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Digital technologies have revolutionized studying, analyzing, and interpreting human culture, history, and society. Digital humanities (DH) combine traditional disciplines such as literature, history, and philosophy with...

At any time humans need accurate information to solve different problems. For example, how to perform a task, what happens in the news, what the hundreds of tweets say, etc. On the other hand, electronic information has ...

This thesis, entitled €High Performance Computing for solving large sparse systems. Optical Diffraction Tomography as a case of study€ investigates the computational issues related to the resolution of linear systems o...

Numerical solutions for signal processing are described in this work as acontribution to study of echo detection methods for ionospheric sounder design. The ionospheric sounder is a high frequency radar for geophysical a...

The Molecular Evolutionary Genetics Analysis (MEGA) software has matured to contain a large collection of methods and tools of computational molecular evolution. Here, we describe new additions that make MEGA a more comp...

OBJECTIVE: To evaluate the mechanisms of microbial interaction between the oral pathogens Candida albicans and Streptococcus mutans. MATERIALS AND METHODS: Growth kinetics for the two micro-organisms, cultured individual...

Procedures utilizing Chelex 100 chelating resin have been developed for extracting DNA from forensic-type samples for use with the PCR. The procedures are simple, rapid, involve no organic solvents and do not require mul...

Abstract This unit describes how to use BWA and the Genome Analysis Toolkit (GATK) to map genome sequencing data to a reference and produce high‐quality variant calls that can be used in downstream analyses. The comple...

BACKGROUND: Gene set enrichment (GSE) analysis is a popular framework for condensing information from gene expression profiles into a pathway or signature summary. The strengths of this approach over single gene analysis...

BACKGROUND: For the last 25 years species delimitation in prokaryotes (Archaea and Bacteria) was to a large extent based on DNA-DNA hybridization (DDH), a tedious lab procedure designed in the early 1970s that served its...

Genome-wide association studies, which typically report regression coefficients summarizing the associations of many genetic variants with various traits, are potentially a powerful source of data for Mendelian randomiza...

We describe PTRAJ and its successor CPPTRAJ, two complementary, portable, and freely available computer programs for the analysis and processing of time series of three-dimensional atomic positions (i.e., coordinate traj...

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...

Subjects / keywords: Chromatin; Epigenomics; Nucleosome; Transposase; Epigenome; Biology; ChIP-sequencing; Computational biology; Genetics; DNA; DNA sequencing; DNA methylation

Subjects / keywords: Operational taxonomic unit; Amplicon; Biology; Computational biology; Amplicon sequencing; Pipeline (software); Genetics; Gene; Computer science; Polymerase chain reaction; 16S ribosomal RNA; Programming language