Difference between revisions of "Glossary"

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== Genomic Evolution Terminology  ==
 
== Genomic Evolution Terminology  ==
  
*[[Genomic Feature]]  
+
*[[Biased fractionation]]  
*[[Contig]]  
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*[[Chromosome Rearrangement]]  
 
*[[Conserved Non-Coding Sequence]] ([[CNS]])  
 
*[[Conserved Non-Coding Sequence]] ([[CNS]])  
 +
*[[Contig]]
 +
*[[Deletion]]
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*[[Diploidization]]
 +
*[[DNA alignment]]
 +
*[[Dotplot]]
 +
*[[Fractionation]]
 +
*[[Genespace]]
 +
*[[Genomic Feature]]
 
*[[High-scoring segment pair]] ([[HSP]])  
 
*[[High-scoring segment pair]] ([[HSP]])  
*[[Synteny]]
 
*[[Whole Genome Duplication]]
 
 
*[[Homolog]]  
 
*[[Homolog]]  
 
*[[Homeolog]]  
 
*[[Homeolog]]  
*[[Ortholog]]
+
*[[Insertion]]  
*[[Perfect Ortholog]]
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*[[Paralog]]
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*[[Out-Paralog]]  
+
 
*[[In-Paralog]]  
 
*[[In-Paralog]]  
*[[Syntelog]]
 
 
*[[Inversion]]  
 
*[[Inversion]]  
 
*[[Local Gene Duplication]]  
 
*[[Local Gene Duplication]]  
 +
*[[Neofunctionalization]]
 +
*[[Ortholog]]
 +
*[[Out-Paralog]]
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*[[Paleopolyploid]]
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*[[Paralog]]
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*[[Perfect Ortholog]]
 +
*[[Plant paleopolyploidy]]
 +
*[[Polyploid]]
 +
*[[Protein alignment]]
 +
*[[Repeat sequence]]
 +
*[[Segmental Duplication]]
 +
*[[Speciation]]
 +
*[[Subfunctionalization]]
 +
*[[Synonymous/Nonsynonymous Mutations (Ks/Ka)]]
 +
*[[Syntelog]]
 +
*[[Synteny]]
 
*[[Tandem Gene Duplication]]  
 
*[[Tandem Gene Duplication]]  
*[[Deletion]]  
+
*[[Translocation]]
 
*[[Transposition]]  
 
*[[Transposition]]  
*[[Insertion]]  
+
*[[Whole Genome Duplication]]
*[[Diploidization]]
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*[[Fractionation]]
+
*[[Chromosome Rearrangement]]
+
*[[Synonymous/Nonsynonymous Mutations (Ks/Kn)]]
+
*[[Genespace]]
+
*[[Subfunctionalization]]
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*[[Neofunctionalization]]
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*[[Dotplot]]
+
*DNA alignment
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*Protein alignment
+
  
 
==Methodology==
 
==Methodology==
* [[Flanking Gene Method]] for detecting gene loss and transposition events
 
 
* [[Collinear Gene Order]] for detecting syntenic regions
 
* [[Collinear Gene Order]] for detecting syntenic regions
 +
* [[Flanking Gene Method]] for detecting gene loss and transposition events
 
* [[Useful divergence]] for comparing genomic regions
 
* [[Useful divergence]] for comparing genomic regions
 +
* [[Data visualization]]:  data abstraction for human perception
  
 
== Algorithm Terms ==
 
== Algorithm Terms ==
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* [[Local alignment]]
 
* [[Local alignment]]
 
* [[Score]]
 
* [[Score]]
 +
* [[Scoring Matrix]]
 
* [[Word size]]
 
* [[Word size]]
  
== API Terms ==
+
== Application Programming Interface (API) Terms ==
  
 
*[[Chromosome]]
 
*[[Chromosome]]
 
*[[Dataset]]
 
*[[Dataset]]
*[[Feature]]
+
*[[Dataset group]]
*[[Organism]]
+
*[[Genomic feature]]
 +
*[[Organism description]]
 +
 
 +
== CoGe Tools ==
 +
*[[CoGe NCBI Loader]]

Latest revision as of 11:47, 16 January 2015

A list of terms used in various pages in this wiki that may need clarification.

Genomic Evolution Terminology

Methodology

Algorithm Terms

Application Programming Interface (API) Terms

CoGe Tools