> > DNA and Genomic Analysis

DNA and Genomic Analysis

These resources are free, publicly available, multi-purpose tools for genomic and DNA sequence analysis. Links to resources for sequence presentation, manipulation tasks, and format conversion are found here. As well, tools for genomic data analysis are included.

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Found 28 links

Displaying 15 links

BCM Search LauncherResource Content

http://searchlauncher.bcm.tmc.edu/

DNA > DNA and Genomic Analysis
Protein > Do-it-all Tools for Protein

Molecular biology-related search and analysis services organized by function; single point-of-entry for related searches (e.g., a single page for launching protein sequence searches using standard parameters).

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tagsanimals database management systems factual databases humans molecular biology

BCM Search Launcher Sequence UtilitiesTool Content

http://searchlauncher.bcm.tmc.edu/seq-util/seq-util.html

DNA > DNA and Genomic Analysis

Includes reverse complement, 6-frame translation, RepeatMasker, ReadSeq format conversion.

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BioExtractTool Content

http://www.bioextract.org

Computer Related > Web Services
Computer Related > Workflows
DNA > DNA and Genomic Analysis

The BioExtract Server is a platform for the creation of bioinformatic workflows to aid the analysis of genomic data. A series of recorded tasks can be saved and shared. Integrated resources include NCBI databases, EMBL-Bank, UniProt and UniRef, as well as a large number of computational tools such as EMBOSS and KEGG.

NAR Web Server Issue 2011
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tagsbiopolymers computational biology data mining database management systems factual databases information dissemination workflow

Bioinformatics ToolkitTool Content

http://toolkit.tuebingen.mpg.de/

DNA > Annotations
DNA > DNA and Genomic Analysis
DNA > Phylogeny Reconstruction
DNA > Structure and Sequence Feature Detection
DNA > Tools For the Bench
Human Genome > Annotations
Protein > 2-D Structure Prediction
Protein > 3-D Structure Prediction
Protein > Do-it-all Tools for Protein
Protein > Localization and Targeting
Protein > Molecular Dynamics and Docking
Protein > Phylogeny Reconstruction
Protein > Sequence Comparison
Protein > Sequence Features
Sequence Comparison > Multiple Sequence Alignments

This Toolkit is a collection of a wide range of tools and links for sequence analysis, function, and structure prediction. This resource offers convienent web interfaces for many freely available tools.

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BiQ Analyzer HTTool Content

http://biq-analyzer-ht.bioinf.mpi-inf.mpg.de/

DNA > DNA and Genomic Analysis

BiQ Analyzer HT Is a tool that supports locus specific analysis and visualization of high-throughput bisulfite sequencing data. It facilitates analysis of locus specific DNA methylation patterns.

NAR Web Server Issue 2011
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tagsdna dna methylation dna sequence analysis polymerase chain reaction sequence alignment sulfites

BoxShadeTool Content

http://www.ch.embnet.org/software/BOX_form.html

DNA > DNA and Genomic Analysis
Protein > Presentation and Format
Sequence Comparison > Alignment Editing and Visualization

Printing and shading of multiple alignment files.

This content is being maintained by lfalquet.

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tagseurope protein databases protein sequence analysis sequence alignment

ChinookTool Content

http://www.bcgsc.bc.ca/chinook/

Computer Related > Web Services
DNA > DNA and Genomic Analysis
DNA > Structure and Sequence Feature Detection
Expression > Gene Regulation
Sequence Comparison > Multiple Sequence Alignments
Sequence Comparison > Pairwise Sequence Alignments

Chinook is a peer-to-peer (P2P) service for the discovery, use and assessment of bioinformatics programs. Chinook Online allows researchers to connect and run distributed bioinformatics programs using a web application.

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tagsbenchmarking biomedical technology assessment computational biology computing methodologies software validation

eBioinformaticsResource Content

http://www.ebioinformatics.org/

DNA > DNA and Genomic Analysis
DNA > Mapping and Assembly
DNA > Structure and Sequence Feature Detection
DNA > Tools For the Bench
Protein > Biochemical Features
Protein > Do-it-all Tools for Protein
Protein > Presentation and Format
Protein > Sequence Features
Sequence Comparison > Multiple Sequence Alignments
Sequence Comparison > Pairwise Sequence Alignments
Sequence Comparison > Similarity Searching

This site provides several bioinformatics software tools packaged together for easy installation on MacOSX computers. The software includes NCBI tools, EMBOSS, ClustalW, Staden, T-Coffee and Primer3.

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EMBOSSTool Content

http://emboss.bioinformatics.nl/

DNA > DNA and Genomic Analysis
DNA > Sequence Retrieval and Submission
DNA > Structure and Sequence Feature Detection
DNA > Tools For the Bench
Protein > Biochemical Features
Protein > Do-it-all Tools for Protein
Protein > Presentation and Format
Protein > Sequence Features
Protein > Sequence Retrieval
RNA > Sequence Retrieval
Sequence Comparison > Alignment Editing and Visualization
Sequence Comparison > Multiple Sequence Alignments
Sequence Comparison > Pairwise Sequence Alignments
Sequence Comparison > Similarity Searching

Diverse suite of tools for sequence analysis; many programs analagous to GCG; context-sensitive help for each tool.

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tagsmolecular biology sequence alignment

GalaxyTool Content

http://galaxyproject.org/

Computer Related > Workflows
DNA > DNA and Genomic Analysis

Galaxy is an open, web-based platform for performing accessible, reproducible, and transparent biomedical research. Complete computational analyses can be built, saved, rerun, modified and shared. Galaxy is available as a free public web server; as open-source software that can be installed and customized to address specific needs; as a virtual machine that can be installed on the cloud; and on many specialized public web servers at user sites.

This content is being maintained by galaxyproject.

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external linksLink on Twitter
tagsalgorithms animals base sequence chromosome mapping cluster analysis computational biology data integration dna dna mutational analysis dna sequence analysis factual databases genetic databases genetic techniques genome genomics human genome humans molecular sequence data nucleic acid databases sequence alignment software design workflow

HGNC: HUGO Gene Nomenclature CommitteeResource Content

http://www.genenames.org

DNA > DNA and Genomic Analysis
DNA > Sequence Retrieval and Submission
Human Genome > Other Resources
Protein > Sequence Retrieval

The HGNC approves a unique gene name and symbol for each known human gene. The HGNC Database is searchable and contains all approved symbols. For each symbol, if known, the database associates gene location, aliases, previous symbols and links out to sequence data and other databases.

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tagsanimals computational biology genes genetic databases genetic variation genomics human genome humans mice systems integration terminology as topic

IdiographicaTool Content

http://www.ncrna.org/idiographica/

DNA > DNA and Genomic Analysis
Human Genome > Other Resources
Model Organisms > Mouse and Rat

Idiographica is a general-purpose web application to build idiograms on-demand for human, mouse and rat. It allows users to generate high-quality idiograms with custom annotation according to their own genome-wide mapping/annotation data through an easy-to-use interface.

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tagsalgorithms animals chromosome banding chromosome mapping humans mice rats

NDBDatabase Content

http://ndbserver.rutgers.edu/

DNA > DNA and Genomic Analysis
RNA > General Resources

NDB (Nucleic Acid Database) is a repository of three-dimensional structural information about nucleic acids.

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tagsbase sequence dna factual databases molecular sequence data nucleic acid conformation nucleic acid sequence homology proteins restriction mapping rna

OmicBrowseTool Content

http://sourceforge.net/projects/omicbrowse/

DNA > DNA and Genomic Analysis

OmicBrowse is a genome browser designed as a scalable system for maintaining numerous genome annotation datasets. Multiple users may access a common dataset.

NAR Web Server Issue 2009
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tagsgenetic databases genomics systems integration

Ontology Lookup ServiceTool Content

http://www.ebi.ac.uk/ols

DNA > Annotations
DNA > DNA and Genomic Analysis
Model Organisms > General Resources

The Ontology Lookup Service provides interactive and programmatic interfaces to query and browse a suite of biomedical ontologies and controlled vocabularies. Users can also navigate the relationships between terms and obtain additional metadata and annotations. Improvements in 2010 have made OLS easier to use, capture more annotations from source data and integrate into external applications.

This content is being maintained by rglcote.

NAR Web Server Issue 2008NAR Web Server Issue 2010
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tagscontrolled vocabulary database management systems factual databases natural language processing programming languages proteomics systems integration

Tags associated with subcategory 'DNA/DNA and Genomic Analysis'

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