Difference between revisions of "100209 seqchange"
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+ | Back to [http://www.wormbase.org/wiki/index.php/WormBase_SVMs WormBase SVMs] | ||
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{| class="wikitable" border="1" | {| class="wikitable" border="1" | ||
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! WBPaper00035203 | ! WBPaper00035203 | ||
! high | ! high | ||
− | ! | + | ! No |
− | ! | + | ! No |
− | ! | + | ! This paper used a lot of plasmid constructs and talked about promoter sequences. |
|- | |- | ||
! WBPaper00035211 | ! WBPaper00035211 | ||
! high | ! high | ||
+ | ! Sort of | ||
! 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 | ||
− | ! | + | ! Yes |
− | ! | + | ! Yes |
− | ! | + | ! rpa-9/nol-6 allelism and sequence of point mutation |
|- | |- | ||
! WBPaper00035219 | ! WBPaper00035219 | ||
! high | ! high | ||
− | ! | + | ! Yes |
− | ! | + | ! Yes |
− | ! | + | ! First detailed molecular characterization of let-721 gene and protein. |
|- | |- | ||
! WBPaper00035221 | ! WBPaper00035221 | ||
! high | ! high | ||
+ | ! Yes | ||
! No | ! No | ||
− | ! | + | ! New sequencing technology (galign) describing lots of mutations. |
− | |||
|- | |- | ||
! WBPaper00035222 | ! WBPaper00035222 | ||
! high | ! high | ||
− | ! | + | ! Yes |
− | ! | + | ! Yes |
− | ! | + | ! mrt-1 cloning and characterization |
|- | |- | ||
! WBPaper00035226.sup.6 | ! WBPaper00035226.sup.6 | ||
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! No | ! No | ||
! No | ! No | ||
− | ! | + | ! A phenotype figure. |
|- | |- | ||
|} | |} | ||
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+ | |||
+ | '''Precision''': 50-70% | ||
+ | |||
+ | '''Recall''': 100% (for both data types, but haven't checked entire list of supplements) | ||
+ | |||
+ | '''Correlation''' between seqchange and genesymbol: 30% | ||
+ | |||
+ | |||
+ | '''Assessing Negatives:''' | ||
+ | |||
+ | [http://caprica.caltech.edu/celegans/svm_results/100209/checkFalseNegatives/100209_091809_checkFN_seqchange Negatives] | ||
+ | |||
+ | So far, 17/17 Negatives are True Negatives: | ||
+ | |||
+ | WBPaper00035204 | ||
+ | |||
+ | WBPaper00035205 | ||
+ | |||
+ | WBPaper00035206 | ||
+ | |||
+ | WBPaper00035212 | ||
+ | |||
+ | WBPaper00035214 | ||
+ | |||
+ | WBPaper00035216 | ||
+ | |||
+ | WBPaper00035220 | ||
+ | |||
+ | WBPaper00035223 | ||
+ | |||
+ | WBPaper00035224 | ||
+ | |||
+ | WBPaper00035225 | ||
+ | |||
+ | WBPaper00035226 | ||
+ | |||
+ | WBPaper00035222.sup.1 | ||
+ | |||
+ | WBPaper00035222.sup.2 | ||
+ | |||
+ | WBPaper00035222.sup.3 | ||
+ | |||
+ | WBPaper00035222.sup.4 | ||
+ | |||
+ | WBPaper00035222.sup.5 | ||
+ | |||
+ | WBPaper00035222.sup.6 | ||
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] | ||
+ | |||
+ | [[Category:Curation]] |
Latest revision as of 18:58, 10 August 2010
Back to WormBase SVMs
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 | A phenotype figure. |
Precision: 50-70%
Recall: 100% (for both data types, but haven't checked entire list of supplements)
Correlation between seqchange and genesymbol: 30%
Assessing Negatives:
So far, 17/17 Negatives are True Negatives:
WBPaper00035204
WBPaper00035205
WBPaper00035206
WBPaper00035212
WBPaper00035214
WBPaper00035216
WBPaper00035220
WBPaper00035223
WBPaper00035224
WBPaper00035225
WBPaper00035226
WBPaper00035222.sup.1
WBPaper00035222.sup.2
WBPaper00035222.sup.3
WBPaper00035222.sup.4
WBPaper00035222.sup.5
WBPaper00035222.sup.6
Back to WormBase SVMs