Non-alphanumeric characters (from '-') are stripped.
All search keyword are used in searching links: e.g. bioinformatics links directory will search for links that contain all three keywords in title, description, or tags.
You can search for an exact phrase by enclosing the query in quotes: e.g. "bioinformatics links directory"
e.g. Search query "genomic sequences" dna will search for links containing the phrase "genomic sequences" and dna.
You can include OR uppercase keyword: e.g. dna OR rna looks for keywords dna or rna.
You can include - prefix or NOT uppercase keyword to define keywords that should not be included: e.g. dna OR rna NOT protein (alternatively: dna OR rna -protein) will look for links with keywords DNA or RNA, but not protein
Alignment Editing and Visualization
Tools for viewing, coloring, and editing sequence alignments.
@TOME-2 is a web pipeline dedicated to protein structure modeling and small-ligand docking based on comparative analyses. Fold-recognition, template selection, structural alignment editing, structure comparisons, 3D-model building and evaluation are possible with @TOME-2 for inputted protein sequences.
ALLGEN server provides various tools for multiple sequence alignments, clustering, and assembly of ESTs. It also includes search tools for transcription factor binding sites (TFBS), repeated patterns, and transposons.
The CHAOS/DIALIGN WWW server is a multiple sequence alignment site which passes input sequences through CHAOS to create a list of local similarites. These similarities serve as anchor points, allowing DIALIGN to conduct global alignments faster. ABC can then be used for the interactive visualization of the alignment.
The EMBL-EBI framework provides access to a suite of sequence analysis tools. Novel methods of obtaining annotations, integrating domain and functional predictions, and visualizing sequence analysis results are integrated.
A Cytoscape plugin for functional enrichment visualization. Gene-sets, such as pathways and Gene Ontology terms, are organized into a network (i.e. the "enrichment map"). In this way, mutually overlapping gene-sets cluster together, making interpretation easier. Enrichment Map also enables the comparison of two different enrichment results in the same map.
Kalign is a fast and accurate multiple sequence alignment algorithm designed to align large numbers of protein sequences. Kalignvu is an xml based alignment viewer that allows users to resize alignments and choose different colour schemes. Mumsa is a tool for automatic assessment of alignment quality.
LigAlign: an automated system and structure visualization tool for flexible ligand alignment and analysis. When performing rigid alignments, LigAlign produces results consistent with manually annotated structural motifs. In performing flexible alignments, LigAlign automatically produces biochemically reasonable ligand fragmentations and subsequently identifies conserved structural motifs that are not detected by rigid alignment.
An information-rich short reads alignment viewer with genetic detection capability for next-generation sequencing technologies. MapView supports a compact alignment view for both single-end and pair-end short reads, multiple navigation and zoom modes, and multi-thread processing. MapView offers automated genetic variation detection.
featured linkVISTAhttp://genome.lbl.gov/vista/index.shtmlVISTA is a comprehensive suite of programs and databases for comparative analysis of genomic sequences. There are two ways of using VISTA - you can submit your own sequences and alignments for analysis…