BOL

PhD student / Bio-informatician in computational protein modeling Job Profile You will perform research on drug/protein interaction analysis in the context of lung cancer, using computational protein modeling. You will implement existing models...

The interaction between proteins and other molecules is fundamental to all biological functions. In this section we include tools that can assist in prediction of interaction sites on protein surface and tools for predicting the structure of the...

Ligand docking referred to cases where small molecule (“ligand”) is being docked into much larger macromolecule ("target"). The following is partial list of docking software, focusing on free (at least for academic institutes) and/or...

Predicting the structure of protein–protein complexes using docking approaches is a difficult problem whose major challenges include identifying correct solutions, and properly dealing with molecular flexibility and conformational changes....

List of generic simulation software/tools/resource with brief description and homepage ALF A Simulation Framework for Genome Evolution http://www.cbrg.ethz.ch/alfBayesian Serial SimCoal Bayesian Serial SimCoal, (BayeSSC) is a modification of...

A DNA sequence motif represented as a sequence logo for the LexA-binding motif. I

One of the technical advantages of ONT data is the read length, which offers great prospects for genome assembly.

github.com - HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (both DNA and RNA) to a population of human genomes (as well as to a single reference genome). Based on an extension of BWT for...

Meaningful analysis of next-generation sequencing (NGS) data, which are produced extensively by genetics and genomics studies, relies crucially on the accurate calling of SNPs and genotypes. Recently developed statistical methods both improve and...

github.com - The goal of the Shasta long read assembler is to rapidly produce accurate assembled sequence using as input DNA reads generated by Oxford Nanopore flow cells. Computational methods used by the Shasta assembler include: Using...