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User:Tracy.Pham

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CACAO Spring 2016

My Annotations

StatusPageDate/TimeGO Term (Aspect)ReferenceEvidenceNotesLinks
unacceptableHUMAN:BIRC12016-02-08 22:46:04 CSTGO:0006954 inflammatory response (P)PMID:21874021ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2. (NAIP)

challenge
unacceptableHUMAN:BIRC12016-02-08 22:46:05 CSTGO:0009405 pathogenesis (P)other:GO_REF:0000037

pathogenesis (IEA)

challenge
unacceptableHUMAN:BIRC12016-02-08 23:05:05 CSTGO:0043154 negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (P)PMID:11896143ECO:0000314 direct assay evidence used in manual assertion

The neuronal apoptosis inhibitory protein (NAIP) was identified as a candidate gene for the inherited neurodegenerative disorder spinal muscular atrophy.

challenge
unacceptableHUMAN:BIRC12016-02-08 23:12:42 CSTGO:0043281 regulation of cysteine-type endopeptidase activity involved in apoptotic process (P)PMID:15190255ECO:0000315 mutant phenotype evidence used in manual assertion

Specific adaptors regulate the activation of initiator caspases; for example, FADD and Apaf-1 engage caspases 8 and 9, respectively. The adaptors ASC, Ipaf and RIP2 have each been proposed to regulate caspase-1 (also called interleukin (IL)-1 converting enzyme), which is activated within the 'inflammasome', a complex comprising several adaptors.

challenge
unacceptableHUMAN:BIRC12016-02-08 23:36:37 CSTGO:0016020 membrane (C)other:GO_REF:0000002

InterPro:IPR008104 - IEA: Inferred from Electronic Annotation

challenge
unacceptableLEGPN:Q8KMN12016-02-08 23:45:24 CSTGO:0071973 bacterial-type flagellum-dependent cell motility (P)other:GO_REF:0000002

InterPro:IPR001029 - IEA: Inferred from Electronic Annotation

challenge
unacceptableHUMAN:BIRC12016-02-09 00:04:19 CSTGO:0005515 protein binding (F)PMID:21371431

IPI: Inferred from Physical Interaction - UniProtKB:O14727

challenge
unacceptableHUMAN:BIRC12016-02-21 05:15:48 CSTGO:0070062 extracellular exosome (C)PMID:23376485ECO:0000314 direct assay evidence used in manual assertion

Figure 1. study was the identification of podocyte exosome proteins based on urine immunoabsorption using podocyte-specific CR1-immunocoated beads followed by proteomic analysis using LC MS/MS techniques.

challenge
updatedbyinstructorHUMAN:NLRC42016-02-21 23:03:38 CSTGO:0050713 negative regulation of interleukin-1 beta secretion (P)PMID:15107016ECO:0000314 direct assay evidence used in manual assertion

As shown in Figure 7(B), the NACHT domain of CLAN is sufficient to inhibit Nod2-induced IL-1β secretion, while the NB-ARC domain of Apaf-1 had no inhibitory effects when co-expressed with Nod2

challenge
updatedbyinstructorHUMAN:NLRC42016-03-24 06:35:36 CDTGO:0097202 activation of cysteine-type endopeptidase activity (P)PMID:15882992ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 6

challenge
unacceptableHUMAN:BIRC12016-04-08 04:46:08 CDTGO:1900118 negative regulation of execution phase of apoptosis (P)PMID:9564035ECO:0000250 sequence similarity evidence used in manual assertion

Figure 1. The human homolog of CIDE-A. Analysis of the nucleotide sequence of both human and mouse CIDE-A cDNAs revealed two potential in-frame translation initi- ation sites separated by 51 nucleotides. These two potential initiation codons produce a protein of 217 amino acids (designated CIDE-A*) and a protein identical to CIDE-A* but lacking its 17 most N-terminal amino acids (designated CIDE-A)

challenge
unacceptableHUMAN:BIRC12016-04-08 04:46:09 CDTGO:1900118 negative regulation of execution phase of apoptosis (P)PMID:9564035ECO:0000314 direct assay evidence used in manual assertion

Figure1. The homology of CIDE-A, CIDE-B and FSP27 with DFF45 was restricted to an N-terminal region designated here as CIDE-N domain which showed 39, 29 and 38% amino acid identity respectively with DFF45. Another region of CIDE-A and CIDE-B, termed CIDE-C domain, located in their C-termini shared amino acid homology (54 and 53% identity, respectively) with FSP27 but not with DFF45

challenge
unacceptableLEGPH:ACON2016-03-28 08:20:09 CDTGO:0003729 mRNA binding (F)PMID:8366052ECO:0000314 direct assay evidence used in manual assertion

Fig. 1. Major IPs of L. pneumophila. A crude extract of L. pneumophila grown on agar medium containing 59Fe was subjected to ND-PAGE, and the radiolabeled proteins were visualized by autoradiography (right). A crude extract of E. coli obtained under the same conditions was included as a control (left).

challenge
unacceptableLEGPN:DRRA2016-04-12 05:47:52 CDTGO:0070273 phosphatidylinositol-4-phosphate binding (F)PMID:16906144ECO:0000314 direct assay evidence used in manual assertion

Figure 1A. The protein also displayed weaker interactions with PtdIns(3,4)P2. The major PtdIns(4)P interactor was identified by mass spectrometry as the 73-kDa protein SidM, a known Icm/Dot substrate previously characterized as a Rab1 GEF.

challenge
unacceptableLEGPN:DRRA2016-04-12 05:57:04 CDTGO:0044161 host cell cytoplasmic vesicle (C)PMID:19095644ECO:0000314 direct assay evidence used in manual assertion

FIGURE 5.

C-terminal fragments of SidM localize to LCVs. A, confocal laser scanning micrographs of calnexin-GFP-labeled D. discoideum Ax3 (green), infected at an m.o.i. of 50 for 1 h with L. pneumophila labeled with a serogroup 1-specific antibody (red) and ...

challenge

acceptable:0
unacceptable:13
requires_changes:0
flagged:0

Annotations challenged by Tracy.Pham

StatusAuthor,GroupPageGO Term (Aspect)ReferenceEvidenceLinksPage history
acceptableKaylamichbrown,
Team MIA
HUMAN:WDR5GO:0051572 - negative regulation of histone H3-K4 methylation (P)PMID:26324722ECO:0000314 direct assay evidence used in manual assertionchallengeC: 1
unacceptableTracy.Pham,
Team Espresso my genes
HUMAN:BIRC1GO:0005515 - protein binding (F)PMID:21371431 challengeC: 7
acceptableKaylamichbrown,
Team MIA
HUMAN:KMT2AGO:0097692 - histone H3-K4 monomethylation (P)PMID:26324722ECO:0000314 direct assay evidence used in manual assertionchallengeC: 1
unacceptableMadeline.J.Arneson,
Team The Jackson 5
MOUSE:AB1IPGO:0033622 - integrin activation (P)PMID:18363565ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 3
unacceptableLevi.C.Schlosser,
Team Grapes of Staph
ALIFS:LUXRGO:0045893 - positive regulation of DNA-templated transcription (P)PMID:1597420ECO:0000314 direct assay evidence used in manual assertionchallengeC: 2
unacceptableMargalit.R.Balaban,
Team The Herd
STAAU:SARAGO:0098786 - biofilm matrix disassembly (P)PMID:25257373ECO:0000314 direct assay evidence used in manual assertionchallengeC: 1

0 annotations fixed by Tracy.Pham

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