LEAPS: A Semantic Web and Linked data framework for the Algal Biomass Domain

IESD 2014 20th October 2014 Riva del Garda

LEAPS

Linked Entities for Algal Plant Sites

A Semantic Web and Linked dataframework for the Algal Biomass Domain

Monika SolankiAston Business School

Aston UniversityBirmingham UK

Joint work while at Birmingham City University withJohannes Skarka

Karlsruhe Institute of Technology ITAS

msolankiastonacuk nimonika Linked Entities for Algal Plant Sites (LEAPS)


Algal biomass as biofuels

Extensive research is being undertaken in the search andproduction of naturally viable and sustainable energysourcesThe idea that algae biomass based biofuels could serve asan alternative to fossil fuels has been embraced bycouncils across the globeMajor companies government bodies and dedicated nonprofit organisations are getting involvedThe domain is a rich source of datainformationknowledge

httpwwwalgalbiomassorghttpwwweaba-associationeu

httpwwwenalgaeeu



SW Linked data and the Algal Supply Chain



LEAPSLinked Entities for Algal Plant Sites

motivate the use of Semantic Web technologies and LODfor the algal biomass domainlaying out a set of ontological requirements for knowledgerepresentation that support the publication of algalbiomass dataelaborating on how algal biomass datasets are transformedto their corresponding RDF model representationinterlinking the generated RDF datasets along spatialdimensions with other datasets on the Web of datavisualising the linked datasets via an end user LOD RESTWeb service




ASPIRE A content based recommendation engine thatprovides recommendations for algal entities as perstakeholder preference profiles using bespoke proximitysearch algorithmsVisualisations over linked biomass datasets



Competency questions for stage 1 datasetsData driven

Which are the algal operation sites with CO2 sources thathave CO2 emissions less than 130000 kgs where totalcosts of supplying CO2 is lower then 5000 GBP per ton ofCO2 areal yield is greater than 30 tons per hectare andwhich are located within the NUTS region ldquoUKM61rdquoSupplement the data with supporting information about theregionWhich are the top ten algal operation sites with the lowestimpact on global warming potentialFor a given algal operation site which are the first five mostcost effective combinations of light water nutrients andCO2 sources



Ontological requirements

Ontologies needed to representSpatiality location of possible algae cultivation siteslocation of the sources of consumables (CO2 nutrientsand water)Geometries area of the cultivation site - extentspolygons linear and ring arraysUnits and Measurements conventional measurementunits such as Kgs for quantities and hectares for areabespoke units of measurements ie Kgshectare orKgsannumTerritorial units for statistics core concepts of the NUTSsystemDomain specific knowledge algae cultivation sites CO2sources pipelines



Ontologies for Algal Biomass Reuse

Spatial Data WGS84 spatial relations GeonamesNeoGeoGeometries WGS84 extended NeoGeoUnits and Measurements extended QUDT

httpwwww3org200301geowgs84_poshttpwwwordnancesurveycoukoswebsiteontology

spatialrelationsowlhttpwwwgeonamesorgontologyontology_v221rdf

httpgeovocaborggeometryhttpqudtorg11vocabdimensionalunit





Ontologies for Algal Biomass Domainknowledge

Ontologies available at httppurlorgbiomassontologies


Lifting XML datasets to Linked dataRaw data



Lifting XML datasets to Linked data

First stepThe first part of the data processing and the potentialcalculation are performed in a GIS-based model which wasdeveloped for this purpose using ArcGISRaw datasets with various origins and formats -transformed using bespoke computational algorithms to anArchGIS specific XML format




Second stepThe original data sources had several limitations and aone-to-one transformation was not possibleA bespoke parser that exploits XPath to selectively querythe XML datasets and generate linked data wasimplementedIt utilises a complex underlying data structure to facilitatethe transformationFour datasets were transformed and stored in distributedtriple store repositories






Architecture Main components

Parsing modules

Ontologies

Linking engine

Triple store OWLIM SE 50

REST Web services

SPARQL endpoints

Web Interface

ASPIRE

Biological taxonomy visualisation



LEAPS Web application

wwwsemanticwebservicesorgenalgae



ASPIREA content based recommendation service for algal siteentitiesRecommendations are made based on stakeholderpreference models defined in their ontological profiles aslinked dataAlgal datasets are a combination of continuous andcategorical data entitiesAn adaption of Gowerrsquos similarity measure is used tocomputed similarities between the entities to proposerecommendations




Algaebase is the largest information source of algae on theWebThe algaebase dataset is not directly available to bedownloadedThe dataset was retrieved using a bespoke informationretrieval algorithm and curated within our triple store aslinked dataThe Semantic Import plugin of Gephi has been exploited tovisualise the biological taxonomy of algae

httpwwwalgaebaseorg

httpsgephiorg






Summary

The LEAPS framework exploits SW and LD for the algal biomasscommunity

enabling the screening of data for promising individual plant sitesand provides base data for more detailed planning purposes

proposing a set of domain specific ontologies for algal plantsites CO2 and pipelines to be shared and extended by thecommunity

defining a linked data publishing architecture that transforms rawdata in disparate formats to a uniform XML representation

using a set of well established and domain specific ontologies asmetadata to transform it further into linked data

providing various data access options such as a SPARQLendpoint an interactive Google map interface and a REST APIfor making the data accessible to stakeholders



Many Thanks


Motivation

Modelling Algal Biomass Knowledge



Algal biomass as biofuels

Extensive research is being undertaken in the search andproduction of naturally viable and sustainable energysourcesThe idea that algae biomass based biofuels could serve asan alternative to fossil fuels has been embraced bycouncils across the globeMajor companies government bodies and dedicated nonprofit organisations are getting involvedThe domain is a rich source of datainformationknowledge

httpwwwalgalbiomassorghttpwwweaba-associationeu

httpwwwenalgaeeu

















































Parsing modules

Ontologies

Linking engine


REST Web services

SPARQL endpoints

Web Interface

ASPIRE













httpwwwalgaebaseorg

httpsgephiorg






Summary









Many Thanks


Motivation


















































Parsing modules

Ontologies

Linking engine


REST Web services

SPARQL endpoints

Web Interface

ASPIRE













httpwwwalgaebaseorg

httpsgephiorg






Summary









Many Thanks


Motivation













httpwwwalgaebaseorg

httpsgephiorg






Summary









Many Thanks


Motivation







Summary









Many Thanks


Motivation




Many Thanks


Motivation



LEAPS: A Semantic Web and Linked data framework for the Algal Biomass Domain

Technology

Transcript of LEAPS: A Semantic Web and Linked data framework for the Algal Biomass Domain