Dpuiu definitions: Difference between revisions

Latest revision as of 14:30, 4 December 2008

Sensitivity and specificity

 Sensitivity=TP/(TP+FN)
 Specificity=TN/(TN+FP)
 
                   status      
 outcome           +    -
 +                 TP   FP
 -                 FN   TN
 
 FP: Type I error (P value)
 FN: Type II error
 
 try to minimize FP => increase specificity 
 Sensitive: align as many reads as possible
 Specific:  avoid misalignments

Ribosomal Database Project

IS elemets

Yeast two hybrid , Link

Purine:AG 2 rings => bigger
Pyrimidine:CT 1 ring
Transition Purine:Purine or Pyrimidine:Pyrimidine ; 2/3 of the snps
Transversion Purine:Pyrimidine or Pyrimidine:Purine ; 1/3 or the snps

GO

Immunity
MIC
Horizontal gene transfer
Gene therapy
Wild type typical form of an organism, strain, gene, or characteristic as it occurs in nature; most common phenotype
Gram-negative bacteria cell walls has an outer membrane; many are pathogenic

Decision_tree

Cross validation

Genome project

Obligate intracellular parasite

Q20: the number of bases in a read that have a quality value greater than 20; quality value of 20, there is a 1 in 100 chance that the base has been misidentified

@@ Line 1: / Line 1: @@
+* [http://en.wikipedia.org/wiki/Sensitivity_and_specificity Sensitivity and specificity]
+  Sensitivity=TP/(TP+FN)
+  Specificity=TN/(TN+FP)
+                    status
+  outcome           +    -
+  +                 TP   FP
+  -                 FN   TN
+  FP: Type I error (P value)
+  FN: Type II error
+  try to minimize FP => increase specificity
+  Sensitive: align as many reads as possible
+  Specific:  avoid misalignments
+----
 * [http://en.wikipedia.org/wiki/Functional_genomics Functional genomics]
 * [http://en.wikipedia.org/wiki/Molecular_biology Molecular biology]
-* [http://en.wikipedia.org/wiki/Phylogenetic_tree Phylogenetic tree]
 * [http://rdp.cme.msu.edu/ Ribosomal Database Project]
 * [http://en.wikipedia.org/wiki/IS_element IS elemets]
 * [http://en.wikipedia.org/wiki/Two-hybrid_screening Yeast two hybrid] , [http://www.google.com/url?sa=t&source=web&ct=res&cd=6&url=http%3A%2F%2Fwww.cs.tau.ac.il%2F~roded%2Fcourses%2Fcsb-08%2FMK2_2.pdf&ei=MU_uSKi0G5y4efirkcwH&usg=AFQjCNHitncQNgToFNcOLXPN1LukNnNs_w&sig2=hVmlT3GKW3fot-cMI3fIZQ Link]
+----
 * [http://en.wikipedia.org/wiki/Purine Purine:AG] 2 rings => bigger
 * [http://en.wikipedia.org/wiki/Pyrimidine Pyrimidine:CT] 1 ring
 * [http://en.wikipedia.org/wiki/Transition_(genetics) Transition] Purine:Purine or Pyrimidine:Pyrimidine ; 2/3 of the snps
 * [http://en.wikipedia.org/wiki/Transversion Transversion] Purine:Pyrimidine or Pyrimidine:Purine ; 1/3 or the snps
+----
+* [http://en.wikipedia.org/wiki/Multiple_sequence_alignment MSA]
+* [http://en.wikipedia.org/wiki/Phylogenetic_tree Phylogenetic tree]
+* [http://www.geneontology.org/GO.doc.shtml GO]
+----
+* [http://en.wikipedia.org/wiki/Immunity_(medical) Immunity]
+* [http://en.wikipedia.org/wiki/Minimum_inhibitory_concentration MIC]
+* [http://en.wikipedia.org/wiki/Horizontal_gene_transfer Horizontal gene transfer]
+* [http://en.wikipedia.org/wiki/Gene_therapy Gene therapy]
+* [http://en.wikipedia.org/wiki/Wild_type Wild type] typical form of an organism, strain, gene, or characteristic as it occurs in nature; most common phenotype
+* [http://en.wikipedia.org/wiki/Gram_negative Gram-negative bacteria] cell walls has an outer membrane; many are pathogenic
+-----
+* [http://en.wikipedia.org/wiki/Decision_tree Decision_tree]
+-----
+* [http://en.wikipedia.org/wiki/Machine_learning Machine learning]
+* [http://en.wikipedia.org/wiki/Random_forest Random forest]
+* [http://en.wikipedia.org/wiki/Neural_network Neural network]
+------
+* [http://en.wikipedia.org/wiki/Cross_validation Cross validation]
+------
+* [http://en.wikipedia.org/wiki/Genome_project Genome project]
+-----
+* [http://en.wikipedia.org/wiki/Obligate_intracellular_parasite Obligate intracellular parasite]
+-----
+* Q20: the number of bases in a read that have a quality value greater than 20; quality value of 20, there is a 1 in 100 chance that the base has been misidentified

Dpuiu definitions: Difference between revisions

Latest revision as of 14:30, 4 December 2008

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