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Links tagged with 'takifugu'

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CONREALTool Content

http://conreal.niob.knaw.nl/

DNA > Structure and Sequence Feature Detection
Expression > Gene Regulation

CONREAL (Conserved Regulatory Elements Anchored Alignment) allows identification of transcription factor binding sites (TFBS) that are conserved between two orthologous promoter sequences.

NAR Web Server Issue 2005
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tagsalgorithms animals base sequence binding sites conserved sequence dna footprinting dna sequence analysis dna-binding proteins gene expression regulation genetic promoter regions hepatocyte nuclear factor 3-beta humans mice nuclear proteins nucleic acid regulatory sequences nucleic acid sequence homology phylogeny rats sequence alignment takifugu transcription factors zebrafish

IMCB - Fugu Genome ProjectTool Content

http://www.fugu-sg.org/

Model Organisms > Fish

Lots of information on fugu including complete draft sequence, annotations, comparative vertebrate genomics, phylogenies, publications, and information about the fugu genome project; has some very useful tools including annotation tools, an Ensembl mirror, and BLAST.

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tagsanimals base sequence biological evolution computational biology conserved sequence cosmids dna dna sequence analysis dna transposable elements exons factual databases fish proteins fishes gene duplication gene library gene order genetic models genome genomics human genome humans introns japan mammals microsatellite repeats molecular evolution molecular sequence data nucleic acid repetitive sequences open reading frames phylogeny physical chromosome mapping poisonous fishes proteins proteome research satellite dna sequence alignment synteny takifugu vertebrates

LAGANTool Content

http://lagan.stanford.edu/lagan_web/index.shtml

Sequence Comparison > Multiple Sequence Alignments
Sequence Comparison > Pairwise Sequence Alignments

The LAGAN alignment toolkit consists of components: CHAOS (a pairwise local aligner optimized for non-coding, and other poorly conserved regions of the genome.), LAGAN (a highly parametrizable pairwise global alignment program), Multi-LAGAN , and Shuffle-LAGAN (both variations of LAGAN).

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tagsanimals base sequence cattle chickens dna sequence analysis dogs genome human genome humans mice molecular sequence data nucleic acid sequence homology pan troglodytes papio rats sequence alignment swine takifugu zebrafish

VISTATool Content

http://genome.lbl.gov/vista/index.shtml

DNA > Structure and Sequence Feature Detection
Sequence Comparison > Analysis of Aligned Sequences
Sequence Comparison > Comparative Genomics
Sequence Comparison > Multiple Sequence Alignments

VISTA 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 (VISTA servers) or examine pre-computed whole-genome alignments of different species.

NAR Web Server Issue 2004NAR Web Server Issue 2007
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tagsalgorithms animals base sequence binding sites cats cattle chickens chromosome mapping computational biology dna dna sequence analysis dogs exons gene expression profiling genome genomics human chromosomes human genome humans kinesin leukemia mice molecular evolution molecular sequence data nucleic acid regulatory sequences nucleic acid repetitive sequences nucleic acid sequence homology pan troglodytes papio phylogeny rabbits rats reproducibility of results sensitivity and specificity sequence alignment single nucleotide polymorphism swine takifugu time factors transcription factors untranslated regions zebrafish