Presentation for the Digital Repositories e-Science Network to introduce the new JISC-funded project which aims to deliver Google Maps for Developmental Biology.
Rapid Giving Computational Science A Friendly Face
Next Generation Embryology
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Next Generation Embryology
Jano van Hemert
research.nesc.ac.uk
has 10% of the UK’s world-leading computer scientists
2. Project stats
• Runs 1 April 2009–30 Sept 2010
• Part of: JISC Information Environment
• “Repositories: enhancement” (A5)
• 1 software engineer @ Edinburgh
• 1 user engagement office @ Newcastle
funded by U
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5. Study development?
• 3% of live-born babies display a major
congenital abnormality
• Birth defects account for 21% of infant
mortality
• Adult diseases often have their origins
during early development or involve a
reactivation of developmental mechanisms
20. Next generation
technology
Current Repository Enhanced Repository
Query,
Navigation &
Contribution
Query &
Contribution Navigation
Web & Java clients
e-MouseAtlas e-MouseAtlas+
Web clients
DSpace + webviewer
Knowledge + Maps Knowledge Maps
21.
22. Next Generation
Embryology
Google Maps for
Developmental Biology
23. Team & Acknowledgements
Research Assistants School of Informatics,
University of
EaStCHEM
Patricia Richardson
King’s College London Szegedi
Tobias Blanke Tudományegyete
Jos Koetsier Edinburgh
Douglas Armstrong
Carole Morrison
Neil Robertson
Mark Hedges m
István Juhos
Liangxiu Han Dave Robertson
Alan Bundy
Sharon Ashbrook University of
Manchester University of Minnesota
David Rodriguez Stuart Aitken
Austin Tate
OMII-UK
Neil Chue Hong
Carole Goble
Stian Søiland
Jon Weissman
Gagarine Yaikhom EPCC
Simon Hettrick
European
Technische Universität
Wien
Kostas Karasavvas Andy Turner
Rob Baxter
Human Genetics Unit,
Medical Research
Mediterranean
Seismological
Günther Raidl
Martin Grüber
Laura Valkonen Mark Parsons
Radek Ostrowski
Council
Richard Baldock
Centre
Rémy Bossu Universität Wien
Ally Hume Jeff Christiansen Peter Brezany
Amy Krause Bill Hill Heriot-Watt University Alexander Wöhrer
PhD Students Jon Hill
Terry Sloan
Guangjie Feng Albert Burger Ivan Janciak
Ibrahim Elsayed
Thomas French School of GeoSciences
Institute of Human
Genetics,
KNMI, The Netherlands Sabri Pllana
Torild van Eck Ehtesham ul Haq Dar
Luna De Ferrari Rachel Walcott Newcastle
University Universidad Politécnica
Fakhri Alam Khan
Rob Kitchen Molecular Medicine
Centre
Susan Lindsay
Steven Lisgo
de Madrid
Oscar Corcho
University Tübingen
Sandra Gesing
Chee-Sun Liew David Porteous
Varrie Ogilvie
Xunxian Wang Carlos Buil
Miguel Esteban Gutierrez Ustav informatiky,
University of Oxford Asuncion Gomez-Perez Slovenskej
Research Students Division of Psychiatry Adam Barker
Stephen Lawrie
Akadémie Vied
Universidad de Málaga Ladislav Hluchý
Matthew, Tantana, Dominic Job Fujitsy Laboratories
Europe
Carlos Cotta Ondrej Habala
Branislav Simo
Mark, Albert, SFC Brain Imaging David Snelling
Research Centre Sven van den Berghe
Université Libre de
Bruxelles
Marek Ciglan
Michal Laclavik
Makrymallis, Ravi, Joanna Wardlaw
Trevor Carpenter
Vivian Li Tom Lenaerts Emil Gatial
Viet Tran
Gary
http://research.nesc.ac.uk/ Jano van Hemert
Hinweis der Redaktion
The National e-Science Centre coordinates the e-Science effort for the UK. It has a number of activities, one of which is research. This research is interdisciplinary, where Informatics is applied in the context of solving large and complex scientific problems. Such problem solving requires much computational effort and often involves large amounts of data. In this talk I will show the two major components of our research by providing examples of our research projects: 1. To apply Informatics to solve scientific computational problems and 2. to find better ways of organising and facilitating systems that enable these solutions.
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related
The development at the MRC has been a spatio-temporal database for developmental biology, this is a basic resource, unique to Edinburgh, for basic and translational research in biomedical science. The key idea is to use a 3D plus time model of embryonic development as a framework for capturing and analysing the genetic activity that controls the developmental process.
The idea is illustrated here, gene-expression comes in complex patterns through space and time. We need to capture that data and make it available for research. The existing system is based on a design choice made some time ago but is now locked into the system. This leads us to OSAGE. From my perspective this is already a success. I have become locked by a process that required a working database with continuous and all urgent development. The manpower free to re-design and port the underlying database to a new set of standards is zero. eDIKT has made it possible for fresh view of the issues, porting to a future-proofed system based on commercial and emerging Grid/e-Science technlogies. This has already paid off during the analysis phase and the interaction between the eDIKT team and my DB developers. The future will not only benefit the Mouse Atlas but also all the clones and related