Difference between revisions of "100209 seqchange"
From WormBaseWiki
Jump to navigationJump to searchLine 29: | Line 29: | ||
! 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 | ||
Line 70: | Line 70: | ||
|- | |- | ||
|} | |} | ||
+ | |||
+ | '''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%
So far, 12/12 Negatives are True Negatives:
WBPaper00035204
WBPaper00035205
WBPaper00035206
WBPaper00035212
WBPaper00035214
WBPaper00035216
WBPaper00035220
WBPaper00035223
WBPaper00035224
WBPaper00035225
WBPaper00035226
Back to WormBase SVMs