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In environmental management, developing a scientific and methodological approach to the design and optimization of technological systems remains a pressing issue. The proposed approach is based on the integration of onto...

Anaerobic co-digestion of livestock waste presents a viable approach for addressing environmental challenges and reducing greenhouse gas emissions in semi-urban and rural contexts. This study focuses on the development o...

Precision agriculture plays a crucial role in sustainable food production and resource-efficient land management. A key component of precision agriculture is the semantic segmentation of crops and weeds that enables auto...

Materie / parole chiave: Computational biology; Biology; Profiling (computer programming); Phenotype; Transcriptome; Computer science; Genetics; Gene; Gene expression; Operating system

Modern computers present a big gap between peak performance and sustained performance. There are many reasons for this situation, but mainly involving an inefficient usage of computational resources. Nowadays the memory ...

SUMMARY: It is expected that emerging digital gene expression (DGE) technologies will overtake microarray technologies in the near future for many functional genomics applications. One of the fundamental data analysis ta...

Glioblastoma multiforme (GBM) is the most common and lethal type of brain cancer. To identify the genetic alterations in GBMs, we sequenced 20,661 protein coding genes, determined the presence of amplifications and delet...

Rapid advances in sequencing technology have changed the experimental landscape of microbial ecology. In the last 10 years, the field has moved from sequencing hundreds of 16S rRNA gene fragments per study using clone li...

We present version 6 of the DNA Sequence Polymorphism (DnaSP) software, a new version of the popular tool for performing exhaustive population genetic analyses on multiple sequence alignments. This major upgrade incorpor...

The recent advent of DNA sequencing technologies facilitates the use of genome sequencing data that provide means for more informative and precise classification and identification of members of the Bacteria and Archaea....

High-throughput experimental technologies often identify dozens to hundreds of genes related to, or changed in, a biological or pathological process. From these genes one wants to identify biological pathways that may be...

Motivation: Recent advances in sequencing technologies promise ultra-long reads of ∼100 kb in average, full-length mRNA or cDNA reads in high throughput and genomic contigs over 100 Mb in length. Existing alignment pro...

Functional elucidation of causal genetic variants and elements requires precise genome editing technologies. The type II prokaryotic CRISPR (clustered regularly interspaced short palindromic repeats)/Cas adaptive immune ...

Advances in modern sequencing technologies allow us to generate sufficient data to analyze hundreds of bacterial genomes from a single machine in a single day. This potential for sequencing massive numbers of genomes cal...

The lion's share of bacteria in various environments cannot be cloned in the laboratory and thus cannot be sequenced using existing technologies. A major goal of single-cell genomics is to complement gene-centric metagen...

MOTIVATION: Accurate alignment of high-throughput RNA-seq data is a challenging and yet unsolved problem because of the non-contiguous transcript structure, relatively short read lengths and constantly increasing through...

TopHat is a popular spliced aligner for RNA-sequence (RNA-seq) experiments. In this paper, we describe TopHat2, which incorporates many significant enhancements to TopHat. TopHat2 can align reads of various lengths produ...

The Illumina DNA sequencing platform generates accurate but short reads, which can be used to produce accurate but fragmented genome assemblies. Pacific Biosciences and Oxford Nanopore Technologies DNA sequencing platfor...

MOTIVATION: Next-generation sequencing technologies generate millions of short sequence reads, which are usually aligned to a reference genome. In many applications, the key information required for downstream analysis i...

Materie / parole chiave: Scope (computer science); Drug; Drug discovery; Lipinski's rule of five; Data science; Computer science; Frame (networking); Medicine; Computational biology; Risk analysis (engineering); Pharmacology; Chemistry

Materie / parole chiave: computational mathematics, cybernetics, computer science; Science: Mathematics: Instruments and machines: Electronic computers. Computer science