Project description
A new era for graph-based data processing
In an age of increasingly complex and interrelated data, it is important to define the boundaries of string processing in view of modern challenges like social networks and pangenomics, which require a transition to labelled graphs. Supported by the Marie Skłodowska-Curie Actions programme, the SURE project aims to create a versatile new data structure by extending suffix trees (no longer the gold standard for linear strings) to automata and graphs. This approach, which bridges algorithms, data compression and bioinformatics, is crucial for managing diverse genomic data without the bias of a single reference genome. The project also establishes a new paradigm for studying regular languages, paving the way for more efficient data analysis.
Objective
The SURE project (SUffix trees meet REgular languages) is an interdisciplinary project at the intersection of several areas: Algorithms, Data Compression, Automata Theory and Bioinformatics. Its primary objective is to extend the suffix tree, the most important data structure for string processing, to labeled graphs and automata, and to use this new paradigm for studying regular languages.
The suffix tree of a string supports a myriad of natural queries on strings, including multiple pattern matching variants. Suffix trees inspired a variety of related data structures for string algorithms, such as the suffix array, the Burrows-Wheeler transform and the FM-index.
Today’s world demands the processing and analysis of increasingly complex, interrelated data. All these relationships can be captured by using (labeled) graphs. For example, the World Wide Web can be modeled as a graph, where elements are connected through hyperlinks. Graphs are also widely used to model social networks and to create databases. The SURE project will lead to a new data structure, the suffix tree of a graph, efficiently supporting all previous queries on graphs. This will be crucial in the emerging field of pangenomics, where graphs can store multiple genomes, overcoming the inherent bias of a single reference genome.
Graphs provide a natural framework for analyzing regular languages in automata theory. Recent results indicate that several string-processing data structures suggest a new paradigm for analyzing regular languages. The SURE project will extend this paradigm through the suffix tree of a graph, proving that the same ideas can be applied to other formalisms (such as omega-regular languages). We will also show how to study the hierarchy of regular languages induced by these data structures through the lens of regular expressions and logic.
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.
You need to log in or register to use this function
Keywords
Project’s keywords as indicated by the project coordinator. Not to be confused with the EuroSciVoc taxonomy (Fields of science)
Project’s keywords as indicated by the project coordinator. Not to be confused with the EuroSciVoc taxonomy (Fields of science)
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.
-
HORIZON.1.2 - Marie Skłodowska-Curie Actions (MSCA)
MAIN PROGRAMME
See all projects funded under this programme
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.
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.
HORIZON-TMA-MSCA-PF-GF - HORIZON TMA MSCA Postdoctoral Fellowships - Global Fellowships
See all projects funded under this funding scheme
Call for proposal
Procedure for inviting applicants to submit project proposals, with the aim of receiving EU funding.
Procedure for inviting applicants to submit project proposals, with the aim of receiving EU funding.
(opens in new window) HORIZON-MSCA-2025-PF
See all projects funded under this callCoordinator
Net EU financial contribution. The sum of money that the participant receives, deducted by the EU contribution to its linked third party. It considers the distribution of the EU financial contribution between direct beneficiaries of the project and other types of participants, like third-party participants.
67100 L'Aquila
Italy
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.