生物信息学技术

Abstract Table of Contents Materials Figures Literature Cited Abstract Bioluminescence resonance energy transfer (BRET) allows monitoring of protein?protein interactions in real time in living cells. One

Abstract Table of Contents Figures Literature Cited Abstract The huge potential repertoire of 1012 immunoglobulins and 1012 T cell receptors per individual results from complex mechanisms of combinatorial diversity between the variable (V),

Abstract Table of Contents Figures Literature Cited Abstract Pharmabase is designed to form a bridge between the molecular dimension of cell transport processes and the functional manipulation of the protein players. It has as its emphasis

Abstract Table of Contents Figures Literature Cited Abstract RNAstructure is a user?friendly program for the prediction and analysis of RNA secondary structure under Microsoft Windows. This unit provides protocols for RNA secondary structu

Abstract Table of Contents Figures Literature Cited Abstract For most systems in biology, a large body of literature exists that describes the complexity of the system based on experimental results. Manual review of this literature to extr

Abstract Table of Contents Figures Literature Cited Abstract The Structure?Function Linkage Database (SFLD; http://sfld.rbvi.ucsf.edu/) is a Web?accessible database designed to link enzyme sequence, structure, and functional information. Thi

Abstract Table of Contents Materials Figures Literature Cited Abstract Coprecipitation of proteins from whole?cell extracts is a valuable approach to testing for physical interactions between proteins of

Abstract Table of Contents Figures Literature Cited Abstract Methods for the annotation and analysis of functional sites in proteins are an area of active research, and those methods that allow detailed characterization of functional site

Abstract Table of Contents Figures Literature Cited Abstract The Dali program is widely used for carrying out automatic comparisons of protein structures determined by X?ray crystallography or NMR. The most familiar version is the Dali ser

Abstract Table of Contents Figures Literature Cited Abstract WormBase is the major public biological database for the nematode Caenorhabditis elegans. It is meant to be useful to any biologist who wants to use C. elegans, whatever his or her

Abstract Table of Contents Figures Literature Cited Abstract The PDB ligand dictionary is the chemical reference database of all the small building block molecules (e.g., amino acids, nucleic acids, and bound ligands) in the Protein Data B

Abstract Table of Contents Figures Literature Cited Abstract Neighbor Joining (NJ), FastME, and other distance?based programs including BIONJ, WEIGHBOR, and (to some extent) FITCH, are fast methods to build phylogenetic trees. This makes t

Abstract Table of Contents Literature Cited Abstract The underlying premise behind all attempts to determine a large number of diverse protein structures is that the total number of protein domain folds is much smaller, by many orders of magnitude, than the total number of

Abstract Table of Contents Figures Literature Cited Abstract One of the greatest challenges facing modern molecular biology is the understanding of the complex mechanisms regulating gene expression. A fundamental step in this process requi

Abstract Table of Contents Materials Figures Literature Cited Abstract Polony DNA sequencing provides an inexpensive, accurate, high?throughput way to resequence genomes of interest by comparison to a ref

Abstract Table of Contents Figures Literature Cited Abstract Microarray experiments require careful planning and choice of analysis tools in order to get the most out of the data generated, especially considering the associated significant

Abstract Table of Contents Materials Figures Literature Cited Abstract BLAST is a widely used genetic sequence comparison program developed at the National Center for Biotechnology Information (NCBI). In

Abstract Table of Contents Figures Literature Cited Abstract This appendix discusses a few of the file formats frequently encountered in bioinformatics. Specifically, it reviews the rules for generating FASTA files and provides guidance fo

Abstract Table of Contents Figures Literature Cited Abstract DTASelect provides a means by which complex SEQUEST results can be filtered, organized, and viewed. A single sample may produce tens of thousands of tandem mass spectra. Manually

Abstract Table of Contents Figures Literature Cited Abstract Electrostatic free energy is useful for correlating structure with function in proteins in which ionizable groups play essential functional roles. To this end, the pKa values of