User:Huverdav

My Annotations

Status	Page	Date/Time	GO Term (Aspect)	Reference	Evidence	Notes	Links
unacceptable	STAEQ:SAER	2014-04-06 11:23:49 CDT	GO:0009386 translational attenuation (P)	PMID:24592198	ECO:0000314 direct assay evidence used in manual assertion	Figure 4: the biofilm forming ability of WT showed no obvious difference upon the stimulation of glucose. Although it did not reach the level of the wild-type strain, complementation of saeRS resulted in decreased biofilm formation.	challenge
unacceptable	YEAST:RGT1	2014-04-06 12:30:33 CDT	GO:0030528 transcription regulator activity (F)	PMID:24490134	ECO:0000314 direct assay evidence used in manual assertion	Figure2:These results suggest that Mth1 may regulate the function of LexA-Rgt1 without directly affecting its DNA-binding ability.	challenge
updatedbyinstructor	STRT2:MECA	2014-04-06 13:04:54 CDT	GO:0045892 negative regulation of transcription, DNA-templated (P)	PMID:22287513	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 4: These data show that MecA and ClpC, but not ClpE, negatively affect the abundance of ComX in vivo in S. thermophilus LMD-9, confirming the above-described expression results obtained with the reporter strains.	challenge
unacceptable	ECOLX:MCCF	2014-04-06 13:35:00 CDT	GO:0008236 serine-type peptidase activity (F)	PMID:22516613	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 2: Based on this result we conclude that similarly to EcMccF, BaMccF likely cleaves the C-N bond in the carboxamide moiety of in DSA and ESA. Inactivations of McC by BaMccF likely occurs by the same mechanism. We therefore conclude that the MccF proteins from E. coli and B. anthracis are functionally equivalent to one another.	challenge
unacceptable	BACSU:GREA	2014-04-06 14:27:22 CDT	GO:0044212 transcription regulatory region DNA binding (F)	PMID:21515770	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 3: Genome wide correlation between RNAP and GreA and NusA binding signals with correlation coefficient.	challenge
unacceptable	BACSU:GREA	2014-04-06 14:29:07 CDT	GO:0044212 transcription regulatory region DNA binding (F)	PMID:21515770	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 4: GreA was detected in both complexes, albeit weakly, probably due to indirect interactions. Furthermore, both NusA and σA were detected in the RNAP complex purified by using GreA-His (lane 1), supporting the association of GreA with both initiation and elongation complexes of RNAP.	challenge
unacceptable	BACSU:GREA	2014-04-06 14:31:03 CDT	GO:0044212 transcription regulatory region DNA binding (F)	PMID:21515770	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 5: Findings suggest that GreA inactivation results in the stalling of RNAP at the promoter or promoter-proximal region, supporting its general involvement in stimulation of promoter escape or suppression of promoter-proximal pausing in B. subtilis cells.	challenge
unacceptable	STAEQ:SAER	2014-04-06 14:43:56 CDT	GO:0009386 translational attenuation (P)	PMID:24592198	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 4: the biofilm forming ability of WT showed no obvious difference upon the stimulation of glucose. Although it did not reach the level of the wild-type strain, complementation of saeRS resulted in decreased biofilm formation.	challenge
updatedbyinstructor	STAEQ:SAER	2014-04-06 14:43:56 CDT	GO:0010468 regulation of gene expression (P)	PMID:24592198	ECO:0000314 direct assay evidence used in manual assertion	Figure 3: To verify the differentially expressed proteins regulated by SaeRS at the transcriptional level, glucose metabolism-related genes were chosen for the quantitative real-time RT-PCR analysis. The phosphate acetyltransferase transcription expression levels were significantly upregulated 1.72-fold over than those of the control.	challenge
unacceptable	YEAST:RGT1	2014-04-06 14:58:21 CDT	GO:0030528 transcription regulator activity (F)	PMID:24490134	ECO:0000314 direct assay evidence used in manual assertion	Figure 3: Consistently, LexA-Rgt1 (5SA) was shown to inhibit glucose-induced expression of the reporter gene. These results suggest that the function of the LexA-Rgt1 repressor, bound to the HXT promoters constitutively, is critically regulated by its phosphorylation state.	challenge
updatedbyinstructor	YEAST:RGT1	2014-04-06 14:58:22 CDT	GO:0001227 DNA-binding transcription repressor activity, RNA polymerase II-specific (F)	PMID:24490134	ECO:0000314 direct assay evidence used in manual assertion	Figure 1E: The reporter strains expressing the Rgt1 fusions were shown to grow only in glucose-containing medium (Fig. 1E), suggesting that the Rgt1 constructs repress expression of the HXT1 promoter in the absence of glucose but negatively regulated by glucose.	challenge
unacceptable	CLOAB:Q97TE7	2014-04-06 15:14:51 CDT	GO:0016987 sigma factor activity (F)	PMID:21421765	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 4: Expression of all three sigma factors is restored in the complemented strain FKO1-C (Fig. 4), confirming that a functional σF restores σE and σG expression	challenge
updatedbyinstructor	MOUSE:Q5SSJ1	2014-04-06 15:40:26 CDT	GO:0004867 serine-type endopeptidase inhibitor activity (F)	PMID:20709948	ECO:0000314 direct assay evidence used in manual assertion	Figure 9E: AMWAP attenuates microglial migration and exerts anti-serine protease activity. Quantitative analysis of anti-protease activity in AMWAP-GFP and GFP expressing BV-2 microglia.	challenge
acceptable	BACSU:RBGA	2014-04-06 16:09:10 CDT	GO:0003924 GTPase activity (F)	PMID:16431913	ECO:0000314 direct assay evidence used in manual assertion	Figrue 2: Consistent with YlqF association with the 50 S subunit, GTPase activity was stimulated in the presence of 50 S subunit, but not 30 S subunit (Fig. 2B). No activity of YlqF with the 50 S subunit-treated RNaseA was observed (Fig. 2B). Our results indicate that 50 S is indispensable for the GTPase activity of YlqF.	challenge
unacceptable	BACSU:RBGA	2014-04-06 16:09:10 CDT	GO:0003723 RNA binding (F)	PMID:16431913	ECO:0000314 direct assay evidence used in manual assertion	Figure 4: Recovered YlqF was saturated following the addition of 2-fold excess protein to the 50 S subunit, indicating that two molecules of YlqF bind a 50 S subunit (Fig. 3).	challenge

acceptable:1
unacceptable:10
requires_changes:0
flagged:0

Annotations challenged by Huverdav

Status	Author,Group	Page	GO Term (Aspect)	Reference	Evidence	Links	Page history
updatedbyinstructor	Hardin57, MichSt14A 9	VIBAL:D0WWP7	GO:0007165 - signal transduction (P)	PMID:22130678	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 2
unacceptable	Emma.sioringas, Team chimeric proteins	MOUSE:PMP22	GO:0032290 - peripheral nervous system myelin formation (P)	PMID:12111804	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 1
unacceptable	Emma.sioringas, Team chimeric proteins	HUMAN:FABP4	GO:0006869 - lipid transport (P)	PMID:24700313	ECO:0000314 direct assay evidence used in manual assertion	challenge	C: 1
unacceptable	Burkewi4, MichSt14A 28	PHOTE:T0PH26	GO:0000988 - obsolete transcription factor activity, protein binding (F)	PMID:22151606	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 2
updatedbyinstructor	Readettd, MichSt14A 19	9ROSI:C0LU17	GO:0036263 - L-DOPA monooxygenase activity (F)	PMID:24613318	ECO:0000314 direct assay evidence used in manual assertion	challenge	C: 1

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