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To provide a rapid and simple test method for tea-cigarette identification, a loop-mediated isothermal amplification (LAMP) primers were designed for the conserved region of the selected Nicotiana-specific gene Ntsp151 sequence, and a visual LAMP ...

Due to the exhausted usage of non-renewable petroleum-derived fuels, an increasing global demand for a biologically produced energy source has emerged. Microalgae biomass has become one of the most promising alternatives. Arthrospira platensis is one of ...

This paper is devoted to the practical application of parallel sorting algorithms and parallel input-output methods for the problem of genome alignment. The paper considers different approaches to the implementation of such algorithms, taking into ...

Genome sequencing has rapidly advanced in the last decade, making it easier for anyone to obtain digital genomes at low costs from companies such as Helix, MyHeritage, and 23andMe. Companies now offer their services in a direct-to-consumer (DTC) model ...

A non-empty string x over an ordered alphabet is said to be a Lyndon word if it is alphabetically smaller than all of its cyclic rotations. Any string can be uniquely factored into Lyndon words and efficient algorithms exist to perform the factorization ...

In this paper, we consider the problem of privacy-preserving release of function outputs that take private information as input. Disease susceptibilities are known to be associated with clinical features (e.g., age, sex) as well as genetic features ...

In order to make multiple copies of a target sequence in the laboratory, the technique of Polymerase Chain Reaction (PCR) requires the design of "primers", which are short fragments of nucleotides complementary to the flanking regions of the target ...

Various string matching problems can be solved by means of a deterministic finite automaton (DFA) or a non-deterministic finite automaton (NFA). In non-oblivious cases, DFAs are often preferred for their run-time efficiency despite larger sizes. In ...

A variety of extremely challenging biological sequence analyses were conducted on the XSEDE large shared memory resource Blacklight, using current bioinformatics tools and encompassing a wide range of scientific applications. These include genomic ...

The exemplar breakpoint distance problem (EBD for short) is NP-hard, even when one of the genomes, called G_1, has no repetition, and the other genome, called G_2, has genes that appear at most twice in the genome ((1, 2)-Exemplar Breakpoint Distance ...

Virulence factors represent crucial molecular features for understanding pathogenic mechanisms. Here we describe a pipeline for in silico prediction of virulence factor genes in Mycobacterium massiliense genome that could be easily used in many other ...

The exemplar breakpoint distance problem is one of the most important problems in genome comparison and has been extensively studied in the literature. The exemplar breakpoint distance problem cannot be approximated within any factor even if each gene ...

A variety of extremely challenging biological sequence analyses were conducted on the XSEDE large shared memory resource Blacklight, using current bioinformatics tools and encompassing a wide range of scientific applications. These include genomic ...

In order to promote parallel computing in multi-cores, transactional memory is studied. Several transactional memory systems are introduced in this paper. to compare the performance of STM library implementations with different types of write ...

Since most malware is derived from prior code, understanding malware derivation and evolution is essential for many types of malware analysis. However prior models of malware relationships are insufficiently precise or fail to capture important ...

T cells are key mediators of inflammatory processes that can be activated by pathogens and vaccines. Some vaccine antigens may encode T cell epitopes that can cross-react with either human or human microbiome epitopes, causing deviation of the T cell ...

The paper presents a new method for extracting information from semi-structured resources, based on finite state transducers. The method has two clearly distinguished phases. The first phase - pre-processing phase - strongly relies upon the analysis of ...

Segmentation is a general data mining technique for summarising and analysing sequential data. Segmentation can be applied, e.g., when studying large-scale genomic structures such as isochores. Choosing the number of segments remains a challenging ...

Chromosomes exhibit several features indicating that its spatiotemporal dynamics is self-organized. It has been recently suggested that a negative correlation between genome size and mean chromosome number would also be a fingerprint of selforganization,...