Transcript Diapositive 1

The EVI-Genoret Database – WP16
http://www-genoret.u-strasbg.fr/genoret
Guillaume Berthommier¹, Dominique Santiard-Baron², Olivier Poch¹ and Raymond Ripp¹
¹ Laboratoire de BioInformatique et Génomique Intégratives IGBMC (CNRS – UMR 7104), 1 rue Laurent Fries, Illkirch 67404, Strasbourg France
² Laboratoire de Physiopathologie Cellulaire et Moléculaire de la Rétine
Inserm U592 184 rue du Faubourg Saint-Antoine 75571 PARIS Cedex 12
The aim of the Genoret Database is to centralise phenotypic, genomic and proteomic data concerning retinal diseases as well as data
concerning patients. This should allow implementation of standards and permit the establishment of common information networking
systems. The Genoret Database is a Relational Database whose advantage is to store heterogeneous data in a standard format. It
provides an easy manual or automatic access, allowing direct deposits focused on workpackages and workpackage deliverables.
120 People – 24 Centres - 4693 patient data – 25 transcriptomics experiments – 3699 Genoret Genes – 434 raw datafiles – 50 SOPs
902 annotated ISH images – 28 Publications – 22 Importants Documents – 40 000 lines of PHP, Javascript, Tcl – 1720 emails
People
Who’s who
Database
Genomics :
Uploading Mail
OMIM, Mutations,
Genetic linkage, SNPs,
MiRNA, …
Reporting Online
Phenotyping Database
RetScope protocols
Transcriptomics,
Proteomics, RetChip
External Clinical Data
Results
Clinical Data
Patient data are
available through
connection to the
different centres.
Level 1 querying is
centralized.
… your own database
Genoret Genes
WPs & Components
A Phenotyping
B Development
C Genetics
D Therapy
E Functional Genomics
T Transversal
Centres are directly queried
through
secure
connections
using SSL and
WebSphere.
Groups of members can be
defined to allow precise access rights.
A group can be a WP, a set of users or
a set of other groups.
The hierachical tree
organisation of SOPs and raw
datafiles is used to store the
user uploaded datafiles and
offers an interactive tool for
uploading and retrieval for
various domains such as :
Login to the Genoret Database and give
your password. Now you are recognised by
the system. This allows ownership of data
and access rights.
Browse and Search through the
Genoret website links and query tools, within
the centralised information or connect to
external databases.
Mutations
The retinal related
mutations are stored
and analysed in
our database.
Contact easily any sub-group of
Genoret members, copy-paste their mail
addresses. If you need to have access to
protected data send a mail to the owner and
get authorisation.
Upload your own data.
Transcriptomics and
proteomics
For this, go to the right Gallery
and open the UploadForm 
select your file, choose a
visibility group and fill in title
and description. Submit.
Annotate your images, diagrams or
any other kind of stuctured information with
the standardised annotion tool ImAnno.
Query within Genoret and all related
databases through complex and elaborated
querying tools. Create yourself new queries
and share them with the genoret community.
SOPs, Meetings,
Training, Reports,
Publications, …
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integrated in the database.
Genes are central,
links are established
to almost all other
kind of information
Display through well formatted pages or
graphical visualisation tools the results of
your query. Retrieve it easily in Excel format.
EVI-GENORET Integrated Project LSHG-CT-2005-512036
ImAnno Eye Fundus
and ISH annotation