User:Harigjen

My Annotations

Status	Page	Date/Time	GO Term (Aspect)	Reference	Evidence	Notes	Links
updatedbyinstructor	HUMAN:MTA3	2013-03-31 16:06:28 CDT	GO:0045892 negative regulation of transcription, DNA-dependent (P)	PMID:15454082	ECO:0000315 mutant phenotype evidence used in manual assertion	Figure 3D shows that repression, driven by the central region of BCL-6, was affected by MTA3 depletion. It can be concluded that MTA3 contributes to transcriptional repression by Gal4-BCL-6 through interaction with a transcriptional repression domain in the central region of BCL-6.	challenge
acceptable	XENTR:F6WBH7	2013-04-14 11:03:41 CDT	GO:0060070 canonical Wnt receptor signaling pathway (P)	PMID:23577172	ECO:0000315 mutant phenotype evidence used in manual assertion	The results presented in Fig. 4 (A-H) suggest “that xIQGAP1 is necessary for Wnt-related early embryogenesis” and functions as an intermediate molecule in the pathway. Additionally, the results in Fig 5 also support that binding between xDVL2 and xIQGAP1 plays an important role in canonical Wnt signaling.	challenge
updatedbyinstructor	MOUSE:HINT1	2013-04-14 12:46:54 CDT	GO:0050850 positive regulation of calcium-mediated signaling (P)	PMID:23576580	ECO:0000315 mutant phenotype evidence used in manual assertion	Fig. 2A,B, along with Fig. 1B show that the HINT1 KO fibroblasts demonstrate calcium ion dysregulation, While the immunoblots displayed in Fig. 3A-D, revealed that the decreased ATP-induced Ca2+ entry is likely a consequence of down-regulated expression of Orai1 and STIM1 proteins.	challenge
requireschanges	MOUSE:F8VPS6	2013-04-14 14:44:14 CDT	GO:0032956 regulation of actin cytoskeleton organization (P)	PMID:23572525	ECO:0000315 mutant phenotype evidence used in manual assertion	Insets of fluorescent microscopy in Fig. 4 show cytoskeletal features exhibited by Plekhg4 expression, demonstrating how it plays a role in the regulation the actin cytoskeleton	challenge
acceptable	MOUSE:F8VPS6	2013-04-14 14:53:30 CDT	GO:0090630 activation of GTPase activity (P)	PMID:23572525	ECO:0000315 mutant phenotype evidence used in manual assertion	Plekhg4-GTPase association is demonstrated in Fig 3. B, and the GTPase activation by Plekhg4 is shown in Fig 3. A. Together these results demonstrate Plekhg4’s GEF function.	challenge
acceptable	MOUSE:WNT5A	2013-04-14 15:43:36 CDT	GO:0097325 melanocyte proliferation (P)	PMID:23569434	ECO:0000314 direct assay evidence used in manual assertion	The results displayed in figure 1 C and D. indicate the ratio of proliferating AdWnt5a-infected cells is lower than that in control cells. This would imply that “Wnt5a inhibited the proliferation of melan-a cells.”	challenge
acceptable	MOUSE:WNT5A	2013-04-14 15:52:13 CDT	GO:0048022 negative regulation of melanin biosynthetic process (P)	PMID:23569434	ECO:0000314 direct assay evidence used in manual assertion	Wnt5a inhibited the tyrosinase activity of melan-a cells in a dose-dependent manner compared to the control as displayed in Fig. 2A. This was confirmed by the tyrosinase activity assay results in Fig. 2B, decreased protein levels of tyrosinase and TRP1 due to Wnt5a presented in Fig. 2 C and D, and also by subcutaneous implantation experiments presented in Fig. 2 E.	challenge
acceptable	MOUSE:WNT5A	2013-04-14 15:56:43 CDT	GO:2000052 positive regulation of non-canonical Wnt receptor signaling pathway (P)	PMID:23569434	ECO:0000314 direct assay evidence used in manual assertion	The results displayed in Fig. 3 show that Wnt5a increased the expression levels of Ror2, c-JUN, JNK1 and JNK2 in a time-dependent manner which demonstrates activation of Wnt/Ror2 signaling pathways via Wnt5a.	challenge
acceptable	MOUSE:WNT5A	2013-04-14 16:04:40 CDT	GO:0090090 negative regulation of canonical Wnt signaling pathway (P)	PMID:23569434	ECO:0000314 direct assay evidence used in manual assertion	Both RT-PCR and Western blot analyses, found in Fig. 4 A, showed that Wnt5a significantly decreased the expression level of β-catenin in melan-a cells. Co-infection analyses displayed in Fig 4 C and D each showed that Wnt5a down-regulated the expression levels of these pigmentation-related mRNAs and proteins upregulated by Wnt3a. These results, supported by the tyrosinase activity assay in Fig 4 B, suggested that Wnt5a antagonized the canonical Wnt signaling pathway in melan-a cells.	challenge
	HUMAN:B7ZMN7	2017-04-13 10:03:46 CDT	GO:0048069 eye pigmentation (P)	PMID:20463881	ECO:0000317 genomic context evidence used in manual assertion	Table 2 and Figure 3 C demonstrate that the association of the LYST gene on the 1q42.3 loci meets the genome-wide significance criterion of P<5×10−8 in determining eye color.	challenge
	HUMAN:DSCR9	2017-04-13 10:05:44 CDT	GO:0048069 eye pigmentation (P)	PMID:20463881	ECO:0000317 genomic context evidence used in manual assertion	Table 2 and Figure 3 C demonstrate that the association of the DSCR9 gene on the 21q22.13 loci meets the genome-wide significance criterion of P<5×10−8 in determining eye color.	challenge

acceptable:6
unacceptable:0
requires_changes:1
flagged:0

Annotations challenged by Harigjen

Status	Author,Group	Page	GO Term (Aspect)	Reference	Evidence	Links	Page history
updatedbyinstructor	Emeller, Team The Z-team	DANRE:B0R0V8	GO:0061075 - positive regulation of neural retina development (P)	PMID:18836173	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 4 fixed by Harigjen
updatedbyinstructor	Emily.burton, Team Endoplasmic Reticulum	MOUSE:BMP4	GO:0010628 - positive regulation of gene expression (P)	PMID:19001364	ECO:0000314 direct assay evidence used in manual assertion	challenge	C: 1 fixed by Harigjen
updatedbyinstructor	Mart1202, Team Mom Genes	MYXXD:Q1D4V8	GO:0071978 - bacterial-type flagellum-dependent swarming motility (P)	PMID:21856842	ECO:0000315 mutant phenotype evidence used in manual assertion	challenge	C: 2 fixed by Mart1202

2 annotations fixed by Harigjen

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