RSS feed 

View All

From Narcissism to the Dialogic: Identity in Art after the Internet
Melissa Gronlund discusses the changes in the way identity is represented in current film and video work, particularly of the post-internet generation.


Simulation tools for particle-based reaction-diffusion dynamics in continuous space
Particle-based reaction-diffusion algorithms facilitate the modeling of the diffusional motion of individual molecules and the reactions between them in cellular environments. A physically realistic model, depending on the system at hand and the questions asked, would require different levels of modeling detail such as particle diffusion, geometrical confinement, particle volume exclusion or pa...
SwitchBox: an R package for k-Top Scoring Pairs classifier development
K–Top Scoring Pairs (kTSP) is a classification method for prediction from high-throughput data based on a set of the paired measurements. Each of the two possible orderings of a pair of measurements (e.g. a reversal in the expression of two genes) is associated with one of two classes. The kTSP prediction rule is the aggregation of voting among such individual two-feature decision rules b...


IDoComp: A Compression Scheme for Assembled Genomes
With the release of the latest Next-Generation Sequencing (NGS) machine, the HiSeq X by Illumina, the cost of sequencing a Human has dropped to a mere $4000. Thus we are approaching a milestone in the sequencing history, known as the $1000 genome era, where the sequencing of individuals is affordable, opening the doors to effective personalized medicine. Massive generation of genomic data, incl...
LFQC: A lossless compression algorithm for FASTQ files
Next Generation Sequencing (NGS) technologies have revolutionized genomic research by reducing the cost of whole genome sequencing. One of the biggest challenges posed by modern sequencing technology is economic storage of NGS data. Storing raw data is infeasible because of its enormous size and high redundancy. In this paper we address the problem of storage and transmission of large fastq fil...


Using 2k + 2 bubble searches to find Single Nucleotide Polymorphisms in k-mer graphs
Single Nucleotide Polymorphism (SNP) discovery is an important preliminary for understanding genetic variation. With current sequencing methods we can sample genomes comprehensively. SNPs are found by aligning sequence reads against longer assembled references. De Bruijn graphs are efficient data structures that can deal with the vast amount of data from modern technologies. Recent work has sho...
Semantic Body Browser: Graphical exploration of an organism and spatially resolved expression data visualisation
Advancing technologies generate large amounts of molecular and phenotypic data on cells, tissues and organisms, leading to an ever-growing detail and complexity while information retrieval and analysis becomes increasingly time-consuming. The Semantic Body Browser is a web application for intuitively exploring the body of an organism from the organ to the subcellular level and visualising expre...

A Novel Representation of Genomic Sequences for taxonomic clustering and visualization by means of Self-Organizing Maps
Self-Organizing Maps (SOMs) are readily-available bioinformatics methods for clustering and visualizing high-dimensional data, provided that such biological information is previously transformed to fixed-size, metric-based vectors. To increase the usefulness of SOM-based approaches for the analysis of genomic sequence data, novel representation methods are required that automatically and biject...
A Coalescent-based Method for Population Tree Inference with Haplotypes
Population trees represent past population divergence histories. The inference of population trees can be useful for the study of population evolution. With the size of data increases in large-scale population genetic projects, such as the 1000 Genomes Project, there are new computational challenges for ancestral population inference, including population tree inference. Existing methods for po...

Complete genome sequence of the caprolactam-degrading bacterium Pseudomonas mosselii SJ10 isolated from wastewater of a nylon 6 production plant
Pseudomonas mosselii strain SJ10 is a caprolactam-degrading bacterium belonging to the class Gammaproteobacteria, which was isolated from wastewater of the nylon 6 producing Seongseo industrial complex in Daegu, Republic of Korea. Here, we report the complete genome sequence of the strain, providing genetic information for biodegradation of aromatic compounds.
DC-Analyzer-facilitated combinatorial strategy for rapid directed evolution of functional enzymes with multiple mutagenesis sites
Iterative saturation mutagenesis (ISM) has been shown to be a powerful method for directed evolution. In this study, the approach was modified (termed M-ISM) by combining the single-site saturation mutagenesis method with a DC-Analyzer-facilitated combinatorial strategy, aiming to evolve novel biocatalysts efficiently in the case where multiple sites are targeted simultaneously. Initially, all ...

Changes in fruit quality parameters of four Ribes species during ripening
There are no defined maturity parameters for berry fruit which often results in harvesting and marketing of inedible, immature or over ripe berries. In the present study the changes in quality characteristics of different white-, red-, and black-currant cultivars as well as gooseberry and jostaberry fruit were investigated at three maturity stages. Colour parameters, berry juice pH level and th...
Seasonal changes in technological and nutritional quality of Mytilus galloprovincialis from suspended culture in the Gulf of Trieste (North Adriatic Sea)
Nutritional quality parameters, microbiological and technological quality indicators (condition index, meat yield and water-holding capacity) of blue mussel, Mytilus galloprovincialis, reared in the North Adriatic Sea were characterised at monthly intervals over a 1year period. Contents of protein (7.5–11.6g/100g), lipid (1.0–2.2g/100g) and ash (2.2–3.3g/100g) varied significantly accordi...
Total and “free” lipids in commercial infant formulas: Fatty acid composition and their stability to oxidation
The aim of this paper was to study the fatty acid composition of total and “free” lipids in powdered infant milks and to evaluate the fatty acid oxidation after package opening. In its first step the application of Principal Component Analysis and Design of Experiments has allowed to take a comprehensive picture of powdered infant formulas on sale in Italy on the basis of their labelled com...
Qualitative and quantitative analyses of secondary metabolites in aerial and subaerial of Scorzonera hispanica L. (black salsify)
Scorzonera hispanica commonly known as black salsify is a perennial herbaceous plant belonging to the Asteraceae family. The subaerial parts of black salsify are cultivated in Central and Southern Europe as a vegetable. There are only few reports on the chemical composition of S. hispanica. The aim of the present study was to determine the chemical composition of subaerial and aerial parts of t...