From 002f75eeff84a0eda49c7bc564e1f90bcdbbf10f Mon Sep 17 00:00:00 2001 From: rautenberg Date: Thu, 26 Jan 2017 10:25:20 +0100 Subject: first version of integration poster --- markdown_blocks/integration_diagram.md | 2 +- markdown_blocks/integration_links.md | 6 +++--- markdown_blocks/integration_summary.md | 4 ++-- markdown_blocks/integration_text.md | 12 ++++++------ markdown_blocks/services_sparql.md | 3 +++ nmsa-ist-integration.pdf | Bin 0 -> 339044 bytes nmsa-ist-integration.tex | 33 ++++++++++++++++++--------------- nmsa-ist-rest.pdf | Bin 735435 -> 735435 bytes nmsa-ist-services.pdf | Bin 355238 -> 355395 bytes nmsa-ist-services.tex | 6 +++--- 10 files changed, 36 insertions(+), 30 deletions(-) create mode 100644 nmsa-ist-integration.pdf diff --git a/markdown_blocks/integration_diagram.md b/markdown_blocks/integration_diagram.md index f3ff4ba..8330eeb 100644 --- a/markdown_blocks/integration_diagram.md +++ b/markdown_blocks/integration_diagram.md @@ -1 +1 @@ -![nano-lazar\cite{gebele_denis_2017_250818}\cite{helma_christoph_2016_215483}\cite{rautenberg_micha_2016_187328} integration](./images/integration.pdf "nano-lazar integration"){width=100%} \ No newline at end of file +![`nano-lazar` integration](./images/integration.pdf "nano-lazar integration"){width=100%} \ No newline at end of file diff --git a/markdown_blocks/integration_links.md b/markdown_blocks/integration_links.md index 96139e7..666ee0e 100644 --- a/markdown_blocks/integration_links.md +++ b/markdown_blocks/integration_links.md @@ -2,11 +2,11 @@ * eNM ontologies -* nano-lazar GUI +* `nano-lazar` GUI -* eNM ontology viewer +* eNM `ontology viewer` -* nano-lazar REST interface +* `nano-lazar` REST interface * eNM SPARQL interface diff --git a/markdown_blocks/integration_summary.md b/markdown_blocks/integration_summary.md index e6e3a13..852bb1b 100644 --- a/markdown_blocks/integration_summary.md +++ b/markdown_blocks/integration_summary.md @@ -1,6 +1,6 @@ -During the eNanoMapper project in silico toxicologies (IST) public services +During the eNanoMapper project *in silico* toxicologies (IST) public services were adapted to the specification of the eNanoMapper API and new nanoparticle -specific developments were implemented. This poster depicts the +specific developments were implemented. This poster depicts the interaction of IST services with eNanoMapper resources of other partners which covers use cases like data download/mirroring, augmentation of GUIs with ontology queries and nanoparticle descriptor calculation. diff --git a/markdown_blocks/integration_text.md b/markdown_blocks/integration_text.md index 78714ad..5e11d31 100644 --- a/markdown_blocks/integration_text.md +++ b/markdown_blocks/integration_text.md @@ -1,31 +1,31 @@ -## `lazar` +**`lazar`** \cite{helma_2017}\cite{helma_christoph_2016_215483} - Mirrors eNanoMapper data for read-across models - Creates read-across predictions for the `nano-lazar` webinterface - Responds to requests from the `lazar-rest` interface (e.g. nanoparticle predictions, model creation and validation, descriptor calculation) -## RDF store +**RDF store** - Mirrors eNanoMapper data and ontologies - Responds to SPARQL queries from the ontology viewer and the SPARQL interface -## `nano-lazar` GUI +**`nano-lazar` GUI** \cite{gebele_denis_2017_250818} - Obtains nanoparticle toxicity predictions from the `lazar` library - Uses ontologies (eNanoMapper, BioPortal, UniProt) to explain domain specific terms in the user interface - Uses ontologies and eNanoMapper data as supporting information for read-across predictions -## eNM ontology viewer +**eNM `ontology viewer`** - Sends SPARQL queries to the RDF store - Visualises RDF response from the RDF store -## nano-lazar REST interface +**`nano-lazar` REST interface** \cite{rautenberg_micha_2016_187328} - Interacts with the `lazar` library (e.g. for toxicity predictions, model creation and validation, descriptor calculation) - Will be maintained and developed in the FP7 OpenRiskNet project -## eNM SPARQL interface +**eNM SPARQL interface** - Sends SPARQL queries to the RDF store - Receives SPARQL query results in different formats diff --git a/markdown_blocks/services_sparql.md b/markdown_blocks/services_sparql.md index b2a9562..1b51e8c 100644 --- a/markdown_blocks/services_sparql.md +++ b/markdown_blocks/services_sparql.md @@ -5,3 +5,6 @@ SPARQL query interface for eNanoMapper data and ontologies * Documentation + +* Docker image + \ No newline at end of file diff --git a/nmsa-ist-integration.pdf b/nmsa-ist-integration.pdf new file mode 100644 index 0000000..f6b77a4 Binary files /dev/null and b/nmsa-ist-integration.pdf differ diff --git a/nmsa-ist-integration.tex b/nmsa-ist-integration.tex index c472e36..2f473ff 100644 --- a/nmsa-ist-integration.tex +++ b/nmsa-ist-integration.tex @@ -1,31 +1,40 @@ \documentclass[final]{beamer} \usetheme{IST} -\usepackage[orientation=portrait,size=a0,scale=1.4,debug]{beamerposter} % poster size +\usepackage[orientation=portrait,size=a0,scale=1.3,debug]{beamerposter} % poster size \usepackage[absolute,overlay]{textpos} \usepackage[utf8]{inputenc} \setlength{\TPHorizModule}{1cm} \setlength{\TPVertModule}{1cm} -\title{Integration of the in silico toxicology services in the eNanoMapper infrastructure } +\title{Integration of in silico toxicology services in the \\ eNanoMapper infrastructure } \author{C. Helma, D. Gebele, M. Rautenberg} \institute{\emph{in silico} toxicology gmbh, Basel, Switzerland} -\footer{Contact: \texttt{support@in-silico.ch}. Information: \texttt{www.in-silico.ch}} +\footer{Contact: \texttt{support@in-silico.ch}. Information: \texttt{www.in-silico.ch} \\ \emph{in silico} toxicology gmbh - Rastatterstrasse 41 - CH-4057 Basel, Switzerland } \begin{document} \begin{frame}{} - \begin{textblock}{40.5}(1,11) + \begin{textblock}{40.5}(1,10) \begin{block}{Abstract} \input{./markdown_blocks/integration_summary} \end{block} + \begin{exampleblock}{Links} + \input{./markdown_blocks/integration_links} + \end{exampleblock} + + + \begin{block}{References} + \small\bibliography{references} + \end{block} + \end{textblock} - \begin{textblock}{40.5}(42.6,11) + \begin{textblock}{40.5}(42.6,10) - \begin{block}{Text} + \begin{block}{Integration details} \input{./markdown_blocks/integration_text} \end{block} @@ -33,23 +42,17 @@ - \begin{textblock}{82.1}(1,28) + \begin{textblock}{82.1}(1,50) \input{./markdown_blocks/integration_diagram} \end{textblock} - \begin{textblock}{40.5}(1,90) + \begin{textblock}{40.5}(1,82) - \begin{exampleblock}{Links} - \input{./markdown_blocks/integration_links} - \end{exampleblock} \end{textblock} - \begin{textblock}{40.5}(42.6,90) + \begin{textblock}{40.5}(42.6,82) - \begin{block}{References} - \small\bibliography{references} - \end{block} \end{textblock} diff --git a/nmsa-ist-rest.pdf b/nmsa-ist-rest.pdf index e224de2..a2ee10a 100644 Binary files a/nmsa-ist-rest.pdf and b/nmsa-ist-rest.pdf differ diff --git a/nmsa-ist-services.pdf b/nmsa-ist-services.pdf index 38305a2..5803260 100644 Binary files a/nmsa-ist-services.pdf and b/nmsa-ist-services.pdf differ diff --git a/nmsa-ist-services.tex b/nmsa-ist-services.tex index de52529..9ab14ef 100644 --- a/nmsa-ist-services.tex +++ b/nmsa-ist-services.tex @@ -37,7 +37,7 @@ \input{./markdown_blocks/services_lazar-rest} \end{block} - \begin{block}{SPARQL endpoint to eNM ontology and data} + \begin{block}{SPARQL endpoint for eNM ontology and data} \input{./markdown_blocks/services_sparql} \end{block} @@ -49,11 +49,11 @@ \input{./markdown_blocks/services_ontoviewer} \end{block} - \begin{block}{QSAR-reporting} + \begin{block}{\tt{qsar-report}} \input{./markdown_blocks/services_qsar-report} \end{block} - \begin{block}{Authorization \& Authentication} + \begin{block}{Authorization \& authentication} \input{./markdown_blocks/services_aa} \end{block} -- cgit v1.2.3