Difference between revisions of "100209 seqchange"

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Line 29: Line 29:
 
! WBPaper00035203
 
! WBPaper00035203
 
! high
 
! high
−
! Yes
+
! No
−
! Yes
+
! No
−
!
+
! This paper used a lot of plasmid constructs and talked about promoter sequences.
 
|-  
 
|-  
 
! WBPaper00035211
 
! WBPaper00035211
 
! high
 
! high
 +
! Sort of
 
! No
 
! No
−
! No
+
! Sequencing of mutant alleles not done in this paper, but a lot of discussion about the molecular nature of the alleles used for the experiments.
−
!
 
 
|-
 
|-
 
! WBPaper00035215
 
! WBPaper00035215
 
! high
 
! high
−
! No
+
! Yes
−
! No
+
! Yes
−
!
+
! rpa-9/nol-6 allelism and sequence of point mutation
 
|-
 
|-
 
! WBPaper00035219
 
! WBPaper00035219
 
! high
 
! high
−
! No
+
! Yes
−
! No
+
! Yes
−
!
+
! First detailed molecular characterization of let-721 gene and protein.
 
|-
 
|-
 
! WBPaper00035221
 
! WBPaper00035221
 
! high
 
! high
 +
! Yes
 
! No
 
! No
−
! No
+
! New sequencing technology (galign) describing lots of mutations.
−
!
 
 
|-
 
|-
 
! WBPaper00035222
 
! WBPaper00035222
 
! high
 
! high
−
! No
+
! Yes
−
! No
+
! Yes
−
!
+
! mrt-1 cloning and characterization
 
|-
 
|-
 
! WBPaper00035226.sup.6
 
! WBPaper00035226.sup.6
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|-
 
|-
 
|}
 
|}
 +
 +
'''Precision: 50-70%'''
 +
'''Recall: 100% (didn't check entire list of supplements, though)'''
 +
'''Correlation between seqchange and genesymbol:30%'''
 +
 +
[[http://caprica.caltech.edu/celegans/svm_results/100209/checkFalseNegatives/100209_091809_checkFN_seqchange Negatives]]
 +
 +
So far, 12/12 Negatives are True Negatives:
 +
 +
WBPaper00035204
 +
 +
WBPaper00035205
 +
 +
WBPaper00035206
 +
 +
WBPaper00035212
 +
 +
WBPaper00035214
 +
 +
WBPaper00035216
 +
 +
WBPaper00035220
 +
 +
WBPaper00035223
 +
 +
WBPaper00035224
 +
 +
WBPaper00035225
 +
 +
WBPaper00035226
 +
 +
  
  
 
Back to [http://www.wormbase.org/wiki/index.php/WormBase_SVMs WormBase SVMs]
 
Back to [http://www.wormbase.org/wiki/index.php/WormBase_SVMs WormBase SVMs]

Revision as of 16:05, 7 December 2009

WBPaper ID SVM confidence True positive for seqchange? True positive for genesymbol? Comments
WBPaper00035194 high Sort of No Discusses extent of 2 tm deletions; not first description of glf-1 in the literature.
WBPaper00035201 high No No Paper discussed mRNA sequences bound to protein. The term 'sequence' in various forms was used frequently.
WBPaper00035202 high Sort of No Describes a plc-4 mutant allele made using a new knock-out strategy.
WBPaper00035203 high No No This paper used a lot of plasmid constructs and talked about promoter sequences.
WBPaper00035211 high Sort of No Sequencing of mutant alleles not done in this paper, but a lot of discussion about the molecular nature of the alleles used for the experiments.
WBPaper00035215 high Yes Yes rpa-9/nol-6 allelism and sequence of point mutation
WBPaper00035219 high Yes Yes First detailed molecular characterization of let-721 gene and protein.
WBPaper00035221 high Yes No New sequencing technology (galign) describing lots of mutations.
WBPaper00035222 high Yes Yes mrt-1 cloning and characterization
WBPaper00035226.sup.6 medium No No

Precision: 50-70% Recall: 100% (didn't check entire list of supplements, though) Correlation between seqchange and genesymbol:30%

[Negatives]

So far, 12/12 Negatives are True Negatives:

WBPaper00035204

WBPaper00035205

WBPaper00035206

WBPaper00035212

WBPaper00035214

WBPaper00035216

WBPaper00035220

WBPaper00035223

WBPaper00035224

WBPaper00035225

WBPaper00035226



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