生物信息学技术

Abstract Table of Contents Figures Literature Cited Abstract The zebrafish model organism database (ZFIN) provides a Web resource of zebrafish genomic, genetic, developmental, and phenotypic data. ZFIN curates and integrates data from curr

Abstract Table of Contents Materials Figures Literature Cited Abstract Copy number variations are important polymorphisms that can influence the expression of genes within and close to the rearranged regi

Abstract Table of Contents Figures Literature Cited Abstract This unit shows how to use the Bowtie package to align short sequencing reads, such as those output by second?generation sequencing instruments. It also includes protocols for bu

Abstract Table of Contents Figures Literature Cited Abstract Next?generation sequencing technologies have revolutionized genome and transcriptome sequencing. RNA?Seq experiments are able to generate huge amounts of transcriptome sequence r

Abstract Table of Contents Figures Literature Cited Abstract JBrowse is a Web?based tool for visualizing genomic data. Unlike most other Web?base genome browsers, JBrowse exploits the capabilities of the user's Web browser to make scrollin

Abstract Table of Contents Materials Figures Literature Cited Abstract Deep sequencing analysis of gene expression (DSAGE) measures global gene transcript levels from only 1 to 2 µg total RNA by massively

Abstract Table of Contents Materials Figures Literature Cited Abstract Mitochondrial disorders are a group of complex and heterogeneous diseases that may be caused by molecular defects in the nuclear or m

Abstract Table of Contents Figures Literature Cited Abstract Genome?wide association studies (GWAS) are being conducted at an unprecedented rate in population?based cohorts and have increased our understanding of the pathophysiology of com

Abstract Table of Contents Materials Figures Literature Cited Abstract Biological databases are an important resource for the life sciences community. Accessing the hundreds of databases supporting molecu

Abstract Table of Contents Figures Literature Cited Abstract A Modular Open?Source Assembler (AMOS) was designed to offer a modular approach to genome assembly. AMOS includes a wide range of tools for assembly, including the lightweight de

Abstract Table of Contents Figures Literature Cited Abstract GBrowse is widely used by biologists to visualize genome annotation. We have developed WebGBrowse to facilitate hosting multiple GBrowse instances specific for different users on

Abstract Table of Contents Figures Literature Cited Abstract Inferring a protein's function by homology is a powerful tool for biologists. The Princeton Protein Orthology Database (P?POD) offers a simple way to visualize and analyze the re

Abstract Table of Contents Figures Literature Cited Abstract Chromatin immunoprecipitation (ChIP) coupled with genome tiling array hybridization (ChIP?chip) and ChIP followed by massively parallel sequencing (ChIP?seq) are high?throughput

Abstract Table of Contents Materials Figures Literature Cited Abstract The yeast two?hybrid method (or interaction trap) is a powerful technique for detecting protein interactions. The procedure is perfor

Abstract Table of Contents Materials Figures Literature Cited Abstract The Thermofluor assay, also referred to as a thermal shift assay or differential scanning fluorescence (DSF), is a fast and simple me

Abstract Table of Contents Materials Figures Literature Cited Abstract This unit includes a basic protocol with an introduction to the Map Viewer, describing how to perform a simple text?based search of g

Abstract Table of Contents Materials Figures Literature Cited Abstract This unit provides a basic protocol for oligo hybridization?based sequencing technology and resulting data analysis specific to the A

Abstract Table of Contents Figures Literature Cited Abstract Model?based Analysis of ChIP?Seq (MACS) is a command?line tool designed by X. Shirley Liu and colleagues to analyze data generated by ChIP?Seq experiments in eukaryotes, especial

Abstract Table of Contents Figures Literature Cited Abstract Biological databases play a central role in bioinformatics. They offer scientists the opportunity to access a wide variety of biologically relevant data, including the genomic se

Abstract Table of Contents Materials Figures Literature Cited Abstract Peptidomics, the analysis of the peptide content of cells or tissues, can be used to study proteases in several ways. First, nearly a