The PhysiomeSpace data sharing service and the new VPH-Share end-user interface

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1 The PhysiomeSpace data sharing service and the new end-user interface Matteo Balasso SCS srl, Italy

2 Outline Introduction Past experience: PhysiomeSpace user interface

3 Knowledge sharing Sharing data, models and knowledge in general is more and more a need in the biomedical community Nature has dedicated special issues to this topic NIH promotes sharing of data and literature from funded-project and many other initiatives

4 Knowledge sharing Sharing is still somehow limited: Number of software solutions available None really comprehensive Most limited in scope Many tools released but then dropped out Legal and ethical issues Efforts have been pursued also in the VPH community

Knowledge sharing One of the most long term software solution within the biomedical community is PhysiomeSpace Environment for the sharing of biomedical data Data

5 Knowledge sharing One of the most long term software solution within the biomedical community is PhysiomeSpace Environment for the sharing of biomedical data Data access in full control of the data owner First implementation from the LHDL EC-funded project Further functionalities and and maintained carried out within the VPHOP project

to: import almost any type of biomedical data visualise the data annotate the data

6 PhysiomeSpace A web interface to: annotate your data share the data with other users search for new data select data for downloading into your PC A client application to: import almost any type of biomedical data visualise the data annotate the data upload the data to the repository download the selected data

7 PhysiomeSpace

8 PhysiomeSpace The service has now More than 200 users 4 projects hosted More than 2500 shared resources Main limitations: Data are shared with limited information associated (no semantics) Sharing limited to data and not to the process to generate the data itself Others

9 It aims to provide the infostructure which will allow researches to share data, models and knowledge A new web interface (Master Interface) is being implemented which will integrate PhysiomeSpace basic data sharing functionalities The advanced services developed by to share models and workflows along with data so to allow generation of new knowledge User-friendly to be used by domain experts not developers

Annotation Access to services descriptions Add new services Execute pre-defined/saved

10 Master interface Master interface client Log/register Access to data (preview) Upload/download data (small files) Manage access permissions to data and services Search Annotation Access to services descriptions Add new services Execute pre-defined/saved workflows Dashboard to monitor workflows execution Log in Upload/download data (big files) Build / compose new workflows

11 Master Interface: Technologies Python programming language Open Source Cross Platform General purpose Multiple programming paradigm High productivity

12 Master Interface: Technologies Django web framework Open Source Cross Platform Secure and Extensible Model View Controller Pattern Alive and Active Community Complete Documentation

13 Master Interface: Sections Home From this section the user can: Be welcome Read about the Project details Access to all sections

14 Master Interface: Sections Cloud Manager From this section the authenticated user can: Deploy a Virtual Machine Instance into the Cloud Invoke a running Atomic Service List active Workflows

15 Master Interface: Sections Data Manager From this section the authenticated user can: Upload a file into the cloud storage service LOBDCER Download a file from the cloud storage service LOBDCER

Master Interface: Sections Workflows From this section the authenticated user can: Download a Workflow Definition File Upload a new Workflow

16 Master Interface: Sections Workflows From this section the authenticated user can: Download a Workflow Definition File Upload a new Workflow Definition File The Workflow Definition Files (*.t2flow) are meant to be loaded, edited and launched with the user s local Taverna Workbench Application

17 Master Interface: Sections Contact From this section the user can: Send a message to the system administrators

18 Master Interface: Sections Help From this section the user can: Read help text about the different sections

19 Master Interface: Sections Profile From this section the authenticated user can: Review his/her personal attributes Review his/her Authentication Ticket (further details will be provided later)

20 Some future developments Expose all other services Integrated with the PhysiomeSpace storage services Preview with 3D shapes of organs and icons of the information available

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