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User:Dylandekalb

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Spring 2013

My Annotations

StatusPageDate/TimeGO Term (Aspect)ReferenceEvidenceNotesLinks
updatedbyinstructorHUMAN:TMIG22013-02-05 21:13:30 CSTGO:0045766 positive regulation of angiogenesis (P)PMID:22419821ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3- "IGPR-1 activity regulates angiogenesis in vivo and in vitro"

challenge
requireschangesMOUSE:SPN902013-02-19 20:29:16 CSTGO:0040008 regulation of growth (P)PMID:21763308ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4 - SPIN90 affects cytoskeleton organization by "regulating growth cone morphology"

challenge
updatedbyinstructorMOUSE:LIS12013-03-17 02:07:51 CDTGO:0061003 positive regulation of dendritic spine morphogenesis (P)PMID:23483716ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4

challenge
requireschangesMOUSE:LIS12013-03-17 02:18:50 CDTGO:0044419 interspecies interaction between organisms (P)PMID:23483716ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 6 - In the experiment it showed that Lis1+/− mutant mice exhibit asocial behaviour in a 3-chamber social interaction test. Whenever the mice had the wt gene they interacted normally but with the Lis1+/- they were much more antisocial; showing that Lis1 is involved with interspecies interaction.

challenge
updatedbyinstructorHUMAN:PLK12013-03-30 19:43:22 CDTGO:1901673 regulation of spindle assembly involved in mitosis (P)PMID:22621898ECO:0000314 direct assay evidence used in manual assertion

Figure 1 - "Plk1 activity prevents premature midzone bundles forming in metaphase"

challenge
requireschangesHUMAN:PLK12013-03-30 20:03:19 CDTGO:0001934 positive regulation of protein phosphorylation (P)PMID:22621898ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2 -" Plk1 phosphorylates PRC1"

challenge
acceptableCAEEL:G5ED582013-03-30 20:50:11 CDTGO:0061073 ciliary body morphogenesis (P)PMID:21246755ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 6 and Figure 7

challenge
acceptableCAEEL:G5ED582013-03-30 21:01:07 CDTGO:0051256 spindle midzone assembly involved in mitosis (P)PMID:15458647ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3

challenge
updatedbyinstructorMOUSE:LIS12013-03-30 22:13:01 CDTGO:0090176 microtubule cytoskeleton organization involved in establishment of planar polarity (P)PMID:23533177ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2

challenge
updatedbyinstructorMOUSE:LIS12013-03-30 22:13:01 CDTGO:0042249 establishment of planar polarity of embryonic epithelium (P)PMID:23533177ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2

challenge
updatedbyinstructorMOUSE:LIS12013-03-30 22:13:01 CDTGO:0070507 regulation of microtubule cytoskeleton organization (P)PMID:23533177ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2 & 7.

challenge
updatedbyinstructorMOUSE:LIS12013-03-30 22:13:01 CDTGO:0060117 auditory receptor cell development (P)PMID:23533177ECO:0000315 mutant phenotype evidence used in manual assertion

Fig 3C,D. "Moreover, the apical surfaces of both hair cells and supporting cells in Lis1cKO-early cochleae were misshapen. Many hair cells adopted an oblong or irregular shape and the evenly spaced ‘hourglass’ shape of supporting cell apical domains was frequently jumbled and distorted (Fig. 3B)... the Lis1cKO-early sensory epithelium was disorganized, with hair cell nuclei frequently found at varying distances from the luminal surface (Fig. 3D). And Fig 8.

challenge
updatedbyinstructorMOUSE:LIS12013-03-30 22:13:01 CDTGO:0040019 positive regulation of embryonic development (P)PMID:23533177ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2

challenge
acceptableMOUSE:LIS12013-03-30 22:13:01 CDTGO:0051130 positive regulation of cellular component organization (P)PMID:23533177ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3 - "Lis1 regulates cellular organization and junctional nectin localization in the organ of Corti"

challenge
updatedbyinstructorMOUSE:LIS12013-03-30 22:13:01 CDTGO:0090102 cochlea development (P)PMID:23533177ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3 - "Lis1 regulates cellular organization and junctional nectin localization in the organ of Corti."

challenge
acceptableMOUSE:LIS12013-03-30 22:19:54 CDTGO:0043622 cortical microtubule organization (P)PMID:21844209ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4

challenge
correctedthroughchallengesMOUSE:LIS12013-03-31 15:05:38 CDTGO:0002934 desmosome organization (P)PMID:21844209ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 6

challenge
acceptableHUMAN:TADBP2013-04-09 19:53:28 CDTGO:0071765 nuclear inner membrane organization (P)PMID:18305152ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4 - "The lack of TDP-43 led to an uneven distribution of the nuclear envelope protein emerin along the membrane, with discrete regions of either protein accumulation or lack of protein"

This proves that TDP-30 is involved in the organization of the nuclear inner membrane. With the depletion of TDP-30 the proteins that make up the inner membrane of the nucleus began to be disorganized all across the membrane.

challenge
updatedbyinstructorHUMAN:TADBP2013-04-09 20:04:12 CDTGO:0042981 regulation of apoptotic process (P)PMID:18305152ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4 - "U2OS showed an increase in TUNEL staining and nuclear fragmentation upon TDP-43 depletion"

Part B in the figure shows that with the depletion of TDP-43 nuclear fragmentation involved in apoptosis began. The samples used were also positive for enzymes consistant with programmed cell death.

challenge
acceptableHUMAN:TADBP2013-04-09 20:32:35 CDTGO:0051726 regulation of cell cycle (P)PMID:18305152ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3 - "U2OS cells showed an alteration of the cell cycle pattern after removal of TDP-43 (Fig. 3B) resulting in a 60% decrease of cells in G0/G1 accompanied by a corresponding increase in S and G2/M cells."

This proves that TDP-43 regulates the distribution of the cell cycle phases.

challenge
acceptableHUMAN:TADBP2013-04-09 20:41:30 CDTGO:0001933 negative regulation of protein phosphorylation (P)PMID:18305152ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3 - shows that when TDP-43 was silenced there was an increase in the phosphorylation of pRb and p130

challenge
acceptableHUMAN:TADBP2013-04-09 21:06:13 CDTGO:0010629 negative regulation of gene expression (P)PMID:18305152ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2 shows that depletion of TDP-43 led to the up-regulation of Cyclin-Dependent Protein Kinase 6 proving that TDP-43 negatively regulates the gene expression of CDK6.

challenge
acceptableMOUSE:CDC422013-04-12 12:18:53 CDTGO:0060501 positive regulation of epithelial cell proliferation involved in lung morphogenesis (P)PMID:23219958ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 1 -in the mice where Cdc42 was selectively deleted in respiratory epithelial cells the mice died at birth due to respiratory failure. While the control mice survived. This data then indicated that the loss of CDC42 decreased cell proliferation, impairing the growth of the fetal lung.

challenge

acceptable:9
unacceptable:0
requires_changes:3
flagged:0

Annotations challenged by Dylandekalb

StatusAuthor,GroupPageGO Term (Aspect)ReferenceEvidenceLinksPage history
unacceptableShall,
Team Robots In Disguise
RABVS:PHOSPGO:0019083 - viral transcription (P)PMID:15557246ECO:0000314 direct assay evidence used in manual assertionchallengeC: 2
updatedbyinstructorBriddle24,
Team Phatty Acidz
BPHK7:Q9MCN1GO:0004520 - endodeoxyribonuclease activity (F)PMID:22434504ECO:0000314 direct assay evidence used in manual assertionchallengeC: 3

fixed by Dylandekalb
updatedbyinstructorAthena99,
Team BTHO PubMed!
HUMAN:M4K4GO:0004111 - creatine kinase activity (F)PMID:23207904ECO:0000314 direct assay evidence used in manual assertionchallengeC: 2

fixed by Dylandekalb
requireschangesDylandekalb,
Team Higgs BROsons
MOUSE:SPN90GO:0040008 - regulation of growth (P)PMID:21763308ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 5
updatedbyinstructorDylan.browning,
Team Phatty Acidz
BPPM2:P3GO:0055036 - virion membrane (C)PMID:12134022ECO:0000314 direct assay evidence used in manual assertionchallengeC: 3

fixed by Dylandekalb
updatedbyinstructorDylan.browning,
Team Phatty Acidz
BPPM2:P4GO:0055036 - virion membrane (C)PMID:12134022ECO:0000314 direct assay evidence used in manual assertionchallengeC: 2

fixed by Dylandekalb
updatedbyinstructorDylan.browning,
Team Phatty Acidz
BPPM2:P5GO:0055036 - virion membrane (C)PMID:12134022ECO:0000314 direct assay evidence used in manual assertionchallengeC: 1

fixed by Dylandekalb
updatedbyinstructorDylan.browning,
Team Phatty Acidz
BPPM2:P6GO:0055036 - virion membrane (C)PMID:12134022ECO:0000314 direct assay evidence used in manual assertionchallengeC: 2

fixed by Dylandekalb
updatedbyinstructorDylan.browning,
Team Phatty Acidz
BPPM2:EXLYSGO:0055036 - virion membrane (C)PMID:12134022ECO:0000314 direct assay evidence used in manual assertionchallengeC: 2

fixed by Dylandekalb
updatedbyinstructorDylan.browning,
Team Phatty Acidz
BPPM2:P8GO:0055036 - virion membrane (C)PMID:12134022ECO:0000314 direct assay evidence used in manual assertionchallengeC: 2

fixed by Dylandekalb
updatedbyinstructorDylan.browning,
Team Phatty Acidz
BPPM2:P9GO:0055036 - virion membrane (C)PMID:12134022ECO:0000314 direct assay evidence used in manual assertionchallengeC: 2

fixed by Dylandekalb
updatedbyinstructorDylandekalb,
Team Higgs BROsons
MOUSE:LIS1GO:0042249 - establishment of planar polarity of embryonic epithelium (P)PMID:23533177ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 3

fixed by Djgulizia
acceptableKalabatd,
Team Hot Pockets
VIBF1:Q5DYQ2GO:0004672 - protein kinase activity (F)PMID:23171087ECO:0000314 direct assay evidence used in manual assertionchallengeC: 1
updatedbyinstructorDjgulizia,
Team Texas Aggies
DANRE:YAP1GO:0035162 - embryonic hemopoiesis (P)PMID:23494967ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 3

fixed by Sabrinamoisan
updatedbyinstructorEmeller,
Team The Z-team
DANRE:B0R0V8GO:0048069 - eye pigmentation (P)PMID:18836173ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 3

fixed by Dylandekalb
updatedbyinstructorEmeller,
Team The Z-team
DANRE:E9QDZ9GO:0040019 - positive regulation of embryonic development (P)PMID:20348034ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 1

fixed by Dylandekalb
updatedbyinstructorEmeller,
Team The Z-team
DANRE:B0R0V8GO:0061075 - positive regulation of neural retina development (P)PMID:18836173ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 4

fixed by Harigjen
updatedbyinstructorBrianna.diehl,
Team Plasma Membrane
MOUSE:PMLGO:0010761 - fibroblast migration (P)PMID:23555679ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 1

fixed by Dylandekalb
updatedbyinstructorBrianna.diehl,
Team Plasma Membrane
MOUSE:PMLGO:0048146 - positive regulation of fibroblast proliferation (P)PMID:23555679ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 2

fixed by Dylandekalb
updatedbyinstructorFinchcha,
Team We Love Nickelback
EMEND:Q400D8GO:0015758 - glucose transport (P)PMID:16418173ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 4

fixed by Bridget.bickers

13 annotations fixed by Dylandekalb

What do the icons mean in the status column?

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