Titlebook: Bioinformatics in Rice Research; Theories and Techniq Manoj Kumar Gupta,Lambodar Behera Book 2021 The Editor(s) (if applicable) and The Aut

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Sequence Alignmentr, author attempted to understand the basics of sequence analysis and how researchers implement various computational tools to achieve them. Information obtained revealed that alignment can be either global and local or pairwise sequence alignment and multiple sequence alignment. For performing thes

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Gene Identification and Structure Annotationtivity - the latest being the sequel of Rice genome sequencing projects. The accelerated developments in next-generation sequencing (NGS) has bolstered these efforts in hundreds to thousands of rice varieties, which has enabled researchers to unpack the hidden potential of vast and diverse rice germ

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Phylogenetic Analysispropriate phylogeny. Results obtained revealed that phylogenetic trees reflect evolutionary past as a canonical framework. Phylogenetic tree building step essentially comprises of five steps: (a) selecting molecular markers; (b) multiple sequence alignment; (c) determining the best evolutionary mode

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RNA Structure Predictionss, including epigenetic function, modify mRNA stability, and alternate splicing. The study of the secondary structures of RNA is, therefore, crucial for interpreting the role as well as the regulatory mechanism of RNA transcripts. But experimental methods are tedious, time-consuming, pricey, requir

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Structural Proteomicseraction among protein sequence, structure, and function. The 3D structure of proteins is mostly estimated via x-ray crystallography or nuclear magnetic resonance spectroscopy. However, for the overwhelming majority of protein sequences, no experimental structure is available to date. This gap in st

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Gene Ontology and Pathway Enrichment Analysisndamental dynamic biology of disease/traits. It, therefore, reduces the complexity of traditional statistical research and increases the illustrating strength of the outcomes achieved. Although approaches to gene set analysis are commonly utilized in gene expression analytics, the statistical framew

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High-Throughput Sequencing TechnologiesDNA sequencing technology. There are various high-throughput sequencing (HTS) technologies, such as Roche 454, Illumina dye sequencing, PacBio’s SMRT, Ion Torrent, Oxford Nanopore, SOLiD, and DNA nano-array sequencer, that have emerged with less cost and are time-saving. Sanger sequencing is the fir

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DNA–Protein Interaction AnalysisIt helps the cell to conduct different major activities like replication, transcription, translation, DNA repair and recombination, and RNA processing. A lot of research has already been conducted to understand how the DNA–protein interaction occurs inside the cell. In this chapter, we discuss the m