Storage and Retrieval of Highly Repetitive Sequence Collections

Peer reviewe

Software Grand Exposure: SGX Cache Attacks Are Practical

Side-channel information leakage is a known limitation of SGX. Researchers have demonstrated that secret-dependent information can be extracted from enclave execution through page-fault access patterns. Consequently, various recent research efforts are actively seeking countermeasures to SGX side-channel attacks. It is widely assumed that SGX may be vulnerable to other side channels, such as cache access pattern monitoring, as well. However, prior to our work, the practicality and the extent of such information leakage was not studied. In this paper we demonstrate that cache-based attacks are indeed a serious threat to the confidentiality of SGX-protected programs. Our goal was to design an attack that is hard to mitigate using known defenses, and therefore we mount our attack without interrupting enclave execution. This approach has major technical challenges, since the existing cache monitoring techniques experience significant noise if the victim process is not interrupted. We designed and implemented novel attack techniques to reduce this noise by leveraging the capabilities of the privileged adversary. Our attacks are able to recover confidential information from SGX enclaves, which we illustrate in two example cases: extraction of an entire RSA-2048 key during RSA decryption, and detection of specific human genome sequences during genomic indexing. We show that our attacks are more effective than previous cache attacks and harder to mitigate than previous SGX side-channel attacks

Prospects and limitations of full-text index structures in genome analysis

The combination of incessant advances in sequencing technology producing large amounts of data and innovative bioinformatics approaches, designed to cope with this data flood, has led to new interesting results in the life sciences. Given the magnitude of sequence data to be processed, many bioinformatics tools rely on efficient solutions to a variety of complex string problems. These solutions include fast heuristic algorithms and advanced data structures, generally referred to as index structures. Although the importance of index structures is generally known to the bioinformatics community, the design and potency of these data structures, as well as their properties and limitations, are less understood. Moreover, the last decade has seen a boom in the number of variant index structures featuring complex and diverse memory-time trade-offs. This article brings a comprehensive state-of-the-art overview of the most popular index structures and their recently developed variants. Their features, interrelationships, the trade-offs they impose, but also their practical limitations, are explained and compared

Experimental confirmation of long-memory correlations in star-wander data

In this letter we have analyzed the temporal correlations of the angle-of-arrival fluctuations of stellar images. Experimentally measured data were carefully examined by implementing multifractal detrended fluctuation analysis. This algorithm is able to discriminate the presence of fractal and multifractal structures in recorded time sequences. We have confirmed that turbulence-degraded stellar wavefronts are compatible with a long-memory correlated monofractal process. This experimental result is quite significant for the accurate comprehension and modeling of the atmospheric turbulence effects on the stellar images. It can also be of great utility within the adaptive optics field.Comment: 4 pages, 5 figures, 23 references. Minor grammatical changes to match the published version. Comments and suggestions are welcome