Titlebook: Comparative Genomics; Methods and Protocol João Carlos Setubal,Peter F. Stadler,Jens Stoye Book 2024Latest edition The Editor(s) (if applic

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https://doi.org/10.1007/978-1-0716-3838-5conserved RNAs; Bioinformatics; phylogenomics; Prokaryotic Genomes; trypanosomatids

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T. L. Thomas,H.-J. Chung,A. N. Nunbergtional tools for the prediction of orthologous groups as well as web-based resources that offer orthology datasets for download and online analysis. This chapter presents a simple and practical guide to the process of orthologous group prediction, using a dataset of 10 prokaryotic proteomes as examp

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Transduction of ethylene responses gene associations. In this chapter, we review the family-free genome comparison tool . that, relying on built-in interfaces with a sequence comparison tool (either . or .) and with an ILP solver (either . or .), provides several methods for analyses that do not require prior classification of genes

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Auxin perception and signal transductionks in many research areas. Further advances in DNA sequencing technologies constantly let more and more genomic sequences become available for many species, leading to an increasing attractiveness of pangenomic studies. At the same time, larger datasets also pose new challenges for data structures a