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A list of terms used in various pages in this wiki that may need clarification. | A list of terms used in various pages in this wiki that may need clarification. | ||
==Genomic Terminology == | == Genomic Evolution Terminology == | ||
* [[Conserved Non-Coding Sequence]] ([[CNS]]) | |||
* [[High-scoring segment pair]] ([[HSP]]) | *[[Biased fractionation]] | ||
* [[ | *[[Chromosome Rearrangement]] | ||
* [[ | *[[Conserved Non-Coding Sequence]] ([[CNS]]) | ||
* [[ | *[[Contig]] | ||
* [[ | *[[Deletion]] | ||
* [[ | *[[Diploidization]] | ||
* [[Paralog]] | *[[DNA alignment]] | ||
* [[ | *[[Dotplot]] | ||
* [[ | *[[Fractionation]] | ||
* [[ | *[[Genespace]] | ||
* [[ | *[[Genomic Feature]] | ||
* [[ | *[[High-scoring segment pair]] ([[HSP]]) | ||
* [[ | *[[Homolog]] | ||
* [[ | *[[Homeolog]] | ||
* [[ | *[[Insertion]] | ||
* [[Synonymous/Nonsynonymous Mutations (Ks/ | *[[In-Paralog]] | ||
*[[Inversion]] | |||
*[[Local Gene Duplication]] | |||
*[[Neofunctionalization]] | |||
*[[Ortholog]] | |||
*[[Out-Paralog]] | |||
*[[Paleopolyploid]] | |||
*[[Paralog]] | |||
*[[Perfect Ortholog]] | |||
*[[Plant paleopolyploidy]] | |||
*[[Polyploid]] | |||
*[[Protein alignment]] | |||
*[[Repeat sequence]] | |||
*[[Segmental Duplication]] | |||
*[[Speciation]] | |||
*[[Subfunctionalization]] | |||
*[[Synonymous/Nonsynonymous Mutations (Ks/Ka)]] | |||
*[[Syntelog]] | |||
*[[Synteny]] | |||
*[[Tandem Gene Duplication]] | |||
*[[Translocation]] | |||
*[[Transposition]] | |||
*[[Whole Genome Duplication]] | |||
==Methodology== | ==Methodology== | ||
* [[Collinear Gene Order]] for detecting syntenic regions | |||
* [[Flanking Gene Method]] for detecting gene loss and transposition events | * [[Flanking Gene Method]] for detecting gene loss and transposition events | ||
* [[ | * [[Useful divergence]] for comparing genomic regions | ||
* [[Data visualization]]: data abstraction for human perception | |||
== Algorithm Terms == | == Algorithm Terms == | ||
| Line 29: | Line 53: | ||
* [[Local alignment]] | * [[Local alignment]] | ||
* [[Score]] | * [[Score]] | ||
* [[Scoring Matrix]] | |||
* [[Word size]] | * [[Word size]] | ||
== API Terms == | == Application Programming Interface (API) Terms == | ||
*[[Chromosome]] | *[[Chromosome]] | ||
*[[Dataset]] | *[[Dataset]] | ||
*[[ | *[[Dataset group]] | ||
*[[Organism]] | *[[Genomic feature]] | ||
*[[Organism description]] | |||
== CoGe Tools == | |||
*[[CoGe NCBI Loader]] | |||
Latest revision as of 17:47, 16 January 2015
A list of terms used in various pages in this wiki that may need clarification.
Genomic Evolution Terminology
- Biased fractionation
- Chromosome Rearrangement
- Conserved Non-Coding Sequence (CNS)
- Contig
- Deletion
- Diploidization
- DNA alignment
- Dotplot
- Fractionation
- Genespace
- Genomic Feature
- High-scoring segment pair (HSP)
- Homolog
- Homeolog
- Insertion
- In-Paralog
- Inversion
- Local Gene Duplication
- Neofunctionalization
- Ortholog
- Out-Paralog
- Paleopolyploid
- Paralog
- Perfect Ortholog
- Plant paleopolyploidy
- Polyploid
- Protein alignment
- Repeat sequence
- Segmental Duplication
- Speciation
- Subfunctionalization
- Synonymous/Nonsynonymous Mutations (Ks/Ka)
- Syntelog
- Synteny
- Tandem Gene Duplication
- Translocation
- Transposition
- Whole Genome Duplication
Methodology
- Collinear Gene Order for detecting syntenic regions
- Flanking Gene Method for detecting gene loss and transposition events
- Useful divergence for comparing genomic regions
- Data visualization: data abstraction for human perception