rights pertaining to the Atom Resource Map -->
    <atom:link href="http://creativecommons.org/licenses/by-nc/2.5/" rel="license"
        type="application/rdf+xml"/>
    <atom:rights>This Resource Map is available under the Creative Commons Attribution-Noncommercial
        2.5 Generic license</atom:rights>
    <!-- Express authorship of Resource Map using atom:source -->
    <!-- Also express additional child elements of atom:source that are recommended in Atom -->
    <atom:source>
        <atom:author>
            <atom:name>ChemXSeer</atom:name>
            <atom:uri>http://chemxseer.ist.psu.edu/</atom:uri>
        </atom:author>
        <atom:id>tag:arxiv.org,2008:astro-ph</atom:id>
        <atom:updated>2008-10-03T07:30:34Z</atom:updated>
        <atom:title>ArXiv.org Atrophysics Feed</atom:title>
    </atom:source>
    <!--  -->
    <!-- ********************************* -->
    <!-- INFORMATION ABOUT THE AGGREGATION -->
    <!-- ********************************* --> <!--  -->
    <!-- Aggregation Title -->
    <atom:title>Effect of argillaceous minerals on the growth of phosphate-mobilizing bacteria
        Bacillus subtilis</atom:title>
    <!-- Aggregation Author (repeatable) -->
    <atom:author>
        <atom:name>Carl Lagoze</atom:name>
        <atom:email>clagoze@gmail.com</atom:email>
    </atom:author>
    <!-- This resource map (atom entry) describes this agrregation -->
    <atom:link rel="http://www.openarchives.org/ore/terms/isDescribedBy"
        href="http://examples.net/ResourceMaps/RM1"/>
    <!-- ************************* -->
    <!-- Newly added tags according to the ORE Atom Map Resource Validator -->
    <atom:category term="http://www.openarchives.org/ore/terms/Aggregation" scheme="http://www.openarchives.org/ore/terms/" label="Aggregation"/>
    <atom:category term="http://purl.org/eprint/type/JournalArticle" scheme="http://purl.org/eprint/type/" label="Journal Article"/>
    <!-- ************************* -->
    <!-- Creation and Modification date/time of the Aggregation (rdf literals) -->
    <atom:category term="2009-10-23T04:01:23Z" scheme="http://www.openarchives.org/ore/atom/created"/>
    <atom:category term="2009-10-18T06:16:15Z"
        scheme="http://www.openarchives.org/ore/atom/modified"/>
    <!-- References from this document. . note that these are expanded upon in the triples section -->
    <atom:link rel="http://purl.org/dc/terms/references" href="urn:isbn:23983498"
        title="Important Paper Number 1"/>
    <atom:link rel="http://purl.org/dc/terms/references" href="http://ex.net/x1"
        title="Important Paper Number 2"/>
    <!-- Relate this aggregation to the "officially published" doi -->
    <atom:link rel="http://www.openarchives.org/ore/terms/similarTo" href="info:doi/10"/>
    <!--  -->
    <!-- ************************  -->
    <!-- THE AGGREGATED RESOURCES  -->
    <!-- ************************  -->
    <!--                           -->
    <!-- PDF source file  stored in a Penn State repository and accessible for analysis by others -->
    <atom:link href="http://repository.psu/Docs/doc1/doc.pdf"
        rel="http://www.openarchives.org/ore/terms/aggregates"
        title="Effect of argillaceous minerals on the growth of phosphate-mobilizing bacteria
        Bacillus subtilis"
        type="application/pdf" hreflang="en"/>
    <!--  marked up plain text version of the source file. Probably the URL of this will be on a Penn State server -->
    <atom:link href="http://examples.net/Docs/doc1/doc.txt"
        rel="http://www.openarchives.org/ore/terms/aggregates"
        title="Effect of argillaceous minerals on the growth of phosphate-mobilizing bacteria
        Bacillus subtilis"
        type="text/plain" hreflang="en"/>
    <!-- NOTE that URI's of aggregated table and data set are relative to aggregation - so we don't -->
    <!-- have to mint totally new URIs.  I could imagine cases in which the data set was an independent URI -->
    <atom:link href="http://examples.net/Aggregations/A1#table001"
        rel="http://www.openarchives.org/ore/terms/aggregates"
        title="Effect of argillaceous minerals on the growth of phosphate-mobilizing bacteria
        Bacillus subtilis (table1)"
        type="application/octet-stream"/>
    <atom:link href="http://examples.net/Aggregations/A1#dataSet001"
        rel="http://www.openarchives.org/ore/terms/aggregates"
        title="Effect of argillaceous minerals on the growth of phosphate-mobilizing bacteria
        Bacillus subtilis (Data Set 1)"
        type="application/octet-stream"/>
    <atom:link href="http://examples.net/Aggregations/A1#figure001"
        rel="http://www.openarchives.org/ore/terms/aggregates"
        title="Effect of argillaceous minerals on the growth of phosphate-mobilizing bacteria
        Bacillus subtilis (figure 1)"
        type="application/octet-stream"/>
    <!-- I'm not sure what to do for URIs of experiments and molecules.  Certainly we don't want to coin -->
    <!-- whole new URI schemes, but these things exist independently of the context of the aggregation -->
    <!-- so should not be relative to the aggregation URI -->
    <atom:link href="http://examples.net/Experiments/E1"
        rel="http://www.openarchives.org/ore/terms/aggregates"
        title="Effect of argillaceous minerals on the growth of phosphate-mobilizing bacteria
        Bacillus subtilis (Experiment 1)"
        type="application/octet-stream"/>
    <atom:link href="http://echem.net/Molecules/M1"
        rel="http://www.openarchives.org/ore/terms/aggregates" title="One Interesting Molecule"
        type="application/octet-stream"/>
    <atom:link href="http://echem.net/Molecules/M2"
        rel="http://www.openarchives.org/ore/terms/aggregates" title="Another Interesting Molecule"
        type="application/octet-stream"/>
    <!--  -->
    <!-- ************************************************************************ -->
    <!-- ADDITIONAL PROPERTIES PERTAINING TO AGGREGATED RESOURCES AND AGGREGATION -->
    <!-- This encodes all the additional information pulled out by our extraction -->
    <!-- machines (ChemXSeer, etc.)                                               -->
    <!-- ************************************************************************ -->
    <!--                                                                          -->
    <oreatom:triples>
        <!-- Extracted bibliographic information about the document -->
        <rdf:Description rdf:about="info:doi/10">
            <rdf:type rdf:resource="bibo:article"/>
            <dc:dateAccepted>2006-01-01</dc:dateAccepted>
            <bibo:volume>42</bibo:volume>
            <bibo:pageStart>388</bibo:pageStart>
            <dc:title xml:lang="en">Effect of argillaceous minerals on the growth of
                phosphate-mobilizing bacteria Bacillus subtilis</dc:title>
            <dc:abstract rdf:datatype="http://www.w3.org/2001/XMLSchema#string">This is the
                abstract</dc:abstract>
            <dc:creator rdf:resource="http://examples.net/Aggregation/A1#contributors001"/>
            <bibo:pageEnd>391</bibo:pageEnd>
            <bibo:issue>4</bibo:issue>
            <dc:creator rdf:resource="http://examples.net/Aggregation/A1#contributors002"/>
            <dcels:subject>NMR</dcels:subject>
            <dcels:subject>polymers</dcels:subject>
            <bibo:authorList rdf:parseType="Collection">
                <rdf:Description rdf:about="http://examples.net/Aggregation/A1#contributors002"/>
                <rdf:Description rdf:about="http://examples.net/Aggregation/A1#contributors001"/>
            </bibo:authorList>
        </rdf:Description>
        <!-- Expanded information about the aggregation from that asserted above.  Many of these -->
        <!-- triples refine the ore:aggreagrates predicates to specific orechen properties -->
        <!-- e.g., orechem:hasDataSet -->
        <rdf:Description rdf:about="http://examples.net/Aggregation/A1">
                    <orechem:crawlMetadata>
                        <rdf:Description>
                            <orechem:crawlDate>2009-11-11</orechem:crawlDate>
                            <orechem:conversionTrace>PDFBox</orechem:conversionTrace>
                        </rdf:Description>
                    </orechem:crawlMetadata>
            <orechem:hasDataSet rdf:resource="http://examples.net/Aggregations/A1#dataSet001"/>
            <orechem:hasFigure rdf:resource="http://examples.net/Aggregations/A1#figure001"/>
            <orechem:hasTable rdf:resource="http://examples.net/Aggregations/A1#table001"/>
            <!-- I've included a bare-bones expansion of a molecular description. I assume this -->
            <!-- will be significantly expanded upon using the chemaxiom ontology -->
            <orechem:referencesMolecularEntity>
                <rdf:Description rdf:about="http://echem.net/Molecules/M1">
                    <chemdomain:hasIdentifier>inchi1111</chemdomain:hasIdentifier>
                    <rdf:type
                        rdf:resource="http://www.polymerinformatics.com/ChemAxiom/ChemDomain.owl#MolecularEntity"
                    />
                </rdf:Description>
            </orechem:referencesMolecularEntity>
            <orechem:referencesMolecularEntity>
                <rdf:Description rdf:about="http://echem.net/Molecules/M2">
                    <chemdomain:hasIdentifier>inchi2222</chemdomain:hasIdentifier>
                    <rdf:type
                        rdf:resource="http://www.polymerinformatics.com/ChemAxiom/ChemDomain.owl#MolecularEntity"
                    > </rdf:type>
                </rdf:Description>
            </orechem:referencesMolecularEntity>
            <!-- I assume this will be expanded upon using our experiment ontology.  URI is bogus -->
            <!-- as described above and needs to be discussed -->
            <orechem:referencesExperiment>
                <rdf:Description rdf:about="http://examples.net/Experiments/E1">
                    <rdf:type rdf:resource="http://orechem.org/ontologies/document/experiment"/>
                    <orechem:experimentRawText> this is the paragraph text from the source describing the experiment</orechem:experimentRawText>
                </rdf:Description>
            </orechem:referencesExperiment>
            <!-- This is an article in a conference proceedings (described below) -->
            <ore:isAggregatedBy>
                <rdf:Description rdf:about="http://examples.net/Aggregations/A2"/>
            </ore:isAggregatedBy>
            <!-- Expanded citations description for Seer extracted data -->
            <orechem:citationList rdf:parseType="Collection">
                <rdf:Description rdf:about="http://examples.net/Aggregations/A1#citation001">
                    <dc:references>
                        <rdf:Description rdf:about="urn:isbn:23983498"/>
                    </dc:references>
                    <rdf:type>
                        <rdf:Description rdf:about="http://orechem.org/ontologies/document/Citation"
                        />
                    </rdf:type>
                    <orechem:rawCitation>Lagoze,C. The Paper, Journal1, 3(1)</orechem:rawCitation>
                    <orechem:citationContext>Lagoze in his JCDL paper [ref]
                        said</orechem:citationContext>
                </rdf:Description>
                <rdf:Description rdf:about="http://examples.net/Aggregations/A1#citation002">
                    <dc:references>
                        <rdf:Description rdf:about="http://ex.net/x1">
                            <dc:creator>
                                <rdf:Description
                                    rdf:about="http://examples.net/Aggregation/A1#contributors001"/>
                            </dc:creator>
                            <dc:title>Conference Paper</dc:title>
                            <bibo:presentedAt>
                                <rdf:Description rdf:about="http://ex.net/conference"/>
                            </bibo:presentedAt>
                            <bibo:reproducedIn>
                                <rdf:Description rdf:about="http://ex.net/x2">
                                    <dc:date>2000</dc:date>
                                    <dc:publisher>
                                        <rdf:Description rdf:about="http://ex.net/z1"/>
                                    </dc:publisher>
                                    <dc:title xml:lang="en">Proceedings of the ABC
                                        Conference</dc:title>
                                    <rdf:type>
                                        <rdf:Description
                                            rdf:about="http://purl.org/ontology/bibo/Proceedings"/>
                                    </rdf:type>
                                </rdf:Description>
                            </bibo:reproducedIn>
                            <rdf:type>
                                <rdf:Description rdf:about="http://purl.org/ontology/bibo/Article"/>
                            </rdf:type>
                        </rdf:Description>
                    </dc:references>
                    <rdf:type>
                        <rdf:Description rdf:about="http://orechem.org/ontologies/document/Citation"
                        />
                    </rdf:type>
                    <orechem:rawCitation>Giles, C. L., That Paper, Conf 4,
                        2007</orechem:rawCitation>
                    <orechem:citationContext>Giles in his 2007 JCDL paper [ ref]
                    said</orechem:citationContext>
                </rdf:Description>
            </orechem:citationList>
        </rdf:Description>
        <!-- Expanded figure description for Seer extracted data -->
        <rdf:Description rdf:about="http://examples.net/Aggregations/A1#figure001">
            <orechem:hasDataSet>
                <rdf:Description rdf:about="http://examples.net/Aggregations/A1#dataset003">
                    <rdf:type rdf:resource="http:/purl.org/dc/dcmitype/DataSet"/>
                </rdf:Description>
            </orechem:hasDataSet>
            <rdf:type>
                <rdf:Description rdf:about="http://orechem.org/ontologies/document/Figure"/>
            </rdf:type>
            <orechem:hasCaption>Caption for Figure 1</orechem:hasCaption>
            <orechem:refsToDataRepresentation rdf:parseType="Collection">
                <rdf:Description>
                    <rdf:value>Figure 1 ref 1</rdf:value>
                </rdf:Description>
                <rdf:Description>
                    <rdf:value>Figure 1 ref 2</rdf:value>
                </rdf:Description>
                <rdf:Description>
                    <rdf:value>Figure 1 ref 3</rdf:value>
                </rdf:Description>
            </orechem:refsToDataRepresentation>
            <bibo:pageEnd>4</bibo:pageEnd>
            <bibo:pageStart>4</bibo:pageStart>
        </rdf:Description>
        <!-- Expanded table description for Seer extracted data -->
        <rdf:Description rdf:about="http://examples.net/Aggregations/A1#table001">
            <orechem:hasDataSet>
                <rdf:Description rdf:about="http://examples.net/Aggregations/A1#dataset002"
                > </rdf:Description>
            </orechem:hasDataSet>
            <rdf:type>
                <rdf:Description rdf:about="http://orechem.org/ontologies/document/Table"/>
            </rdf:type>
            <orechem:refsToDataRepresentation rdf:parseType="Collection">
                <rdf:Description>
                    <rdf:value>Table 1 ref 1</rdf:value>
                </rdf:Description>
                <rdf:Description>
                    <rdf:value>Table 1 ref 2</rdf:value>
                </rdf:Description>
            </orechem:refsToDataRepresentation>
            <orechem:hasCaption>Caption for Table 1</orechem:hasCaption>
            <bibo:pageEnd>9</bibo:pageEnd>
            <bibo:pageStart>10</bibo:pageStart>
        </rdf:Description>
        <!-- Expanded authorship description for Seer extracted data -->
        <rdf:Description rdf:about="http://examples.net/Aggregation/A1#contributors001">
            <foaf:givenname>Jane</foaf:givenname>
            <foaf:family_name>Doe</foaf:family_name>
            <dc:description>
                <rdf:Description>
                    <rdf:type>
                        <rdf:Description rdf:about="http://www.w3.org/2006/vcard/ns#vcard"/>
                    </rdf:type>
                    <vcard:org>
                        <rdf:Description>
                            <rdf:type>
                                <rdf:Description
                                    rdf:about="http://www.w3.org/2006/vcard/ns#Organization"/>
                            </rdf:type>
                        </rdf:Description>
                    </vcard:org>
                    <vcard:addr>
                        <rdf:Description>
                            <rdf:type>
                                <rdf:Description rdf:about="http://www.w3.org/2006/vcard/ns#Address"
                                />
                            </rdf:type>
                            <vcard:locality>MyTown</vcard:locality>
                            <vcard:postal-code>99999</vcard:postal-code>
                            <vcard:region>MyState</vcard:region>
                        </rdf:Description>
                    </vcard:addr>
                    <vcard:organization-name>Cornell University</vcard:organization-name>
                </rdf:Description>
            </dc:description>
            <foaf:mbox>JaneDoe@example.net</foaf:mbox>
            <rdf:type>
                <rdf:Description rdf:about="http://xmlns.com/foaf/0.1/Person"/>
            </rdf:type>
            <foaf:family_name>Doe</foaf:family_name>
            <foaf:givenname>Jane</foaf:givenname>
        </rdf:Description>
        <rdf:Description rdf:about="http://examples.net/Aggregation/A1#contributors002">
            <foaf:givenname>John</foaf:givenname>
            <foaf:family_name>Smith</foaf:family_name>
            <dc:description>
                <rdf:Description>
                    <rdf:type>
                        <rdf:Description rdf:about="http://www.w3.org/2006/vcard/ns#vcard"/>
                    </rdf:type>
                    <vcard:org>
                        <rdf:Description>
                            <rdf:type>
                                <rdf:Description
                                    rdf:about="http://www.w3.org/2006/vcard/ns#Organization"/>
                            </rdf:type>
                        </rdf:Description>
                    </vcard:org>
                    <vcard:organization-name>Cornell University</vcard:organization-name>
                    <vcard:addr>
                        <rdf:Description>
                            <rdf:type>
                                <rdf:Description rdf:about="http://www.w3.org/2006/vcard/ns#Address"
                                />
                            </rdf:type>
                            <vcard:locality>MyTown</vcard:locality>
                            <vcard:postal-code>99999</vcard:postal-code>
                            <vcard:region>MyState</vcard:region>
                        </rdf:Description>
                    </vcard:addr>
                </rdf:Description>
            </dc:description>
            <rdf:type>
                <rdf:Description rdf:about="http://xmlns.com/foaf/0.1/Person"/>
            </rdf:type>
        </rdf:Description>
        <rdf:Description rdf:about="http://examples.net/Aggregations/A1#dataset001">
            <rdf:type rdf:resource="http:/purl.org/dc/dcmitype/DataSet"/>
        </rdf:Description>
        <rdf:Description rdf:about="http://examples.net/Aggregations/A1#dataset002">
            <rdf:type rdf:resource="http:/purl.org/dc/dcmitype/DataSet"/>
        </rdf:Description>
        <!-- Conference proceedings aggregation description -->
        <rdf:Description rdf:about="http://examples.net/Aggregations/A2">
            <ore:similarTo>
                <rdf:Description rdf:about="urn:issn:23346587"/>
            </ore:similarTo>
            <rdf:type>
                <rdf:Description rdf:about="http://www.openarchives.org/ore/terms/Aggregation"/>
            </rdf:type>
            <ore:aggregates>
                <rdf:Description rdf:about="http://examples.net/Aggregations/A1"/>
            </ore:aggregates>
        </rdf:Description>
        <rdf:Description rdf:about="http://examples.net/ResourceMaps/RM2">
            <ore:describes>
                <rdf:Description rdf:about="http://examples.net/Aggregations/A2"/>
            </ore:describes>
        </rdf:Description>
        <!-- Conference proceedings description -->
        <rdf:Description rdf:about="urn:issn:23346587">
            <rdf:type rdf:resource="http://purl.org/ontology/bibo/Journal"/>
            <bibo:shortTitle xml:lang="en">App Biochem and Biol</bibo:shortTitle>
            <dc:title xml:lang="en">Applied Biochemistry and Microbiology</dc:title>
        </rdf:Description>
        <!-- Conference information.  Another bogus URI - don't know what to do here -->
        <rdf:Description rdf:about="http://ex.net/conference">
            <event:place>
                <rdf:Description rdf:about="http://dbpedia.org/resource/"/>
            </event:place>
            <event:time>
                <rdf:Description>
                    <tl:Interval>
                        <rdf:Description>
                            <tl:beginsAtDateTime xml:lang="">2007-03-01</tl:beginsAtDateTime>
                            <tl:endsAtDateTime>2007-03-13</tl:endsAtDateTime>
                        </rdf:Description>
                    </tl:Interval>
                </rdf:Description>
            </event:time>
            <bibo:organizer>
                <rdf:Description rdf:about="http://ex.net/"/>
            </bibo:organizer>
            <rdf:type>
                <rdf:Description rdf:about="http://purl.org/ontology/bibo/Conference"/>
            </rdf:type>
        </rdf:Description>
    </oreatom:triples>
</atom:entry>