HCLS/SWAT4LS2012/Hackathon

From W3C Wiki

The SWAT4LS Hackathon is an informal event associated with the SWAT4LS Semantic Web Applications and Tools for Life Sciences Workshops Series.

Scope of the event is to bring together experts and enthusiasts in the application of semantic technologies in healthcare and life science for open discussion and jam coding sessions. The Hackathon will be organized on the 28th of November 2012 at La Cantine, Paris (map). 

street: 151 rue Montmartre, Passage des Panoramas
room: 12 Galerie Montmartre
75002 Paris

(For more information, please refer to the workshop website). The hackathon is open to workshop participants. Registration is required and space is limited!.

External Sharing Resources

Google Addendum mailing list

(Mini) Program

Hackathon starts at 9.00

  • 09.00-09.30 - Welcome, registrations, informall introductions
  • 09.30-10.30 - Project proposals by group leads (to be confirmed).
  • 10.30-16.00 - Hack Hack Hack (with Pizza break. There will be coffee).
  • 16.00-18.00 - Presentations on what has been done, ideas, problems found, next steps

Logistics

Projects and institutes attending include:

While the agenda will be open, we are coordinating ideas that can be developd at the network in advance, to maximize the utility of the day. Co-organizers for each community will help gathering ideas and finding point of contacts.

Information and registrations

For information, info _at_ swat4ls.org

Registrations are handled via Eventbrite

Hashtag

#swat4lshack

Co-Organizers

  • Andrea Splendiani
  • Andra Waagmeester
  • Eric Prud'hommeaux
  • M. Scott Marshall
  • Toshiaki Katayama
  • Ismael Navas delgado

Open PHACTS community

Contact Point

  • Andra Waagmeester
  • Egon Willighagen

Proposed action points

  1. Consume Open PHACTS content in Pathway tools
  2. Using http://identifiers.org
  3. Create an example set of valuable queries
  4. Visualizing output
  5. work on further linked data integration, with possible:
    1. DrugMatrix
    2. TG-GATEs
    3. CTD (already available as RDF, by Bio2RDF)
  6. shared Java client code
    1. for R, Bioclipse, KNIME

Confirmed Participants

  • Kees Burger
  • Maria Carmen Carra
  • Ian Dunlop
  • Chris Evelo
  • Paul Groth
  • Tim Harder
  • Carina Haupt
  • Nick Juty
  • Camille Laibe
  • Antonis Loizou
  • Oriol Lopez
  • Guillermo C. Martínez
  • Nuria Queralt
  • Rishi Ramgolam
  • Mark Thompson
  • Egon Willighagen
  • Pekka Kohonen
  • Ola Spjuth
  • Thompson Mark (Andra)
  • coulet adrien (Michel)
  • Malone James (Michel)
  • Dumontier Michel
  • Kocbek Simon (Andrea)
  • Luciano Joanne
  • Jiang Guoqian (Scott)
  • van Haagen Herman
  • Leroux Hugo
  • Garcia Leyla (Michel)
  • Adamusiak Tomasz
  • Jupp Simon (Michel)
  • Mironov Vladimir (Andrea)
  • Kamsu Foguem Bernard
  • Schouwen, van Reinout (Scott)
  • Yamamoto Yasunori (Andrea)
  • Groth Paul (Andra)
  • Helma Christoph (Egon)
  • Larmande Pierre
  • Whetzel Trish (Scott)
  • Navas-Delgado Ismael (Andrea)
  • Katayama Toshiaki (Andrea)
  • Lysenko Artem (Andrea)
  • Paschke Adrian (Andrea)
  • Helma Christoph
  • Alam Mehwish
  • van dam Jesse
  • Croset Samuel (Andrea)
  • Helma Christoph
  • Chris Evelo (Andra)
  • Martina Kutmon (Andra)
  • Alex Pico (Andra)

WikiPathways community

Contact Point

Andra Waagmeester

Introduction

WikiPathways is a online resource for pathways. Content is provided by the audience at large. I currently contains more then 2200 pathways from 21 species source. Pathways are captured in a XML-based format GPML. Recently WikiPathways was exposed as linked open data where GPML content was exported as RDF. This data is available through a SPARQL endpoint http://sparql.wikipathways.org.

Proposed action points

Exploring WikiPathways RDF content, making example queries

Writing federated queries to integrate pathway content with other biological data.

Using Pathvisio RPC to consume and visualize linked pathway data

Solving ID mapping in WikiPathways RDF

Confirmed Participants

  • Chris Evelo
  • Martina Kutmon
  • Alex Pico

Database Center for Life Sciences Community / BioHackathon

Contact Point

Toshiaki Katayama

Proposed action points

  • Text-mining for microbial/environmental genomics

Confirmed Participants

  • Yasunori Yamamoto
  • Toshiaki Katayama

W3C HCLS Community

Contact Point

Eric Prud'hommeaux

Proposed action points

Making an online inventory of available resources (wiki) to document underlying schemas of available datasources.

There are nice lists of active SPARQL endpoints (example 1) and (example 2). Finding where the data actually links can still be challenging.

It would be really beneficial to create an overview with descriptions of different linked data sets describing the underlying structure. The first step would be to define a format where data providers describe their data in a predefined (wiki) format. This format could be based on VoID. These description coulds then be used to create so called data landscapes in tools such as Semscape.

Creating a review of sparql endpoints and their support for remote federated queries.

Within a federated query you can query different flavours of sparql endpoints. Since different endpoints have their own implementations and support for different SPARQL versions, it is essential to understand the different issues each type of endpoint might have. The community would benefit from a list mentioning each available SPARQL endpoint system (e.g. 4store, virtuoso, etc) and their support for different SPARQL versions. Also this list could mention specific features (e.g. soft limit in 4store) influencing the recall in federated queries.

BioPAX Community

Contact Point

Ismael Navas Delgado

Proposed action points

Confirmed Participants

  • Ismael Navas Delgado
  • Andrea Splendiani

EBI Gene Expression Atlas

Contact Point

Simon Jupp

James Malone

Introduction

Integration of gene expression data from the Gene Expression Atlas database (http://www.ebi.ac.uk/gxa). Schema description and SPARQL endpoint at http://wwwdev.ebi.ac.uk/fgpt/efosemweb.html Differential gene expression annotated with Ensembl gene ids (identifiers.org URIs), includes mappings to Uniprot. Experiment assay and sample descriptions annotated with ontology terms from wide range of bio-ontologies (anatomy, cells, disease etc).

Proposed action points

Linking gene expression to pathway data.

Web Science Trust Network of Labs (WSTNet) (http://webscience.org)

Contact Point

Joanne Luciano

Introduction

Health Web Science is an new discipline emerging from Web Science aimed at understanding the impact of the web on health and wellness. The Web Observatory (http://webscience.org/web-observatory/) is a global data resource for the advancement of economic & social prosperity. Sponsored by the Web Science Trust, a global not for profit institution with a secretariat at the University of Southampton that can leverage the web science research resources of the 15 University labs affiliated with the Web Science Trust (WSTnet) including Brazil, China, Korea, Europe and US, and the existing partnerships with W3C and the Web Foundation. The Web Observatory is in early stages and we will be looking to define and construct Heath and Life Science observations for Web Science research.

Proposed action points

Creating a Health Web Observatory

Confirmed Participants

  • Joanne Luciano


Bio2RDF r2 + SIO

Contact Point

Michel Dumontier

Introduction

Bio2RDF (http://bio2rdf.org) is an open source project that uses Semantic Web technologies to create and provide the largest network of Linked Data for the Life Sciences. At SWAT4LS we will present the 2nd release of the Bio2RDF project in which open-source scripts were updated and consolidated with GitHub, IRIs are mapped to canonical set using a new 2100+ dataset Life Sciences Registry, datasets are described along with summary statistics and provenance, and RDF files and Virtuoso databases are available for download or query. Bio2RDF also computes dataset connectivity that is compatible with SPARQLed, thus enabling assisted SPARQL queries and faceted searches using Virtuoso's native facet browser.

The Semanticscience Integrated Ontology (SIO) is a relatively new ontology that aims to facilitate the representation and integration of biological and biomedical data in a manner that is simpler and more flexible than other upper level ontologies. SIO considers three primary kinds of things : objects, processes and their attributes. It has over 180 object properties (1/2 are inverses) to more precisly describe the nature of the relationship, and a single datatype property to capture literals. SIO has been used to integrate over 700 SADI-based semantic web services and has been recently mapped to Bio2RDF types and relations to enable querying across similar and complementary datasets.

Proposed action points

Bio2RDF

  • Discuss recent developments and future plans
  • Develop overview web pages for each of the datasets, drawing from the LSR, dataset provenance and statistics
  • Develop simple intra and inter-dataset queries to demonstrate the potential of each dataset

SIO

  • Discuss basic structures & design patterns
  • Discuss user-driven use cases (gene expression, aggregation functions, gene associations, nanopublications)


Confirmed Participants

  • Michel Dumontier
  • Alison Callahan
  • Jose Cruz Toledo


CDA and Clinical Trial Protocols to RDF

Contact Point

Eric Prud'hommeaux

Introduction

The Project Cypress corpus test patients Cypress Profile provides a sizable group of patients with various characteristics, some of which may line up with some Trial Protocols from actual trials at MAASTRO clinic. This provides a good opportunity to demonstrate the power of expression protocols in a self-describing, machine-readable format, e.g. RDF.

Proposed action points

  • code inclusion/exclusion criteria in popular terminologies (e.g. SNOMED, LOINC)
  • code structural information in CDA model, e.g. diagnosis vs. prescribed treatment.
  • map CDA to RDF a la terminfo
  • match (subsets of) clincal trial criteria to patient records.

Confirmed Participants

  • M. Scott Marshall
  • Guoqian Jiang
  • Hugo Leroux
  • Trish Whetzel

Resources

  • PathwayCommons SPARQL endpoint. Endpoint over all BioPAX representations in PathwayCommons
  • Cytoscape plugin to visualize and interact with RDF knwoledge bases (new!)
  • BioQueries: social site to build SPARQL queries
  • Open PHACTS rdf guidelines: http://www.openphacts.org/specs/2012/WD-rdfguide-20120823/


Data Map

 @prefix rdf:     <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
 @prefix rdfs:    <http://www.w3.org/2000/01/rdf-schema#> .
 @prefix skos:    <http://www.w3.org/2004/02/skos/core#> .
 @prefix dcterms: <http://purl.org/dc/terms/> .
 @prefix wprdf:   <http://rdf.wikipathways.org/> .
 @prefix foaf:    <http://xmlns.com/foaf/0.1/> .
 @prefix wp:      <http://vocabularies.wikipathways.org/wp#> .
 @prefix biopax:  <http://www.biopax.org/release/biopax-level3.owl#> . 
 @prefix xsd:     <http://www.w3.org/2001/XMLSchema#> .    
 @prefix gpml:    <http://vocabularies.wikipathways.org/gpml#> .
 @prefix chembl:  <http://rdf.farmbio.uu.se/chembl/onto/#> .
 @prefix up:      <http://purl.uniprot.org/core/> .
 @prefix dbpedia: <http://dbpedia.org/page/> .
 @prefix pav:     <http://purl.org/pav/> .
 @prefix b2rreactome: <http://bio2rdf.org/reactome:>
 @prefix b2rbiopax: <http://bio2rdf.org/ns/biopax#>
 @prefix b2rbiopaxresource: <http://bio2rdf.org/biopax_resource:>
 @prefix up:  <http://purl.uniprot.org/core/>
 @prefix sio: <http://semanticscience.org/resource/>
 @prefix upcitation: <http://purl.uniprot.org/citations/>
 @prefix prov: <http://www.w3.org/ns/prov#>
 @prefix dc:      <http://purl.org/dc/elements/1.1/> .
 @prefix prov:    <http://www.w3.org/ns/prov#> .
 @prefix foaf:    <http://xmlns.com/foaf/0.1/> .
 @prefix aot:     <http://purl.org/ao/types/> .
 @prefix aos:     <http://purl.org/ao/selectors/> .
 @prefix sso:     <http://nlp2rdf.lod2.eu/schema/sso/> .
 @prefix void:    <http://rdfs.org/ns/void#> .
 @prefix pao:     <http://www.scai.fraunhofer.de/prominer/vocabular/pao#> .
 @prefix dcterms:  <http://purl.org/dc/terms/> .
 @prefix rdfs:    <http://www.w3.org/2000/01/rdf-schema#> .
 @prefix pav:     <http://purl.org/pav/> .
 @prefix ao:      <http://purl.org/ao/> .
 @prefix str:     <http://nlp2rdf.lod2.eu/schema/string/> .
 @prefix xsd:     <http://www.w3.org/2001/XMLSchema#> .
 @prefix base:    <http://www.scai.fraunhofer.de/rdf/intern/> .
 @prefix rdf:     <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
 @prefix skos:    <http://www.w3.org/2004/02/skos/core#> .
 @prefix scai:    <http://www.scai.fraunhofer.de/rdf/entity/> .
 
 <http://sparql.wikipathways.org> {
    # Sparql endpoint: http://sparql.wikipathways.org
    # Data: http://rdf.wikipathways.org
    # 
   <http://identifiers.org/ncbigene/1051> rdf:type wp:GeneProduct .
   <http://identifiers.org/ncbigene/1051> dcterms:isPartOf wprdf:WP3 .
   <http://identifiers.org/ncbigene/1051> rdfs:label "C/EBP-beta" .
   wprdf:WP3 rdf:type wp:Pathway .
   wp:Pathway skos:relatedMatch biopax:Pathway .
   wprdf:WP3 rdfs:label "Keap1-Nrf2 Pathway" .
   wprdf:WP3 dcterms:description """Based on Surh, 2003, figure 4 Nrf2 induces the expression of many
     antioxidant enzymes. It is therefore thought to be involved in oxidative stress response."""^^xsd:string. 
   wprdf:WP3 <http://purl.org/pav/version> "48217"^^xsd:string .
   wprdf:WP3 gpml:biopaxref "dba" .
   wprdf:WP3 gpml:height "731.0"^^xsd:float .
   wprdf:WP3 gpml:width "914.0"^^xsd:float .
   wprdf:WP3 wp:category wp:CellularProcess .
   wprdf:WP3 wp:organism <http://identifiers.org/taxonomy/9606> .
   wprdf:WP3 wp:pathwayOntology <http://purl.obolibrary.org/obo/PW:0000378> .
   wprdf:WP3 foaf:page "http://www.wikipathways.org/index.php/Pathway:WP3" .
   
 }
 <http://reactome.bio2rdf.org/sparql> {
   b2rreactome:Homo_sapiens-Apoptosis	rdf:type	b2rbiopax:Pathway .
   b2rreactome:Homo_sapiens-Apoptosis	rdf:type	b2rbiopaxresource:Pathway .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:name	"Apoptosis" .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:displayName	"Apoptosis" .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:xref	b2rreactome:Homo_sapiens-apoptosis .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:xref	b2rreactome:Homo_sapiens-Reactome109581 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:xref	b2rreactome:Homo_sapiens-REACT_578.2 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:xref	b2rreactome:Homo_sapiens-Pubmed_14561771 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:xref	b2rreactome:Homo_sapiens-Pubmed_4561027 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:xref	b2rreactome:Homo_sapiens-Pubmed_14634621 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:xref	b2rreactome:Homo_sapiens-Pubmed_15218528 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:xref	b2rreactome:Homo_sapiens-Pubmed_12505355 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:xref	b2rreactome:Homo_sapiens-Pubmed_12189384 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:xref	b2rreactome:Homo_sapiens-Pubmed_12209154 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:comment	"Apoptosis is a distinct form of cell death that is functionally and morphologically different from necrosis. Nuclear chromatin condensation, cytoplasmic shrinking, dilated endoplasmic reticulum, and membrane blebbing characterize apoptosis in general. Mitochondria remain morphologically unchanged. In 1972 Kerr et al introduced the concept of apoptosis as a distinct form of 'cell-death', and the mechanisms of various apoptotic pathways are still being revealed today. BRThe two principal  pathways of apoptosis are (1) the Bcl-2 inhibitable or intrinsic pathway induced by various forms of stress like intracellular damage, developmental cues, and external stimuli and (2) the caspase 8/10 dependent or extrinsic pathway initiated by the engagement of death receptorsBR The caspase 8/10 dependent or extrinsic pathway is a death receptor mediated mechanism that results in the activation of caspase-8 and caspase-10. Activation of death receptors like Fas/CD95, TNFR1, and the TRAIL receptor is promoted by the TNF family of ligands including FASL (APO1L OR CD95L), TNF, LT-alpha, LT-beta, CD40L, LIGHT, RANKL, BLYS/BAFF, and APO2L/TRAIL. These ligands are released  in response to microbial infection, or as part of the cellular, humoral immunity responses during the formation of lymphoid organs, activation of dendritic cells, stimulation or survival of T, B, and natural killer (NK) cells, cytotoxic response to viral infection or oncogenic transformation. BR The Bcl-2 inhibitable or intrinsic pathway of apoptosis is a stress-inducible process, and acts through the activation of caspase-9 via Apaf-1 and cytochrome c. The rupture of the mitochondrial membrane, a rapid process involving some of the Bcl-2 family proteins, releases these molecules into the cytoplasm. Examples of cellular processes that may induce the intrinsic pathway in response to various damage signals include: auto reactivity in lymphocytes, cytokine deprivation, calcium flux or cellular damage by cytotoxic drugs like taxol, deprivation of nutrients like glucose and growth factors like EGF, anoikis, transactivation of target genes by tumor suppressors including p53.BR In many non-immune cells, death signals initiated by the extrinsic pathway are amplified by connections to the intrinsic pathway. The connecting link appears to be the truncated BID (tBID) protein a proteolytic cleavage product mediated by caspase-8 or other enzymes." .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:comment	"Edited: Gopinathrao, G, Matthews, L, Gillespie, ME, Joshi-Tope, G, 0000-00-00 00:00:00" .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:comment	"Authored: Alnemri, E, Hengartner, M, Tschopp, J, Tsujimoto, Y, Hardwick, JM, 2004-01-16 16:01:51" .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:comment	"Reviewed: Hengartner, M, Ranganathan, S, Vaux, D, 0000-00-00 00:00:00" .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:dataSource	b2rreactome:Homo_sapiens-ReactomeDataSource .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:organism	b2rreactome:Homo_sapiens-Homo_sapiens .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:pathwayComponent	b2rreactome:Homo_sapiens-Extrinsic_Pathway_for_Apoptosis .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:pathwayComponent	b2rreactome:Homo_sapiens-Intrinsic_Pathway_for_Apoptosis .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:pathwayComponent	b2rreactome:Homo_sapiens-Activation_of__Effector_Caspases .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:pathwayComponent	b2rreactome:Homo_sapiens-Apoptotic_execution__phase .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:pathwayComponent	b2rreactome:Homo_sapiens-Regulation_of_Apoptosis .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:pathwayOrder	b2rreactome:Homo_sapiens-Apoptotic_execution__phaseStep .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:pathwayOrder	b2rreactome:Homo_sapiens-Extrinsic_Pathway_for_ApoptosisStep .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:pathwayOrder	b2rreactome:Homo_sapiens-Intrinsic_Pathway_for_ApoptosisStep .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:pathwayOrder	b2rreactome:Homo_sapiens-Regulation_of_ApoptosisStep .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopax:pathwayOrder	b2rreactome:Homo_sapiens-Activation_of__Effector_CaspasesStep .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:comment	"Apoptosis is a distinct form of cell death that is functionally and morphologically different from necrosis. Nuclear chromatin condensation, cytoplasmic shrinking, dilated endoplasmic reticulum, and membrane blebbing characterize apoptosis in general. Mitochondria remain morphologically unchanged. In 1972 Kerr et al introduced the concept of apoptosis as a distinct form of 'cell-death', and the mechanisms of various apoptotic pathways are still being revealed today. BRThe two principal  pathways of apoptosis are (1) the Bcl-2 inhibitable or intrinsic pathway induced by various forms of stress like intracellular damage, developmental cues, and external stimuli and (2) the caspase 8/10 dependent or extrinsic pathway initiated by the engagement of death receptorsBR The caspase 8/10 dependent or extrinsic pathway is a death receptor mediated mechanism that results in the activation of caspase-8 and caspase-10. Activation of death receptors like Fas/CD95, TNFR1, and the TRAIL receptor is promoted by the TNF family of ligands including FASL (APO1L OR CD95L), TNF, LT-alpha, LT-beta, CD40L, LIGHT, RANKL, BLYS/BAFF, and APO2L/TRAIL. These ligands are released  in response to microbial infection, or as part of the cellular, humoral immunity responses during the formation of lymphoid organs, activation of dendritic cells, stimulation or survival of T, B, and natural killer (NK) cells, cytotoxic response to viral infection or oncogenic transformation. BR The Bcl-2 inhibitable or intrinsic pathway of apoptosis is a stress-inducible process, and acts through the activation of caspase-9 via Apaf-1 and cytochrome c. The rupture of the mitochondrial membrane, a rapid process involving some of the Bcl-2 family proteins, releases these molecules into the cytoplasm. Examples of cellular processes that may induce the intrinsic pathway in response to various damage signals include: auto reactivity in lymphocytes, cytokine deprivation, calcium flux or cellular damage by cytotoxic drugs like taxol, deprivation of nutrients like glucose and growth factors like EGF, anoikis, transactivation of target genes by tumor suppressors including p53.BR In many non-immune cells, death signals initiated by the extrinsic pathway are amplified by connections to the intrinsic pathway. The connecting link appears to be the truncated BID (tBID) protein a proteolytic cleavage product mediated by caspase-8 or other enzymes." .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:comment	"Edited: Gopinathrao, G, Matthews, L, Gillespie, ME, Joshi-Tope, G, 0000-00-00 00:00:00" .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:comment	"Authored: Alnemri, E, Hengartner, M, Tschopp, J, Tsujimoto, Y, Hardwick, JM, 2004-01-16 16:01:51" .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:comment	"Reviewed: Hengartner, M, Ranganathan, S, Vaux, D, 0000-00-00 00:00:00" .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:organism	b2rreactome:Homo_sapiens-Homo_sapiens .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:pathwayComponent	b2rreactome:Homo_sapiens-Extrinsic_Pathway_for_Apoptosis .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:pathwayComponent	b2rreactome:Homo_sapiens-Intrinsic_Pathway_for_Apoptosis .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:pathwayComponent	b2rreactome:Homo_sapiens-Activation_of__Effector_Caspases .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:pathwayComponent	b2rreactome:Homo_sapiens-Apoptotic_execution__phase .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:pathwayComponent	b2rreactome:Homo_sapiens-Regulation_of_Apoptosis .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:xref	b2rreactome:Homo_sapiens-apoptosis .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:xref	b2rreactome:Homo_sapiens-Reactome109581 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:xref	b2rreactome:Homo_sapiens-REACT_578.2 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:xref	b2rreactome:Homo_sapiens-Pubmed_14561771 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:xref	b2rreactome:Homo_sapiens-Pubmed_4561027 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:xref	b2rreactome:Homo_sapiens-Pubmed_14634621 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:xref	b2rreactome:Homo_sapiens-Pubmed_15218528 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:xref	b2rreactome:Homo_sapiens-Pubmed_12505355 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:xref	b2rreactome:Homo_sapiens-Pubmed_12189384 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:xref	b2rreactome:Homo_sapiens-Pubmed_12209154 .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:pathwayOrder	b2rreactome:Homo_sapiens-Apoptotic_execution__phaseStep .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:pathwayOrder	b2rreactome:Homo_sapiens-Extrinsic_Pathway_for_ApoptosisStep .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:pathwayOrder	b2rreactome:Homo_sapiens-Intrinsic_Pathway_for_ApoptosisStep .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:pathwayOrder	b2rreactome:Homo_sapiens-Regulation_of_ApoptosisStep .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:pathwayOrder	b2rreactome:Homo_sapiens-Activation_of__Effector_CaspasesStep .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:dataSource	b2rreactome:Homo_sapiens-ReactomeDataSource .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:displayName	Apoptosis .
   b2rreactome:Homo_sapiens-Apoptosis	b2rbiopaxresource:name	"Apoptosis" .
   b2rreactome:Homo_sapiens-Apoptosis	dcterms:rights	<http://www.reactome.org/disclaimer.html> .
   b2rreactome:Homo_sapiens-Apoptosis	<http://bio2rdf.org/bio2rdf_resource:url>	<http://bio2rdf.org/html/reactome:Homo_sapiens-Apoptosis> .    
  }
 <http://rdf.farmbio.uu.se/chembl/sparql> {
   <http://linkedchemistry.info/chembl/assay/a325093> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://rdf.farmbio.uu.se/chembl/onto/#Assay> .
   <http://linkedchemistry.info/chembl/assay/a325093> <http://www.w3.org/2000/01/rdf-schema#label> "CHEMBL860910" .
   <http://linkedchemistry.info/chembl/chemblid/CHEMBL860910> <http://www.w3.org/2002/07/owl#equivalentClass> <http://linkedchemistry.info/chembl/assay/a325093> .
   <http://linkedchemistry.info/chembl/assay/a325093> <http://www.w3.org/2002/07/owl#equivalentClass> <http://linkedchemistry.info/chembl/chemblid/CHEMBL860910> .
   <http://linkedchemistry.info/chembl/chemblid/CHEMBL860910> <http://semanticscience.org/resource/CHEMINF_000200> <http://linkedchemistry.info/chembl/chemblid/CHEMBL860910/chemblid> .
   <http://linkedchemistry.info/chembl/chemblid/CHEMBL860910/chemblid> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://semanticscience.org/resource/CHEMINF_000412> .
   <http://linkedchemistry.info/chembl/chemblid/CHEMBL860910/chemblid> <http://semanticscience.org/resource/SIO_000300> "CHEMBL860910" .
   <http://linkedchemistry.info/chembl/assay/a325093> <http://rdf.farmbio.uu.se/chembl/onto/#hasDescription> "Average Binding Constant for CAMK2B ; NA=Not Active at 10 uM" .
   <http://linkedchemistry.info/chembl/assay/a325093> <http://purl.org/spar/cito/citesAsDataSource> <http://linkedchemistry.info/chembl/resource/r30300> .
   <http://linkedchemistry.info/chembl/assay/a325093> <http://rdf.farmbio.uu.se/chembl/onto/#hasAssayType> <http://rdf.farmbio.uu.se/chembl/onto/#Binding> .
   <http://linkedchemistry.info/chembl/activity/a1650154> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://rdf.farmbio.uu.se/chembl/onto/#Activity> .
   <http://linkedchemistry.info/chembl/activity/a1650154> <http://purl.org/spar/cito/citesAsDataSource> <http://linkedchemistry.info/chembl/resource/r30300> .
   <http://linkedchemistry.info/chembl/activity/a1650154> <http://rdf.farmbio.uu.se/chembl/onto/#onAssay> <http://linkedchemistry.info/chembl/assay/a325093> .
   <http://linkedchemistry.info/chembl/activity/a1650154> <http://rdf.farmbio.uu.se/chembl/onto/#forMolecule> <http://linkedchemistry.info/chembl/molecule/m604615> .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <molecule> .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://purl.org/spar/cito/citesAsDataSource> <http://linkedchemistry.info/chembl/resource/r13282> .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://www.w3.org/2000/01/rdf-schema#subClassOf> <http://semanticscience.org/resource/CHEMINF_000000> .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://purl.obolibrary.org/obo#has_role> <http://purl.org/obo/owl/CHEBI#CHEBI_23888> .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://www.w3.org/2002/07/owl#equivalentClass> <http://bio2rdf.org/chebi:100443> .
   <http://linkedchemistry.info/chembl/chemblid/CHEMBL268854> <http://www.w3.org/2002/07/owl#equivalentClass> <http://linkedchemistry.info/chembl/molecule/m443> .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://www.w3.org/2002/07/owl#equivalentClass> <http://linkedchemistry.info/chembl/chemblid/CHEMBL268854> .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://www.w3.org/2000/01/rdf-schema#label> "CHEMBL268854" .
   <http://linkedchemistry.info/chembl/chemblid/CHEMBL268854> <http://semanticscience.org/resource/CHEMINF_000200>       <http://linkedchemistry.info/chembl/chemblid/CHEMBL268854/chemblid> .
   <http://linkedchemistry.info/chembl/chemblid/CHEMBL268854/chemblid> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type>      <http://semanticscience.org/resource/CHEMINF_000412> .
   <http://linkedchemistry.info/chembl/chemblid/CHEMBL268854/chemblid> <http://semanticscience.org/resource/SIO_000300> "CHEMBL268854" .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://semanticscience.org/resource/CHEMINF_000200> <http://linkedchemistry.info/chembl/molecule/m443/molform> .
   <http://linkedchemistry.info/chembl/molecule/m443/molform> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://semanticscience.org/resource/CHEMINF_000042> .
   <http://linkedchemistry.info/chembl/molecule/m443/molform> <http://semanticscience.org/resource/SIO_000300> "C27H23ClN4O2" .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://www.blueobelisk.org/chemistryblogs/smiles> "Cc1nc(O)c2cc(CN(CC#C)c3ccc(cc3)C(=O)NCc4ccc(Cl)cc4)ccc2n1" .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://semanticscience.org/resource/CHEMINF_000200> <http://linkedchemistry.info/chembl/molecule/m443/smiles> .
   <http://linkedchemistry.info/chembl/molecule/m443/smiles> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://semanticscience.org/resource/CHEMINF_000018> .
   <http://linkedchemistry.info/chembl/molecule/m443/smiles> <http://semanticscience.org/resource/SIO_000300> "Cc1nc(O)c2cc(CN(CC#C)c3ccc(cc3)C(=O)NCc4ccc(Cl)cc4)ccc2n1" .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://www.blueobelisk.org/chemistryblogs/inchi> "InChI=1S/C27H23ClN4O2/c1-3-14-32(17-20-6-13-25-24(15-20)27(34)31-18(2)30-25)23-11-7-21(8-12-23)26(33)29-16-19-4-9-22(28)10-5-19/h1,4-13,15H,14,16-17H2,2H3,(H,29,33)(H,30,31,34)" .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://semanticscience.org/resource/CHEMINF_000200> <http://linkedchemistry.info/chembl/molecule/m443/inchi> .
   <http://linkedchemistry.info/chembl/molecule/m443/inchi> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://semanticscience.org/resource/CHEMINF_000113> .
   <http://linkedchemistry.info/chembl/molecule/m443/inchi> <http://semanticscience.org/resource/SIO_000300> "InChI=1S/C27H23ClN4O2/c1-3-14-32(17-20-6-13-25-24(15-20)27(34)31-18(2)30-25)23-11-7-21(8-12-23)26(33)29-16-19-4-9-22(28)10-5-19/h1,4-13,15H,14,16-17H2,2H3,(H,29,33)(H,30,31,34)" .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://www.w3.org/2002/07/owl#equivalentClass> <http://rdf.openmolecules.net/?InChI=1S/C27H23ClN4O2/c1-3-14-32(17-20-6-13-25-24(15-20)27(34)31-18(2)30-25)23-11-7-21(8-12-23)26(33)29-16-19-4-9-22(28)10-5-19/h1,4-13,15H,14,16-17H2,2H3,(H,29,33)(H,30,31,34)> .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://www.blueobelisk.org/chemistryblogs/inchikey> "IQCINSLNRQILLY-UHFFFAOYSA-N" .
   <http://linkedchemistry.info/chembl/molecule/m443> <http://semanticscience.org/resource/CHEMINF_000200> <http://linkedchemistry.info/chembl/molecule/m443/inchikey> .
   <http://linkedchemistry.info/chembl/molecule/m443/inchikey> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://semanticscience.org/resource/CHEMINF_000059> .
   <http://linkedchemistry.info/chembl/molecule/m443/inchikey> <http://semanticscience.org/resource/SIO_000300> "IQCINSLNRQILLY-UHFFFAOYSA-N" .
 }
 <http://beta.sparql.uniprot.org/> {
      <http://purl.uniprot.org/uniprot/Q6GZX4>	rdf:type	 up:Protein .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	rdfs:label	 "Putative transcription factor 001R" .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:citation	 upcitation:15165820 .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:classifiedWith	 <http://purl.uniprot.org/keywords/10> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:classifiedWith	 <http://purl.uniprot.org/go/0006351> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:classifiedWith	 <http://purl.uniprot.org/keywords/805> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:classifiedWith	 <http://purl.uniprot.org/go/0006355> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:classifiedWith	 <http://purl.uniprot.org/keywords/1185> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:classifiedWith	 <http://purl.uniprot.org/go/0046782> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:existence	 up:Predicted_Existence .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:organism	 <http://purl.uniprot.org/taxonomy/654924 .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:recommendedName	 <http://purl.uniprot.org/SHA-384/0777234937D8B63494C8D5F1E2AA13EA7B92452085F2FD9AA79C8DF96BF8234173E353B71AB291B114FFF71D7DB823AE> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:representativeFor	 <http://purl.uniprot.org/uniref/UniRef50_Q6GZX4> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:representativeFor	 <http://purl.uniprot.org/uniref/UniRef100_Q6GZX4> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:representativeFor	 <http://purl.uniprot.org/uniref/UniRef90_Q6GZX4> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:seedFor	 <http://purl.uniprot.org/uniref/UniRef100_Q6GZX4> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:seedFor	 <http://purl.uniprot.org/uniref/UniRef90_Q6GZX4> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:sequence	 <http://purl.uniprot.org/isoforms/Q6GZX4-1> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:created	 "2011-06-28" .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:mnemonic	 "001R_FRG3G" .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:modified	 "2012-04-18" .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:reviewed	 "true" .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	up:version	 "24" .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	rdfs:seeAlso	 <http://purl.uniprot.org/embl-cds/AAT09660.1> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	rdfs:seeAlso	 <http://purl.uniprot.org/refseq/YP_031579.1> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	rdfs:seeAlso	 <http://purl.uniprot.org/proteinmodelportal/Q6GZX4> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	rdfs:seeAlso	 <http://purl.uniprot.org/geneid/2947773> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	rdfs:seeAlso	 <http://purl.uniprot.org/protclustdb/CLSP2511514> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	rdfs:seeAlso	 <http://purl.uniprot.org/interpro/IPR007031> .
  <http://purl.uniprot.org/uniprot/Q6GZX4>	rdfs:seeAlso	 <http://purl.uniprot.org/pfam/PF04947> .
     upcitations:15165820	rdf:type	up:Journal_Citation .
  upcitations:15165820	rdfs:comment	"Frog virus 3 (FV3) is the type species member of the genus Ranavirus (family Iridoviridae). To better understand the molecular mechanisms involved in the replication of FV3	 including transcription of its highly methylated DNA genome	 we have determined the complete nucleotide sequence of the FV3 genome. The FV3 genome is 105903 bp long excluding the terminal redundancy. The G + C content of FV3 genome is 55% and it encodes 98 nonoverlapping potential open reading frames (ORFs) containing 50-1293 amino acids. Eighty-four ORFs have significant homology to known proteins of other iridoviruses	 whereas twelve of these unique FV3 proteins do not share homology to any known protein. A microsatellite containing a stretch of 34 tandemly repeated CA dinucleotide in a noncoding region was detected. To date	 no such sequence has been reported in any animal virus." .
  upcitations:15165820	up:name	"Virology" .
  upcitations:15165820	up:author	"Barkman T.J." .
  upcitations:15165820	up:author	"Essani K." .
  upcitations:15165820	up:author	"Tan W.G." .
  upcitations:15165820	up:author	"Gregory Chinchar V." .
  upcitations:15165820	up:date	"2004" .
  upcitations:15165820	up:pages	"70-84" .
  upcitations:15165820	up:title	"Comparative genomic analyses of frog virus 3	 type species of the genus Ranavirus (family Iridoviridae)." .
  upcitations:15165820	up:volume	"323" .
  upcitations:15165820	skos:exactMatch	http://purl.uniprot.org/pubmed/15165820 .
  upcitations:15165820	dcterms:identifier	"doi:10.1016/j.virol.2004.02.019" .
  }
  # EBI gene expression atlas
  <http://wwwdev.ebi.ac.uk/fgpt/gxa-sparql/sparql> {
    # main linking point to the GXA data is the ensembl id and the uniprot id.  
    <http://identifiers.org/ensembl/ENSG00000116962> sio:'encodes' <http://identifiers.org/ensembl/ENSP00000264187> .
    <http://identifiers.org/ensembl/ENST00000264187> sio:'translatedTo' <http://identifiers.org/ensembl/ENSP00000264187> .
    <http://identifiers.org/ensembl/ENST00000264187> rdfs:seeAlso ?uniprotProtein .
    # differential expression value
    ?diffexp a sio:'differential gene expression value' .
    ?diffexp sio:'is attribute of' <http://identifiers.org/ensembl/ENSG00000116962> .
    ?diffexp sio:'has value' ?diffvalue . # e.g. UP, DOWN  
    ?diffexp sio'has attribute' [ a sio:p_value; sio:has-value 0.00005] .
    # experiment factor from EFO 
    ?iv  a sio:'independent variable' .
    ?iv sio:'represents' efo:'experimental factor' . 
    ?iv sio:'in relation to' ?diffexp . 
 }
 # parses up to here.
   http://ops-virtuoso.scai.fraunhofer.de:8894/sparql {
  <http://www.scai.fraunhofer.de/rdf/entity/CC_BY-SA_3.0>
     a       dcterms:LicenseDocument ;
     rdfs:label "CC BY-SA 3.0"^^xsd:string ;
     dcterms:references "https://creativecommons.org/licenses/by-sa/3.0/"^^xsd:string ;
     dcterms:valid "2013-02-01T13:59:07.098Z"^^xsd:dateTime .
     scai:Fraunhofer_SCAI
     a       foaf:Organization , prov:Agent ;
     rdfs:label "Fraunhofer SCAI"^^xsd:string .
    <http://www.scai.fraunhofer.de/rdf/intern/medline12short.xml>
     a       prov:Entity , pao:DocumentSet ;
     dcterms:title "medline12short.xml"^^xsd:string .
    <http://www.scai.fraunhofer.de/rdf/intern/Department_of_Diagnostic_Radiology__Yale_University_School_of_Medicine__New_Haven__Conn.__USA.>
     a       foaf:Organization ;
     rdfs:label "Department of Diagnostic Radiology, Yale University School of Medicine, New Haven, Conn., USA."@en ;
     foaf:member base:Charney__D_S , base:Bremner__J_D , base:Southwick__S_M , base:Staib__L_H , base:McGlashan__T , base:Narayan__M .
     scai:XMLAnnotator
     a       prov:Activity ;
     prov:endedAtTime "2012-08-06T12:59:07.1Z"^^xsd:dateTime ;
     prov:startedAtTime "2012-08-06T12:59:07.1Z"^^xsd:dateTime ;
     prov:used <http://www.scai.fraunhofer.de/rdf/intern/medline12short.xml> ;
     prov:wasAssociatedWith
             scai:chaupt .
     base:Staib__L_H
     a       foaf:Person , dcterms:Agent ;
     rdfs:label "Staib, L H"^^xsd:string .
     scai:chaupt
     a       foaf:Person , dcterms:Agent , prov:Agent ;
     rdfs:label "chaupt"^^xsd:string ;
     prov:actedOnBehalfOf
             scai:Fraunhofer_SCAI ;
     foaf:member scai:Fraunhofer_SCAI .
    <http://www.scai.fraunhofer.de/rdf/intern/medline12short.xml_XMLAnnotator>
     a       <http://purl.org/dc/dcmitype/Dataset> , prov:Entity , pao:DocumentSet ;
     ao:item <http://www.scai.fraunhofer.de/rdf/intern/10553744> ;
     dcterms:creator scai:chaupt ;
     dcterms:license <http://www.scai.fraunhofer.de/rdf/entity/CC_BY-SA_3.0> ;
     dcterms:rightsHolder
             scai:chaupt ;
     dcterms:title "medline12short.xml_XMLAnnotator"^^xsd:string ;
     prov:atTime "2012-11-12T13:59:07.097Z"^^xsd:dateTime ;
     prov:wasAttributedTo
             scai:chaupt ;
     prov:wasDerivedFrom <http://www.scai.fraunhofer.de/rdf/intern/medline12short.xml> ;
     prov:wasGeneratedBy scai:XMLAnnotator .
     base:Charney__D_S
     a       foaf:Person , dcterms:Agent ;
     rdfs:label "Charney, D S"^^xsd:string .
    base:Bremner__J_D
     a       foaf:Person , dcterms:Agent ;
     rdfs:label "Bremner, J D"^^xsd:string .
     base:Southwick__S_M
     a       foaf:Person , dcterms:Agent ;
     rdfs:label "Southwick, S M"^^xsd:string .
     base:The_American_journal_of_psychiatry
     a       dcterms:Agent ;
     rdfs:label "The American journal of psychiatry"^^xsd:string .
     <http://www.scai.fraunhofer.de/rdf/intern/10553744>
     a       str:Document ;
     dcterms:creator base:Charney__D_S , base:Bremner__J_D , base:Southwick__S_M , base:Staib__L_H , base:McGlashan__T , base:Narayan__M ;
     dcterms:date "1999-10-31T13:59:07.1Z"^^xsd:dateTime ;
     dcterms:identifier "10553744"^^xsd:string ;
     dcterms:publisher base:The_American_journal_of_psychiatry ;
     dcterms:source "file://medline12short.xml"^^xsd:string ;
     dcterms:title "Neural correlates of memories of childhood sexual abuse in women with and without posttraumatic stress disorder."@en .
     base:McGlashan__T
     a       foaf:Person , dcterms:Agent ;
     rdfs:label "McGlashan, T"^^xsd:string .
     base:Narayan__M
     a       foaf:Person , dcterms:Agent ;
     rdfs:label "Narayan, M"^^xsd:string .
 }
 :Linksets {
   up:Q12345 skos:broadMatch end:000xxxxx .
 }

# VoID

<http://sparql.wikipathways.org>
pav:createdOn "2012-10-25"^^xsd:date ;
pav:createdBy <https://orcid.org/0000-0001-9773-4008>  ;
pav:createdAt dbpedia:Maastricht_University  ;
dcterms:license <http://creativecommons.org/licenses/by/3.0/> .
void:sparqlEndpoint <http://sparql.wikipathways.org> .
void:triples "1794104"^^xsd:integer ;
:ChEMBL
pav:createdOn "2012-10-25"^^xsd:date ;
void:foo void:bar .

Triplestore map

WikiPathways
foaf:page http://www.wikipathways.org
void:sparqlEndpoint http://sparql.wikipathways.org
void:uriLookupEndpoint http://rdf.wikipathways.org
prov:deployedSoftware dbpedia:Virtuoso_Universal_Server
:ChEMBL-RDF
foaf:page https://github.com/egonw/chembl.rdf
void:sparqlEndpoint http://rdf.farmbio.uu.se/chembl/sparql
void:sparqlEndpoint http://ragamuffin.bigcat.unimaas.nl/chembl/sparql
prov:deployedSoftware dbpedia:Virtuoso_Universal_Server
:Uniprot
foaf:page http://www.uniprot.org
void:sparqlEndpoint http://beta.sparql.uniprot.org
:Gene expression atlas
foaf:page tba
void:sparqlEndpoint http://wwwdev.ebi.ac.uk/fgpt/gxa-sparql/sparql
Retrieved from "https://www.w3.org/wiki/index.php?title=HCLS/SWAT4LS2012/Hackathon&oldid=65512"