Computing multiple sequence/structure alignments with the T-coffee package [0.03%]
利用T-Coffee软件包进行多序列和结构比对
Cedric Notredame
Cedric Notredame
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 it makes it possible to combine many alternative alignments in...
Sung Kyu Park,John R Yates rd
Sung Kyu Park
Quantitative analysis has become increasingly important in the proteomics field; however, the large amount of mass spectrometric data and the different types of quantitative strategies make data analysis ever challenging. Here we describe a...
Sam Griffiths-Jones
Sam Griffiths-Jones
miRBase is the central repository for microRNA (miRNA) sequence information. miRBase has a role in defining the nomenclature for miRNA genes and assigning names to novel miRNAs for publication in peer-reviewed journals. The online miRBase d...
Corina Antonescu,Valentin Antonescu,Razvan Sultana et al.
Corina Antonescu et al.
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-specific database is presented using a common format with a home p...
Tyra G Wolfsberg
Tyra G Wolfsberg
This unit includes a Basic Protocol with an introduction to the Map Viewer, describing how to perform a simple text-based search of genome annotations to view the genomic context of a gene, navigate along a chromosome, zoom in and out, and ...
Maureen J Donlin
Maureen J Donlin
A genome browser is software that allows users to visualize DNA, protein, or other sequence features within the context of a reference sequence, such as a chromosome or contig. The Generic Genome Browser (GBrowse) is an open-source browser ...
Deborah H Lundgren,Harryl Martinez,Michael E Wright et al.
Deborah H Lundgren et al.
Sage-N's Sorcerer 2 provides an integrated data analysis system for comprehensive protein identification and characterization. It runs on a proprietary version of SEQUEST(R), the most widely used search engine for identifying proteins in co...
The UCSC Genome Browser [0.03%]
UCSC基因组浏览器网站
Donna Karolchik,Angie S Hinrichs,W James Kent
Donna Karolchik
The University of California Santa Cruz (UCSC) Genome Browser is a popular Web-based tool for quickly displaying a requested portion of a genome at any scale, accompanied by a series of aligned annotation "tracks." The annotations-generated...
Analyzing gene expression data from microarray and next-generation dna sequencing transcriptome profiling assays using GeneSifter analysis edition [0.03%]
利用GeneSifter分析版解析微阵列及新一代DNA测序转录谱分析数据中的基因表达数据
Sandra Porter,N Eric Olson,Todd Smith
Sandra Porter
Transcription profiling with microarrays has become a standard procedure for comparing the levels of gene expression between pairs of samples, or multiple samples following different experimental treatments. New technologies, collectively k...
Using OrthoCluster for the detection of synteny blocks among multiple genomes [0.03%]
利用OrthoCluster检测多个基因组间的同线性区域
Ismael A Vergara,Nansheng Chen
Ismael A Vergara
Synteny blocks are composed of two or more orthologous genes conserved among species, resulting from speciation from their last common ancestor. OrthoCluster (Zeng et al., 2008) is a fast and easy-to-use program for the identification of sy...