Cacao

2016-03-31 17:03:41 CDT

Since there aren't any kinase assays, this GO won't work. The figures only show growth of the colony, so that's not http://www.ebi.ac.uk/QuickGO/GTerm?id=GO:0016049 cell growth, "The process in which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present." but is just a phenotype. Since this is the GENE Ontology, we can't capture that kind of info. Same for "phosphatase activity" terms. This is just a growth curve.

Evidence- you're right to change it from IGI, since that required a with/from entry, but since we can't accept these figures it doesn't matter what evidence you pick. For the example from my last assessment, I think that's IMP (with GOs about autophosphorylation and/or HK activity, notes could be "Both fusions were capable of autophosphorylation when assayed for histidine kinase activity (Fig. 3). ").

I'm marking this required_changes, but it's probably best to just find another paper and start a new annotation- possibly even some of the references from this paper, because the authours seem pretty confident these are HKs- where did they get that info from?

Unacceptable

Public
Assessment

2016-03-29 17:52:11 CDT

This annotation has been flagged because it has been edited since last assessment

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0000163	protein phosphatase type 1 activity	PMID:25841007	IMP: Inferred from Mutant Phenotype		F	Fig 3: Growth curves for Listeria monocytogenes and histidine kinase deletion mutant strains and the wild-type strain EGD-e in BHI broth at 3°C. All the strains were grown for 23 days, and the OD600 was measured every hour. The other histidine kinase mutant strains showed no significantly impaired growth compared to the wild type. (B) Growth curves for L. monocytogenes histidine kinase deletion mutant strains and the wild-type strain EGD-e in BHI broth at 37°C. . The data shown represent the mean OD600 values and standard deviations for five replicate cultures. The correspondence between the OD600 values and viable cell numbers was verified by plate counts.	complete CACAO 11347

Flagged

Private
Assessment

2016-03-29 13:11:49 CDT

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Unacceptable

Private
Assessment

2016-03-29 13:10:47 CDT

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Requires Changes

Private
Assessment

2016-03-29 12:57:50 CDT

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Requires Changes

Public
Assessment

2016-03-23 11:42:45 CDT

This annotation has been flagged because it has been edited since last assessment

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0000163	protein phosphatase type 1 activity	PMID:25841007	IDA: Inferred from Direct Assay		F	Fig 3: Growth curves for Listeria monocytogenes and histidine kinase deletion mutant strains and the wild-type strain EGD-e in BHI broth at 3°C. All the strains were grown for 23 days, and the OD600 was measured every hour. The other histidine kinase mutant strains showed no significantly impaired growth compared to the wild type. (B) Growth curves for L. monocytogenes histidine kinase deletion mutant strains and the wild-type strain EGD-e in BHI broth at 37°C. . The data shown represent the mean OD600 values and standard deviations for five replicate cultures. The correspondence between the OD600 values and viable cell numbers was verified by plate counts.	complete CACAO 11347

Flagged

Public
Assessment

2016-03-23 11:42:40 CDT

This annotation has been flagged because it has been edited since last assessment

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0000163	protein phosphatase type 1 activity	PMID:25841007	IDA: Inferred from Direct Assay		F	Fig 3: Growth curves for Listeria monocytogenes and histidine kinase deletion mutant strains and the wild-type strain EGD-e in BHI broth at 3°C. All the strains were grown for 23 days, and the OD600 was measured every hour. The other histidine kinase mutant strains showed no significantly impaired growth compared to the wild type. (B) Growth curves for L. monocytogenes histidine kinase deletion mutant strains and the wild-type strain EGD-e in BHI broth at 37°C. . The data shown represent the mean OD600 values and standard deviations for five replicate cultures. The correspondence between the OD600 values and viable cell numbers was verified by plate counts.	complete CACAO 11347

Flagged

Public
Assessment

2016-03-23 11:42:31 CDT

This annotation has been flagged because it has been edited since last assessment

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0000163	protein phosphatase type 1 activity	PMID:25841007	IDA: Inferred from Direct Assay		F	Fig 3: Growth curves for Listeria monocytogenes and histidine kinase deletion mutant strains and the wild-type strain EGD-e in BHI broth at 3°C. All the strains were grown for 23 days, and the OD600 was measured every hour. The other histidine kinase mutant strains showed no significantly impaired growth compared to the wild type. (B) Growth curves for L. monocytogenes histidine kinase deletion mutant strains and the wild-type strain EGD-e in BHI broth at 37°C. . The data shown represent the mean OD600 values and standard deviations for five replicate cultures. The correspondence between the OD600 values and viable cell numbers was verified by plate counts.	complete CACAO 11347