By Luonan Chen;Rui-Sheng Wang;Xiang-Sun Zhang
Substitute options and instruments for interpreting biomolecular networksWith the new swift advances in molecular biology, high-throughput experimental equipment have led to huge, immense quantities of information that may be used to check biomolecular networks in dwelling organisms. With this improvement has come attractiveness of the truth that a sophisticated dwelling organism can't be absolutely understood by way of purely examining person parts. particularly, it's the interactions of elements or biomolecular networks which are eventually accountable for an organism's shape and serve as. This ebook addresses the real want for a brand new set of computational instruments to bare crucial organic mechanisms from a platforms biology approach.Readers gets complete insurance of studying biomolecular networks in mobile platforms according to to be had experimental facts with an emphasis at the facets of community, procedure, integration, and engineering. each one subject is handled intensive with particular organic difficulties and novel computational methods:GENE NETWORKS—Transcriptional rules; reconstruction of gene regulatory networks; and inference of transcriptional regulatory networksPROTEIN interplay NETWORKS—Prediction of protein-protein interactions; topological constitution of biomolecular networks; alignment of biomolecular networks; and network-based prediction of protein functionMETABOLIC NETWORKS AND SIGNALING NETWORKS—Analysis, reconstruction, and purposes of metabolic networks; modeling and inference of signaling networks; and different issues and new trendsIn addition to theoretical effects and techniques, many computational software program instruments are referenced and to be had from the authors' websites. Biomolecular Networks is an fundamental reference for researchers and graduate scholars in bioinformatics, computational biology, structures biology, laptop technology, and utilized arithmetic.
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Extra info for Biomolecular Networks: Methods and Applications in Systems Biology (Wiley Series in Bioinformatics)
1 Genomes, Genes, and DNA Replication Process According to the number of cells that they contain, organisms may be unicellular or multicellular. Bacteria and baker’s yeast are representative examples of unicellular organisms that consist of only one cell. Most organisms consist of two or more cells. Each cell contains one or more DNA molecules. A chromosome is formed from a single DNA molecule. In prokaryotes, DNA is organized in the form of a circular chromosome. In eukaryotes, chromosomes have a complex structure where DNA is wound around structural proteins called histones.
2 Transcription Process for RNA Synthesis In all organisms, there are two major steps necessary for DNA producing proteins: (1) information of the DNA on which the gene resides is transcribed to messenger RNA (mRNA), and (2) information on the mRNA is translated to the protein. Transcription is the process of producing mRNA using genes as templates. In the transcription process, one strand of DNA molecule is copied into a complementary pre-mRNA by an enzyme called RNA polymerase II. ” The DNA strand whose sequence matches that of the RNA is known as the coding strand and the strand to which the RNA is complementary is the template strand.
3. Scheme of the cDNA microarray technique. ] transcriptase. 3 illustrates the scheme and principle of cDNA microarray. First, templates for genes of interested (oligonucleotides, cDNA) are obtained and ampliﬁed by polymerase chain reaction (PCR). Following puriﬁcation and quality control, aliquots ($5 nL) are printed on the coated glass microscope slides using a computer-controlled high-speed robot. Total RNAs from both the test and reference samples are labeled with two different ﬂuorophores (Cye5, Cye3).