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Links tagged with 'gc rich sequence'

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CodonOTool Content

http://digbio.missouri.edu/software/index.html

DNA > Structure and Sequence Feature Detection
Model Organisms > General Resources

CodonO is a method for measuring synonymous codon usage bias within and across genomes.

NAR Web Server Issue 2007
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tagsarchaeal dna archaeal genome bacterial dna bacterial genome base composition codon computational biology computer simulation gc rich sequence genetic code genetic models genome species specificity

FrameDTool Content

http://genopole.toulouse.inra.fr/bioinfo/FrameD/FD

DNA > Gene Prediction

FrameD is a program that predicts coding regions in prokaryotic and eukaryotic sequences that may contain frameshifts.

NAR Web Server Issue 2003
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tagsamino acid sequence homology bacterial genome complementary dna dna sequence analysis eukaryotic cells expressed sequence tags frameshift mutation gc rich sequence genes open reading frames

OligoArrayTool Content

http://berry.engin.umich.edu/oligoarray2_1/

Expression > Transcript Expression Analysis
Expression > cDNA, EST, SAGE
Model Organisms > General Resources

OligoArray is free software that computes gene specific oligonucleotides for genome-scale oligonucleotide microarray construction. A database of pre-designed oligonucleotide microarray probes for organisms with a fully sequenced genome can be found at http://berry.engin.umich.edu/oligoarraydb/index.html

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tagsalgorithms arabidopsis gc rich sequence gene expression profiling genetic transcription nucleic acid conformation oligonucleotide array sequence analysis oligonucleotide probes plant genome thermodynamics

PDATool Content

http://dbb.nhri.org.tw/primer/

DNA > Tools For the Bench

Primer Design Assistant (PDA) is a PCR primer design tool that will accept batch submissions of query sequences.

NAR Web Server Issue 2003
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tagsdimerization dna primers dna sequence analysis gc rich sequence nucleic acid conformation nucleic acid denaturation polymerase chain reaction thermodynamics

siDirectTool Content

http://design.RNAi.jp/

DNA > Tools For the Bench
Expression > Gene Regulation
RNA > Structure Prediction, Visualization, and Design

Server for computing small interfering RNA (siRNA) sequences which are best suited for mammalian RNA interference (RNAi). The site accepts a sequence as input and returns a list of siRNA candidates.

NAR Web Server Issue 2004
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tagsalgorithms animals base sequence cell line chick embryo cricetinae drosophila gc rich sequence genetic models genetic vectors humans luciferases mammals mice molecular sequence data rna interference small interfering rna transfection

TwinscanTool Content

http://genes.cs.wustl.edu/

DNA > Gene Prediction

Twinscan is a system for predicting gene-structure in eukaryotic genomic sequences. In order to make its predictions, Twinscan combines the information from predicted coding regions and splice sites with conserservation measurements between the target sequence and sequences from a closely related genome. Currently sequences from mammalian genomes, and those of Arabidopsis thaliana, C. elegans, C. briggsae and strains JEC21 and H99 of Cryptococcus neoformans can be processed using Twinscan.

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tagsalgorithms animals base composition base sequence chromosome mapping computational biology conserved sequence dna exons forecasting gc rich sequence genes genome human genome humans mice molecular evolution nucleic acid sequence homology predictive value of tests sensitivity and specificity sequence alignment statistical models synteny