生物信息学技术

Abstract Table of Contents Figures Literature Cited Abstract In this unit, we describe assembly of a multiple sequence alignment using the T?Coffee package. T?Coffee is much more flexible than most related methods (e.g., ClustalW) because

Abstract Table of Contents Figures Literature Cited Abstract The DFCI Gene Index Web pages provide access to analyses of ESTs and gene sequences for nearly 114 species, as well as a number of resources derived from these. Each species?spec

Abstract Table of Contents Figures Literature Cited Abstract Spectral library searching is an emerging approach in proteomic data analysis for the inference of peptide identifications from tandem mass spectra. It offers a promising alterna

Abstract Table of Contents Figures Literature Cited Abstract The Proteomics Identifications database (PRIDE, http://www.ebi.ac.uk/pride) is one of the main repositories designed to store, disseminate, and analyze mass spectrometry?based prot

Abstract Table of Contents Figures Literature Cited Abstract Depositing data to a public domain interaction database not only improves the quality and quantity of interactions available to the user community, but also increases the visibil

Abstract Table of Contents Materials Figures Literature Cited Abstract The characterization of rare messages in cDNA libraries is complicated by the substantial variations that exist in the abundance leve

Abstract Table of Contents Materials Figures Literature Cited Abstract DNA methylation (DNAm) is a term used to describe the heritable covalent addition of a methyl group to cytosines at CpG dinucleotides

Abstract Table of Contents Materials Figures Literature Cited Abstract This unit provides a protocol for performing digital gene expression profiling on the Illumina Genome Analyzer sequencing platform. T

Abstract Table of Contents Materials Figures Literature Cited Abstract Among human structural genomic variation, copy number variants (CNVs) are the most frequently known component, comprised of gains/los

Abstract Table of Contents Figures Literature Cited Abstract PatternLab for proteomics is a one?stop shop computational environment for analyzing shotgun proteomic data. Its modules provide means to pinpoint proteins/peptides that are diff

Abstract Table of Contents Figures Literature Cited Abstract The MultiPipMaker World Wide Web server (http://www.bx.psu.edu) provides a tool for aligning multiple DNA sequences and visualizing regions of conservation among them. This unit

Abstract Table of Contents Figures Literature Cited Abstract The Ensembl project provides a comprehensive source of automatic annotation of the human genome sequence, as well as other species of biomedical interest, with confirmed gene pre

Abstract Table of Contents Figures Literature Cited Abstract The Arabidopsis Information Resource (TAIR; http://arabidopsis.org) is a comprehensive Web resource of Arabidopsis biology for plant scientists. TAIR curates and integrates informa

Abstract Table of Contents Materials Figures Literature Cited Abstract This unit describes a useful approach to preparing highly reproducible samples of human embryonic stem cell (hESC) total RNA suitable

Abstract Table of Contents Materials Figures Literature Cited Abstract This unit describes a protocol for the targeted enrichment of exons from randomly sheared genomic DNA libraries using an in?solution

Abstract Table of Contents Figures Literature Cited Abstract Cytobank is a Web?based application for storage, analysis, and sharing of flow cytometry experiments. Researchers use a Web browser to log in and use a wide range of tools develo

Abstract Table of Contents Figures Literature Cited Abstract Recombinant protein expression in Escherichia coli (E. coli) is simple, fast, inexpensive, and robust, with the expressed protein comprising up to 50 percent of the total cellular

Abstract Table of Contents Materials Figures Literature Cited Abstract The vast majority of modern bottom?up proteomic protocols include chromatographic reversed?phase (RP) fractionation of peptides prior

Abstract Table of Contents Figures Literature Cited Abstract The Velvet de novo assembler was designed to build contigs and eventually scaffolds from short?read sequencing data. This protocol describes how to use Velvet, interpret its outp

Abstract Table of Contents Figures Literature Cited Abstract Genome Browsers are software that allow the user to view genome annotations in the context of a reference sequence, such as a chromosome, contig, scaffold, etc. The Generic Genom