PLOS Paper Machine Readable

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Hand-crafted triples

Frist Draft:

<code>

@prefix : 		<#> .
@prefix dc:  	<http://purl.org/dc/elements/1.1/> .
@prefix cc:  	<http://web.resource.org/cc/>.
@prefix foaf:	<http://xmlns.com/foaf/0.1/>. 	
@prefix prism: 	<http://prismstandard.org/namespaces/1.2/basic/>.
@prefix geo:	<http://www.w3.org/2003/01/geo/wgs84_pos#>.
@prefix dcterms: <http://purl.org/dc/terms/>.
@prefix what: <http://justmadeitup>.


<http://dx.doi.org/10.1371/journal.pntd.0000228>																	#original paper doi (change to enhanced version?)

 	## Basic 
	dc:title				"Impact of Environment and Social Gradient on Leptospira Infection in Urban Slums";
	dc:identifier			"doi..todo";																			#doi unassigned
	dc:language				"en",
							"pt";
	dcterms:publisher		[
								a 				<http://purl.org/dc/terms/Agent>;
								foaf:homepage	<http://www.plos.org/>;
								dc:title 		"Public Library of Science";
									
							];
							
								
	dcterms:issued			"2008";	
	dcterms:abstract 		"<h3>Background</h3><p>Leptospirosis has become an urban health problem as slum settlements have expanded 
							worldwide. Efforts to identify interventions for urbanleptospirosis have been hampered by the lack of 
							population-based information on <i>Leptospira</i> transmission determinants. The aim of the study was to 
							estimate the prevalence of <i>Leptospira</i> infection and identify risk factors for infection in the 
							urban slum setting.</p>...";
	
	rdf:type				what:peerreviewed;  #?? Vocabs exist for this?	
	
	
	## Authors 
	dc:contributor			"Albert I. Ko",																			#/creator?
							"Renato B. Reis"; 																		#more authors				
	foaf:maker				[	
								foaf:firstName 			"Albert";
					 			foaf:surname			"Ko";
					 			foaf:workplaceHomePage	<http://www.cpqgm.fiocruz.br/default.asp?area=31X0>
					 			foaf:workplaceHomePage 	<http://www.cornellmedicine.com/ser_div/inf_dis_int.html?name1=International+Medicine+and+Infectious+Diseases&type1=2Active>
					 			
					 			
					 		];
	foaf:maker				[	
								foaf:firstName 	"Renato";
					 			foaf:surname	"Reis"
					 		];																																				
	
	## Copyright 
	cc:license				<http://creativecommons.org/licenses/by/2.5/>;											#use dc rights?
		
		
	## Bibliographic metadata		
	prism:publicationName	"PLoS Neglected Tropical Diseases";
	prism:eIssn				"1935-2735";
	prism:publicationDate	"2008-04-23";
	prism:volume			"2";
	prism:number			"4";
	dcterms:bibliographicCitation	"Reis RB, Ribeiro GS, Felzemburgh RDM, Santana FS, Mohr S, et al. (2008) Impact of Environment and Social Gradient on Leptospira Infection in Urban Slums. PLoS Negl Trop Dis 2(4): e228. doi:10.1371/journal.pntd.0000228";
			
			
	## Tags 
	dc:subject				"Leptospirosis",
							"Slum settlements",
							"Leptospira antibodies";																	#uris to definitions?  typed?
	
	dcterms:subject			[						
								what:tagtype	"habitat"; 
								what:what		"slum settlements"
							];
							
	dcterms:subject				<http://someontology/slumsettlements> ;						
	## TODO consider numbers of occurrences of terms / locations of occurrences etc - discuss with David?
	
	
	
	## Geo  
	dcterms:coverage		[	
								geo:lat		"-12.923717";
								geo:long	"-38.442519";
								rdfs:label	"Salvador, Brazil";
							];
	
	
	## References
	what:cites 			<http://www.unhabitat.org/downloads/docs/GRHS.2003.0.pdf>;  #dcterms:references prism:references are too broad?? 	
	what:cites			<http://dx.doi.org/10.1186/1472-698X-7-2>;	
	what:cites			#refx;
	



	## Data / Methods
	what:describesInvestigation 	#investigation;
	what:describesResults	 		#data;
			
.

 #investigation 	
 	a						what:Investigation;
 	a						what:EpidemiologicalInvestigation;
 	
 	what:investigationOutcome	epi:riskfactors
 	dc:subject				"Leptospirosis";
 	
 	
 			
 	what:sampleSize 		"3171";
 	what:experimentalMethod <http://whatever/MATAnalysis>;
 	...(see [Investigation Ontology] work)


	## References
	<http://dx.doi.org/10.1186/1472-698X-7-2>	
								dcterms:bibliographicCitation  "Riley LW, Ko AI, Unger A, Reis MG (2007) Slum health: Diseases of neglected populations. BMC Int Health Hum Rights 7: 2.";
								dc:title				"Slum health: Diseases of neglected populations";								
								dc:identifier			<http://dx.doi.org/10.1186/1472-698X-7-2>;																			#doi unassigned	
								dc:publisher			"BioMed Central";	
								dcterms:issued			"2007";	
								dc:contributor			"Lee W Riley",																			#/creator?
														"Albert I Ko";#more
								prism:publicationName	"International Healthand Human Rights";
								prism:volume			"7";
								prism:number			"2".	
   
    <http://www.unhabitat.org/downloads/docs/GRHS.2003.0.pdf> dcterms:bibliographicCitation "United Nations Human Settlements Programme (2003) The challenge of slums: Global report on human settlements 2003. London: Earthscan Publications Ltd.".	
	
	#refx dcterms:bibliographicCitation  "Kupek E, de Sousa Santos Faversani MC, de Souza Philippi JM (2000) The relationship between rainfall and human leptospirosis in Florianopolis, Brazil, 1991–1996. Braz J Infect Dis 4: 131–134.".


</code>

RDFa

  1. Doctype -> XHTML+RDFa for index.html, documentinfo.html, abstract_portugese.html
  2. Validity - removed invalid properties - a name, img align etc.
  3. Marked up small representative set:
    • dc:title
    • foaf:contributor
    • dcterms:bibliographiccitaion
    • geo:lat/long
  4. Useful Tools:
  5. Extracted RDFa
<?xml version="1.0" encoding="utf-8"?>
<rdf:RDF
 xmlns:dc="http://purl.org/dc/terms/"
 xmlns:dcterms="http://purl.org/dc/terms/"
 xmlns:foaf="http://xmlns.com/foaf/0.1/"
 xmlns:geo="http://www.w3.org/2003/01/geo/wgs84_pos#"
 xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
 xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
 xmlns:xhv="http://www.w3.org/1999/xhtml/vocab#"
 xmlns:xml="http://www.w3.org/XML/1998/namespace"
>
 <rdf:Description rdf:about="http://imageweb.zoo.ox.ac.uk/pub/2008/plospaper/latest/">
   <dc:bibliographicCitation rdf:parseType="Literal">Citation: Reis RB, Ribeiro GS, Felzemburgh RDM, Santana FS, Mohr S, et al.  (2008) Impact of Environment and Social Gradient on Leptospira Infection in Urban slums. PLoS Negl Trop Dis 2(4):
     e228.
     <a href="http://dx.doi.org/10.1371/journal.pntd.0000228" xml:lang="en" xmlns="http://www.w3.org/1999/xhtml">doi:10.1371/journal.pntd.0000228</a>.  
</dc:bibliographicCitation>
   <geo:lat xml:lang="en">-12.923717</geo:lat>
   <dc:title rdf:parseType="Literal">Impact of Environment and Social Gradient on Leptospira Infection in Urban Slums</dc:title>
   <xhv:stylesheet rdf:resource="http://yui.yahooapis.com/2.5.2/build/container/assets/container.css"/>
   <xhv:stylesheet rdf:resource="http://imageweb.zoo.ox.ac.uk/pub/2008/plospaper/latest/enrichment.css"/>
   <xhv:stylesheet rdf:resource="http://imageweb.zoo.ox.ac.uk/pub/2008/plospaper/latest/plos/screen_mod.css"/>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Astrid X. T. O. Melendez</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Mitermayer G. Reis</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Guilherme S. Ribeiro</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Renato B. Reis</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Marília S. Carvalho</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Ridalva D. M. Felzemburgh</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Adriano Queiroz</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Sharif Mohr</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Romy R. Ravines</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Wagner S. Tassinari</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Andréia C. Santos</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <dc:contributor>
     <foaf:Person>
       <foaf:name xml:lang="en">Albert I. Ko</foaf:name>
     </foaf:Person>
   </dc:contributor>
   <geo:long xml:lang="en">-38.442519</geo:long>
 </rdf:Description>
 <foaf:Person>
   <foaf:name xml:lang="en">Francisco S. Santana</foaf:name>
 </foaf:Person>
</rdf:RDF>
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