SMART-KG: Hybrid Shipping for SPARQL Querying on the Web

While Linked Data (LD) provides standards for publishing (RDF) and (SPARQL) querying Knowledge Graphs (KGs) on the Web, serving, accessing and processing such open, decentralized KGs is often practically impossible, as query timeouts on publicly available SPARQL endpoints show. Alternative solutions such as Triple Pattern Fragments (TPF) attempt to tackle the problem of availability by pushing query processing workload to the client side, but suffer from unnecessary transfer of irrelevant data on complex queries with large intermediate results. In this paper we present smart-KG, a novel approach to share the load between servers and clients, while significantly reducing data transfer volume, by combining TPF with shipping compressed KG partitions. Our evaluations show that outperforms state-of-the-art client-side solutions and increases server-side availability towards more cost-effective and balanced hosting of open and decentralized KGs.Series: Working Papers on Information Systems, Information Business and Operation

BEAR: Benchmarking the Efficiency of RDF Archiving

There is an emerging demand on techniques addressing the problem of efficiently archiving and (temporal) querying different versions of evolving semantic Web data. While systems archiving and/or temporal querying are still in their early days, we consider this a good time to discuss benchmarks for evaluating storage space efficiency for archives, retrieval functionality they serve, and the performance of various retrieval operations. To this end, we provide a blueprint on benchmarking archives of semantic data by defining a concise set of operators that cover the major aspects of querying of and interacting with such archives. Next, we introduce BEAR, which instantiates this blueprint to serve a concrete set of queries on the basis of real-world evolving data. Finally, we perform an empirical evaluation of current archiving techniques that is meant to serve as a first baseline of future developments on querying archives of evolving RDF data. (authors' abstract)Series: Working Papers on Information Systems, Information Business and Operation

A review of schemes for fingerprint image quality computation

Fingerprint image quality affects heavily the performance of fingerprint recognition systems. This paper reviews existing approaches for fingerprint image quality computation. We also implement, test and compare a selection of them using the MCYT database including 9000 fingerprint images. Experimental results show that most of the algorithms behave similarly.Comment: Published at 3rd COST-275 Workshop on Biometrics on the Internet. arXiv admin note: text overlap with arXiv:2111.0743

Evaluating Query and Storage Strategies for RDF Archives

There is an emerging demand on efficiently archiving and (temporal) querying different versions of evolving semantic Web data. As novel archiving systems are starting to address this challenge, foundations/standards for benchmarking RDF archives are needed to evaluate its storage space efficiency and the performance of different retrieval operations. To this end, we provide theoretical foundations on the design of data and queries to evaluate emerging RDF archiving systems. Then, we instantiate these foundations along a concrete set of queries on the basis of a real-world evolving dataset. Finally, we perform an empirical evaluation of various current archiving techniques and querying strategies on this data that is meant to serve as a baseline of future developments on querying archives of evolving RDF data

Good practice guide for calibrating a hydrophone "in situ" with a non-omnidirectional source at 10 kHz (26-34)

The aim of this paper is to provide the basis for the calibration of a hydrophonePeer ReviewedPostprint (published version

HDT crypt: Compression and Encryption of RDF Datasets

The publication and interchange of RDF datasets online has experienced significant growth in recent years, promoted by different but complementary efforts, such as Linked Open Data, the Web of Things and RDF stream processing systems. However, the current Linked Data infrastructure does not cater for the storage and exchange of sensitive or private data. On the one hand, data publishers need means to limit access to confidential data (e.g. health, financial, personal, or other sensitive data). On the other hand, the infrastructure needs to compress RDF graphs in a manner that minimises the amount of data that is both stored and transferred over the wire. In this paper, we demonstrate how HDT - a compressed serialization format for RDF - can be extended to cater for supporting encryption. We propose a number of different graph partitioning strategies and discuss the benefits and tradeoffs of each approach

RNAiFold2T: Constraint Programming design of thermo-IRES switches

Motivation: RNA thermometers (RNATs) are cis-regulatory ele- ments that change secondary structure upon temperature shift. Often involved in the regulation of heat shock, cold shock and virulence genes, RNATs constitute an interesting potential resource in synthetic biology, where engineered RNATs could prove to be useful tools in biosensors and conditional gene regulation. Results: Solving the 2-temperature inverse folding problem is critical for RNAT engineering. Here we introduce RNAiFold2T, the first Constraint Programming (CP) and Large Neighborhood Search (LNS) algorithms to solve this problem. Benchmarking tests of RNAiFold2T against existent programs (adaptive walk and genetic algorithm) inverse folding show that our software generates two orders of magnitude more solutions, thus allow- ing ample exploration of the space of solutions. Subsequently, solutions can be prioritized by computing various measures, including probability of target structure in the ensemble, melting temperature, etc. Using this strategy, we rationally designed two thermosensor internal ribosome entry site (thermo-IRES) elements, whose normalized cap-independent transla- tion efficiency is approximately 50% greater at 42?C than 30?C, when tested in reticulocyte lysates. Translation efficiency is lower than that of the wild-type IRES element, which on the other hand is fully resistant to temperature shift-up. This appears to be the first purely computational design of functional RNA thermoswitches, and certainly the first purely computational design of functional thermo-IRES elements. Availability: RNAiFold2T is publicly available as as part of the new re- lease RNAiFold3.0 at https://github.com/clotelab/RNAiFold and http: //bioinformatics.bc.edu/clotelab/RNAiFold, which latter has a web server as well. The software is written in C++ and uses OR-Tools CP search engine.Comment: 24 pages, 5 figures, Intelligent Systems for Molecular Biology (ISMB 2016), to appear in journal Bioinformatics 201