User:Lrodgers

My Annotations

Status	Page	Date/Time	GO Term (Aspect)	Reference	Evidence	Notes	Links
acceptable	SYNE7:SASA	2011-09-23 15:57:58 CDT	GO:0000155 two-component sensor activity (F)	PMID:16882723	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 1, 2, 3. Table 1 SasA-RpaA acts as a 2-component regulatory system that uses a signal from phosphorylated kaiC.	challenge
acceptable	SYNE7:KAIC	2011-09-23 16:25:47 CDT	GO:0070297 regulation of two-component signal transduction system (phosphorelay) (P)	PMID:16882723	ECO:0000314 direct assay evidence used in manual assertion	Figure 3a,b	challenge
acceptable	CRYGA:B3FTL1	2011-09-25 08:28:20 CDT	GO:0003825 alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity (F)	PMID:19651856	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 2, Table 3. Trehalose production is completely suppressed in tps1 mutants. Additionally the intermediate T6P is found in the wt but not in the tps1 mutants. Mutants of the second gene in the biosynthetic pathway tps2 have accumulated T6P levels indicating that the previous tps1 step is creating T6P.	challenge
acceptable	CRYGA:B3FTL2	2011-10-08 16:40:35 CDT	GO:0004805 trehalose-phosphatase activity (F)	PMID:19651856	ECO:0000314 direct assay evidence used in manual assertion	Figure 2, Table 3	challenge
updatedbyinstructor	CRYNH:Q059G6	2011-10-08 16:43:43 CDT	GO:0004805 trehalose-phosphatase activity (F)	PMID:19651856	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 2, Table 3	challenge
requireschanges	SYNE7:KAIC	2011-10-09 09:40:37 CDT	GO:0070297 regulation of two-component signal transduction system (phosphorelay) (P)	PMID:21788479	ECO:0000314 direct assay evidence used in manual assertion	SI Appendix Fig. S6	challenge
acceptable	BACSU:CLPP	2011-10-19 21:07:45 CDT	GO:0004176 ATP-dependent peptidase activity (F)	PMID:14763982	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 1a, 1b, 2, 3	challenge
acceptable	CRYNJ:PACC	2011-10-19 21:33:03 CDT	GO:0006351 transcription, DNA-dependent (P)	PMID:20174553	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 1A, 1B, Table 2.	challenge
acceptable	CRYNJ:PACC	2011-10-19 21:34:28 CDT	GO:0005634 nucleus (C)	PMID:20174553	ECO:0000314 direct assay evidence used in manual assertion	Figure 3	challenge
acceptable	CRYNE:Q9HFW0	2011-10-19 22:00:15 CDT	GO:0042306 regulation of protein import into nucleus (P)	PMID:20174553	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 3. Rim101 localization is dependent on PKA	challenge
acceptable	CRYNJ:PALA	2011-10-19 22:05:01 CDT	GO:0042306 regulation of protein import into nucleus (P)	PMID:20174553	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 3. Rim101 localization in the nucleus is dependent on Rim20	challenge
acceptable	MAGGR:Q875L7	2011-10-30 21:27:20 CDT	GO:0006111 regulation of gluconeogenesis (P)	PMID:12514128	ECO:0000315 mutant phenotype evidence used in manual assertion	Table 1 shows tps1 KO mutants are unable to grow on glucose, sucrose, fructose, maltose, or trehalose. Additionally this strain could not grow on acetate or fatty acids.	challenge
acceptable	MAGGR:Q875L7	2011-10-30 21:36:19 CDT	GO:0075039 establishment of turgor in appressorium (P)	PMID:12514128	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 2c shows Appressorium turgor of tps1 KO mutants was significantly decreased compared to the WT.	challenge
acceptable	CRYNV:Q197G0	2011-10-31 20:58:33 CDT	GO:0045227 capsule polysaccharide biosynthetic process (P)	PMID:16835458	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 3. nrg1 mutants show reduced capsule synthesis over WT	challenge
unacceptable	ECOLI:CRP	2011-10-31 21:11:57 CDT	GO:0009409 response to cold (P)	PMID:21926233	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 6 shows crp mutants show reduced cell growth compared to the WT at 15C.	challenge
updatedbyinstructor	ARATH:GATP	2011-11-02 18:15:38 CDT	GO:0003867 4-aminobutyrate transaminase activity (F)	PMID:12859897	ECO:0000315 mutant phenotype evidence used in manual assertion	Table 1. In mutant pop2, GABA elevated 100-fold. GABA transaminases convert GABA to succinic semialdehyde and oxidized to succinic acid. In pop2 mutants the succinic acid levels are unchanged.	challenge
requireschanges	ECOBW:C4ZT83	2011-11-19 14:18:17 CST	GO:0006355 regulation of transcription, DNA-dependent (Figure 2. EMSA of arcA and arcA-P binding to aldA promoter. This figure shows arcA binds to the aldA promoter but Table 2 is needed to show that this binding regulates transcription. Table 2. The arcA binding region of the aldA promoter was mutated. This mutation relieved the aldA promoter from arcA repression during anaerobic conditions. )	PMID:10071223	IDA: Inferred from Direct Assay		challenge

acceptable:12
unacceptable:1
requires_changes:2
flagged:0

Annotations challenged by Lrodgers

Status	Author,Group	Page	GO Term (Aspect)	Reference	Evidence	Links	Page history
acceptable	Lrodgers, Team KremlinOnTheCrum	CRYGA:B3FTL1	GO:0003825 - alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity (F)	PMID:19651856	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 2
acceptable	Bionzc, Team Denitrifiers	CUPNE:Q44012	GO:0050421 - nitrite reductase (NO-forming) activity (F)	PMID:9023961	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 2
acceptable	Emlarkin03, Team Angry Squirrels	MOUSE:ASIP	GO:0048023 - positive regulation of melanin biosynthetic process (P)	PMID:21949658	ECO:0000316 genetic interaction evidence used in manual assertion	challenge	C: 1
acceptable	Nrache1, Team Polymerase Chain Re-awesome	9BACT:Q1Q0T3	GO:0044222 - anammoxosome (C)	PMID:19558586	ECO:0000314 direct assay evidence used in manual assertion	challenge	C: 2
unacceptable	Nrache1, Team Polymerase Chain Re-awesome	9BACT:Q30JB5	GO:0009055 - electron transfer activity (F)	PMID:16216446	ECO:0000247 sequence alignment evidence used in manual assertion	challenge	C: 2
acceptable	Jolive15, Team Denitrifiers	EMENI:NIRA	GO:0003700 - DNA-binding transcription factor activity (F)	PMID:1922075	ECO:0000314 direct assay evidence used in manual assertion	challenge	C: 1
updatedbyinstructor	Lrodgers, Team KremlinOnTheCrum	ARATH:GATP	GO:0003867 - obsolete 4-aminobutyrate transaminase activity (F)	PMID:12859897	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 2
acceptable	Lrodgers, Team KremlinOnTheCrum	MAGGR:Q875L7	GO:0006111 - regulation of gluconeogenesis (P)	PMID:12514128	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 2
acceptable	Acalic1, Team Step 1 Nitrification	AZOVI:NIFK	GO:0009399 - nitrogen fixation (P)	PMID:2644218	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 1
acceptable	Lrodgers, Team KremlinOnTheCrum	BACSU:CLPP	GO:0004176 - ATP-dependent peptidase activity (F)	PMID:14763982	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 2

0 annotations fixed by Lrodgers