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Links tagged with 'nucleic acid hybridization'

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AsteriasTool Content

http://asterias.bioinfo.cnio.es/

DNA > Annotations
Expression > Transcript Expression Analysis

Asterias is a set of tools for the analyses of high throughput genomic data that includes applications for microarray data normalization, filtering, detection of differential gene expression, class and survival prediction model building, and analysis of array CGH data. Most applications use parallel computing resulting in significant increases in speed.

This content is being maintained by rdiaz02.

NAR Web Server Issue 2007
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tagsalgorithms animals automated pattern recognition automation cluster analysis computational biology computer simulation database management systems dna sequence analysis gene expression profiling genetic models genomics humans nucleic acid hybridization oligonucleotide array sequence analysis programming languages sequence alignment statistical models

Defining Transcriptional Programs in Vascular EndotheliumResource Content

http://www.vessels.bwh.harvard.edu/

Expression > Gene Regulation
Expression > Transcript Expression Analysis

This website contains microarray analysis software (Argus and Z-pool), an Endothelial Cell Expression Database, and other resources related to Vascular Endothelium research. See the PubMed abstracts for more information.

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tagsbase sequence biomechanics complementary dna cultured cells dna primers factual databases gene expression profiling humans molecular sequence data nucleic acid hybridization oligonucleotide array sequence analysis phenotype reproducibility of results statistics as topic vascular endothelium

DINAMeltTool Content

http://mfold.rna.albany.edu/?q=DINAMelt

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

DINAMelt is a tool for predicting hybridization and folding (secondary structure) of DNA and RNA using equilibrium thermodynamic methods.

NAR Web Server Issue 2005
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tagsalgorithms animals bacterial rna base sequence calorimetry dna dna sequence analysis fungal rna genetic hybridization introns molecular sequence data nucleic acid conformation nucleic acid denaturation nucleic acid hybridization oligonucleotides oligoribonucleotides phylogeny rats rna rna sequence analysis single-stranded dna structure-activity relationship temperature theoretical models transition temperature

Gene2OligoTool Content

http://berry.engin.umich.edu/gene2oligo/

DNA > Tools For the Bench

Tool which divides both strands of an input DNA sequence into a set of contiguous oligonucleotides. These oligos are designed with complimentary regions so that the complete set can be combined to synthesize the input DNA sequence in vitro (using oligonucleotide synthesis and assembly PCR).

NAR Web Server Issue 2004
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tagsalgorithms cytochromes b5 dna ligases dna sequence analysis fungal genes nucleic acid hybridization oligonucleotides polymerase chain reaction saccharomyces cerevisiae temperature

MatchMinerTool Content

http://discover.nci.nih.gov/matchminer/

Expression > Transcript Expression Analysis

MatchMiner is a tool to compare and convert gene identifiers. Users can translate single or lists of identifiers from one form to another, or compare two lists of identifiers for common gene references.

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tagsalgorithms computational biology dna sequence analysis fluorescence in situ hybridization genetic databases genomics humans nucleic acid hybridization oligonucleotide array sequence analysis proteins rna software design

MfoldTool Content

http://mfold.rna.albany.edu/?q=mfold/download-mfold

RNA > Structure Prediction, Visualization, and Design

Predict RNA secondary structure from sequence; does not predict pseudoknots - see PKNOTS.

NAR Web Server Issue 2003
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tagsbase composition base sequence consensus sequence dna molecular models molecular sequence data nucleic acid conformation nucleic acid databases nucleic acid denaturation nucleic acid hybridization nucleic acid repetitive sequences rna single-stranded dna thermodynamics

OligoHeatMapTool Content

http://bioinfo.unice.fr/ohm/

DNA > Tools For the Bench

OligoHeatMap is an online tool for estimation of melting temperatures for sets of oligonucleotides and positioning of oligomers within sets of aligned sequences. Oligomer positioning on sequences is displayed graphically.

NAR Web Server Issue 2008
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tagsdna sequence analysis nucleic acid denaturation nucleic acid hybridization oligonucleotide probes polymerase chain reaction sequence alignment thermodynamics

OligoWalkTool Content

http://rna.urmc.rochester.edu/servers/oligowalk

RNA > Structure Prediction, Visualization, and Design

OligoWalk is an online sever for designing efficient siRNA targeting a given mRNA sequence. By calculating thermodynamic features of sense-antisense hybidization, OligoWalk predicts the free energy changes of oligonucleotides binding to a target RNA.

NAR Web Server Issue 2008
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tagsmessenger rna nucleic acid hybridization oligonucleotides rna interference rna sequence analysis small interfering rna thermodynamics

PLANdbAffyDatabase Content

http://affymetrix2.bioinf.fbb.msu.ru

Expression > Databases

PLANdbAffy contains the results of the alignment of probe sequences from five Affymetrix expression microarrays to the human genome. Probes matching the transcript-coding regions in the correct orientation have been determined. For each such probe alignment region, the mRNA and EST sequences that contain the probe sequence have also been determined. In the textual part of the database interface, data on the sequences that cover the probe alignment region and SNPs that are located inside it is summarized. The graphical part of our database interface is implemented as custom tracks to the UCSC genome browser that allows one to utilize all the data that are offered by UCSC browser.

NAR Database Issue 2010
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tagsalternative splicing computational biology genetic databases genome humans introns nucleic acid databases nucleic acid hybridization oligonucleotide array sequence analysis protein databases sequence alignment single nucleotide polymorphism

TIARADatabase Content

http://tiara.gmi.ac.kr

DNA > Databases
Human Genome > Databases

Total Integrated Archive of Short-Read and Array (TIARA) database, contains personal genomic information obtained from next generation sequencing (NGS) techniques and ultra-high-resolution comparative genomic hybridization (CGH) arrays. This database improves the accuracy of detecting personal genomic variations, such as SNPs, short indels and structural variants (SVs).

NAR Database Issue 2011
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tagsdna sequence analysis genetic variation genomics high-throughput nucleotide sequencing human genome humans nucleic acid databases nucleic acid hybridization