Objective
The objectives of the proposed project are to develop and provide tools for the interpretation of genomic DNA sequences with special emphasis on regulatory regions.
Sequencing whole genomes will yield a huge amount of data in near future. Systematic functional analysis of these sequences with the standard experimental methods is far beyond existing laboratory research capacities. Thus, we have to rely on in silico approaches at least for planning of targeted experiments. The assessment of the biological meaning of a gene depends not only on methods to predict the structure and function of its gene product, but also on the ability to derive its regulatory expression pattern from the base sequence. Gene control regions pose particular difficulties to in silico function prediction approaches which may partly explain the modes of success of current algorithms addressing this problem. The elementary sequence signals are typically short (in the range of 5 to 30 base pairs) and highly variable, reflecting the biochemistry of the decoding mechanism. As a consequence of these properties, the physiological significance of an individual control module can only be assessed by a comprehensive search involving context analysis within the (putative) regulatory region combined with gene identification methods based on coding region prediction. The technical approaches suggested in this proposal particularly address the recognized difficulties outlined above.
Thus, there is an obvious need for programs that enable molecular biologists to efficiently annotate newly unravelled sequence data with tentative functional features.
To achieve this, we propose the following programme:
1. Databases that collect experimental relevant data such as TRANSFAC and EPD provide the basis for sequence analysis. They will be appropriately adapted and integrated.
2. The next step will be to develop algorithms that permit the identification of individual functional elements as precise as possible.
3. The third step is a comprehensive context analysis of potential cisregulatory sequence elements within promoters, enhancers or LCRs and in conjunction with coding regions / open reading frames.
4. Finally, all algorithms to be developed have to be continuously verified in close collaboration with experimental researchers using appropriate model genomes.
Fields of science (EuroSciVoc)
CORDIS classifies projects with EuroSciVoc, a multilingual taxonomy of fields of science, through a semi-automatic process based on NLP techniques. See: The European Science Vocabulary.
CORDIS classifies projects with EuroSciVoc, a multilingual taxonomy of fields of science, through a semi-automatic process based on NLP techniques. See: The European Science Vocabulary.
- natural sciences biological sciences biochemistry
- natural sciences computer and information sciences databases
- natural sciences biological sciences genetics DNA
- natural sciences mathematics pure mathematics mathematical analysis functional analysis
- natural sciences biological sciences genetics genomes
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Programme(s)
Multi-annual funding programmes that define the EU’s priorities for research and innovation.
Multi-annual funding programmes that define the EU’s priorities for research and innovation.
Topic(s)
Calls for proposals are divided into topics. A topic defines a specific subject or area for which applicants can submit proposals. The description of a topic comprises its specific scope and the expected impact of the funded project.
Calls for proposals are divided into topics. A topic defines a specific subject or area for which applicants can submit proposals. The description of a topic comprises its specific scope and the expected impact of the funded project.
Call for proposal
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Procedure for inviting applicants to submit project proposals, with the aim of receiving EU funding.
Funding Scheme
Funding scheme (or “Type of Action”) inside a programme with common features. It specifies: the scope of what is funded; the reimbursement rate; specific evaluation criteria to qualify for funding; and the use of simplified forms of costs like lump sums.
Funding scheme (or “Type of Action”) inside a programme with common features. It specifies: the scope of what is funded; the reimbursement rate; specific evaluation criteria to qualify for funding; and the use of simplified forms of costs like lump sums.
Coordinator
38124 BRAUNSCHWEIG
Germany
The total costs incurred by this organisation to participate in the project, including direct and indirect costs. This amount is a subset of the overall project budget.