wiki:AntoniasCuratedPapers

Version 344 (modified by antonialock, 9 years ago) (diff)

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https://sourceforge.net/apps/trac/pombase/wiki/CuratorTrainingPapers

Papers needing ODA conversions
Papers with WT info or no annotations


21727087Antonia
dmr1 (ppr3)mitochondrial translation phenotype, less translation of mt proteinsallele=deletion
variousadd missing phenotype alleles


21745468Antonia
lkh1, dsk1((phenotype)) slow cell growth (cell growth assay)allele=Δdsk1Δlkh1
lkh1, dsk1((phenotype)) slow cell growth (cell growth assay)allele=Δdsk1,lkh1-K391A
lkh1abnormal protein localization to cytoplasmallele=K391A, in minimal media


17369611Antonia
rtt109Delta rtt109/Histone H3 K56R double-mutant phenotypeasynthetic sensitivity to DNA damage


2900761Antonia
mat2-P...or mat2-Pc/Pi?Silenced (waiting for GeneDB to update cassette info so this can be annotated)IMP mat1-
mat3-M...or mat3-Mc/Mi?Silenced (waiting for GeneDB to update cassette info so this can be annotated)IMP mat1-
mat1-MiPhenotype: can conjugate but not undergo meiosis/sporulateallele=Mifs15(del_nt43-129)
mat1-PiPhenotype: can conjugate but not undergo meiosis/sporulateallele=Piop7(del_nt19-357)
mat1-PcPhenotype: can't conjugateallele=Pcop5(del_nt17-480)
mat1-McPhenotype: can't conjugateallele=Mcop7(del_nt19-546)
mat1-Pcsevere reduction in spore formationallele=deletion
mat1-Pcprocess: required for efficient meiosisIMP, allele=deletion
mat1-Mcprocess: required for efficient meiosisIMP, allele=deletion
mat1-Pcexpression: constitutively expressed (low levels) (rich media)IMP, allele=SP272(h+/h- meiotically competent diploid)
mat1-Pcexpression: constitutively expressed (low levels) (rich media)IMP, allele=SP720(fus1 deletion...capture as WT?)
mat1-Mcexpression: constitutively expressed (low levels) (rich media)IMP, allele=SP272(h+/h- meiotically competent diploid)
mat1-Mcexpression: constitutively expressed (low levels) (rich media)IMP, allele=SP720(fus1 deletion...capture as WT?)
mat1-Piexpression: not expressed (rich media)IMP, allele=SP272(h+/h- meiotically competent diploid)
mat1-Piexpression: not expressed (rich media)IMP, allele=SP720(fus1 deletion...capture as WT?)
mat1-Miexpression: not expressed (rich media)IMP, allele=SP272(h+/h- meiotically competent diploid)
mat1-Miexpression: not expressed (rich media)IMP, allele=SP720(fus1 deletion...capture as WT?)
All 4 are upregulated in response to nitrogen starvation. In diploid; downregulation at 6h compared to 4h, in haploid; no downregulation


2328719Antonia
map1transcription phenotype, target is not upregulated in response to nitrogen starvationallele=deletion,annotation_extension=has_regulation_target(GeneDB_Spombe:mat1-PC,(strain is H90))
mat1-Pcpositive autoregulation of transcription in response to nitrogen starvationallele=mat1-Pc-161()
map1transcription phenotype, target is not expressed in response to nitrogen starvationallele=deletion,annotation_extension=has_regulation_target(GeneDB_Spombe:mat1-Pm,(strain is H90))
mat1-Pctranscription phenotype, target is not expressed in response to nitrogen starvationallele=mat1-Pc-161(),annotation_extension=has_regulation_target(GeneDB_Spombe:mat1-Pm,(strain is H90))
mat1-Pclow constitutive expression in rich mediaallele=H90(fus1 deletion)
mat1-Pmno constitutive expression in rich mediaallele=H90(fus1 deletion)
mat1-Pmexpression in response to nitrogen starvation is dependent on the presence of CL:0002674annotation_extension=occurs_in(CL:0002675)
mat1-Pcupregulation in response to nitrogen starvation is not dependent on the presence of CL:0002674annotation_extension=occurs_in(CL:0002675)
ran1process: negative regulation of transcription from RNA polymerase II promoter during mitosis (IMP evidence code)allele=pat1-114,annotation_extension=has_regulation_target(GeneDB_Spombe:mat1-Pm, mat1-Mc and Mat1-Pc


17452352
sequence feature annotate AACCCT as a GATA transcription factor binding site, seq 5'-ATCA(C/A)AACCCTAACCCT-3'do we annotate this on the genome sequence?


18077559|Antonia
ams2 hip1slow cell growthallele=dbl mutant


20230746Antonia
ams2 remove NAS and TAS from artemis
ams2protein is unstable during G2 and M phase, partially stable during G1 and stable during S
ams2protein stability: is stable during S phase, level increased
ams2protein stability: is unstable during G2 phase, level decreased OR possibly only synthesised during S phase?
ams2protein stability: is unstable during G1/M phase, level increased OR possibly only synthesised during S phase?
ams2protein stability: is degraded by the SCF ubiquitin ligase pathway
ams2allele=overexpression(overexpression and allele=deletion(deletion)...correct way of writing this is?


18158900Antonia
double mutantsim3 mutants (allele=143(G81E),allele=205(E207K)) + overexpressed cnp1 = normal phenotype
double mutantsim3 mutants (allele=143(G81E),allele=205(E207K)) + overexpressed H4 = normal phenotype
double mutantsim3 mutants (allele=143(G81E),allele=205(E207K)) + overexpressed H3 = reduced viability (inviable ok)
sim3go biological process: protein localization to kinetochoreannotation_extension=does not happens_during G1


cnb1,ppb1dbl deletion mutant same phenotype as each single mutant (branched,elongated multi-septate cells + slow growth in presence of mgcl2worth annotating? i.e. shows may be linked perhaps? dbl mutant not more severe
cnb1,ppb1,pmp1dbl del + overexpressed = normal cell growth
cnb1,ppb1deletion,overexpr. slow growth in presence of mgcl2i.e. large amounts of catalytic domain is not functional without regulatory subunit. is this interesting to capture?
cnb1,ppb1∆C(L445->STOPdeletion,overexpressed. slow growth in presence of mgcl2constitutively active mutant is not active without regulatory subunit
cnb1,ppb1∆C(L445->STOPoverexpressed,overexpressed. phenotype growth arrest, round small bent pear-shaped cells. depolarized distr of cortical F-actin patchesnormal phenotype in presence of CHEBI:61049
cnb1,ppb1∆C(L445->STOP,prz1overexpressed,overexpressed, deleted. no growth arrest


20018864Antonia
deletion(prz1), overexpression(ncs1)slow growthcell growth assay
deletion(ncs1), overexpression(prz1)slow growthcell growth assay
deletion(prz1), overexpression(ncs1)inviable in_response_to(CHEBI:29108)IMP
deletion(ncs1), overexpression(prz1)inviable in_response_to(CHEBI:29108)IMP
deletion(ncs1),deletion(yam8)normal cell growth in_presence_of(CHEBI:33120cell growth assay
ncs1promoter region lies in -1-130 region caact esp important
ncs1promoter for upregulation in response to calcium lies in -101-130 region
ncs1promoter for basal expression lies in -1-130 region
prz1binds caact in promoter region of ncs1


19606215Antonia
cnx1dbl mutant phenotype: abnormal cell wall morphologyallele=lumenal_cnx1p(aa_del488-560),allele=C-termTM_Cnx1p_cmyc(aa_del1-415)
cnx1some confusing data regarding apoptosis. Notes in hardcopy paperallele=lumenal_cnx1p(aa_del488-560)
cnx1allele specifications may not be 100% correct


18621924Antonia
cyr1,cgs1 dbl deletionnuclear export abolishedallele=deletion,annotation_extension=localizes(GeneDBSpombe:SPBC106.10)


12557273Antonia
pik3-/pik3-spore germination abolished, abnormal spore morphologyoccurs in diploid, allele=homozygous?
pik3-/pik3+FYPO:0000579 normal spore germinationadd this with either CL:0000415 + allele=heterozygous or more specific CL if given
pik3have requested 2 process terms from GO +ve regulation of protein targeting to vacuolar membrane GO:1900485termgenie..


9191269Antonia
plc1qualifier in genedb for binding:"N-term", not clear if it binds N-term or if it binds via N-term"


map3/mam2diploid strain (CL:0000415) cannot sporulate if both receptors expressed at the same time


1563351Antonia
MatPi?expressed in response to nitrogen starvation and M factor in PcellsIDA
ste6MatPi? not expressed during N starvation and in presence of M factor in P cellsallele=deletion
ras1MatPi? not expressed during N starvation and in presence of M factor in P cellsallele=deletion
ras1MatPi? expressed during N starvation and in presence of M factor in P cells, not constitutively expressedallele=ras1val17
pat1/ras1mat1-Pm transcribedallele=pat1-114/deletion, at high temp
pat1/ste6mat1-Pm transcribedallele=pat1-114/deletion, at high temp

[BR]

8196631Antonia
mfm1/mfm2FYPO:0000584 decreased sporulationallele=deletion (both)
mfm1/mfm3FYPO:0000584 decreased sporulationallele=deletion (both)
mfm2/mfm3FYPO:0000584 decreased sporulationallele=deletion (both)
mfm1/mfm2/mfm3FYPO:0000583 sporulation abolishedallele=deletion (all 3)
mfm1/mfm2/mfm3FYPO:0000583 sporulation abolishedallele=deletion (all 3),annotation_extension=in_presence_of(M-factor - externally added),annotation_extension=occurs_in:CL0002674
mfm1/mfm2/mfm3FYPO:0000590 normal sporulationallele=deletion (all 3),annotation_extension=occurs_in:CL0002674


7975894Antonia
gpa1phenotype: increased expression of MatPi? during nitrogen starvation; constitutively active. Pheromone doesn't influence transcriptionQ244L
ras1phenotype: increased expression of Matpi during nitrogen starvation in the presence of pheromoneG17V
mat1Pm/pipromoter element mapped in paper -61- -41 (ccctctttctttgttccttat


8314086Antonia
sxa2expressed in presence of p-factor
map2expressed in H- cells
cyr1/sxa2phenotype G1 arrest in presence of P-factor in rich mediaallele=deletion
cyr1/sxa2abnormal/increased shmoo formation in presence of P-factor in rich mediaallele=deletion


18059475Antonia
fkh2/fhl1reduced zygote formationallele=deletion
fkh2/mei4reduced zygote formationallele=deletion
fkh2/fhl1/mei4reduced zygote formationallele=deletion
ste11annotate promoter proximal element FLEX1 and FLEXL1 to ste11, artemis
cig2/fkh2increased zygote formationallele=deletion,happens_during(GO:0006995 - cellular response to nitrogen starvation)
cig2/fkh2/fhl1reduced zygote formationallele=deletion,happens_during(GO:0006995 - cellular response to nitrogen starvation)
cig2/fkh2/mei4reduced zygote formationallele=deletion,happens_during(GO:0006995 - cellular response to nitrogen starvation)
cig2/fkh2/fhl1/mei4reduced zygote formationallele=deletion,happens_during(GO:0006995 - cellular response to nitrogen starvation)


10867006Antonia
ste11Unable to bind DNA region outside of the consensus motifste91


15580593Antonia
mam2negative regulation of pheromone INDEPENDENT signal transduction. TG: neg reg of GO:0038034. If I can't get this term from GO then use negative regulation of signal transduction involved in conjugation with cellular fusion + add the extension "in absence of P-factor" (occurs in M-cells)
Mam2 mutantsphenotype: constitutively active (if term goes inM cells


15659165Antonia
mam2negative regulation of pheromone INDEPENDENT signal transduction. TG: neg reg of GO:0038034. Sequesters G alpha. If I can't get this term from GO then use negative regulation of signal transduction involved in conjugation with cellular fusion + add the extension "in absence of P-factor" (occurs in M-cells)
mam2/gpa1interaction evidence is wrong, but it's the best fit....should I not curate this? I think the evidence is pretty strong


21118960
srw1another phenotype: decreased cell cycle arrest in response to pheromoneallele=mutPste9(A->C and G-> T and vice versa throughout 27 bp reb1 binding region -198 - -172
srw1decreased sporulationmutPste9
srw1 ectopically expressed | reb1 deletionnormal cell cycle arrest in response to pheromonephenotype
reb1|wee1phenotype: slow growth at high temperatureallele=deletion(reb1)/wee1-50
reb1|wee1phenotype: multiseptate (0000118)allele=deletion(reb1)/wee1-50
reb1|wee1phenotype: weeallele=deletion(reb1)/wee1-50
reb1|wee1phenotype: spheroid cellsallele=deletion(reb1)/wee1-50
reb1|wee1phenotype: DNA content increasedallele=deletion(reb1)/wee1-50
reb1|wee1phenotype: normal cell growth at high temperaturein_presence_of:CHEBI:44423, allele=deletion(reb1)/wee1-50
reb1|cdc10phenotype: slow growth at high temperatureallele=deletion(reb1)/cdc10-129
reb1|cdc10phenotype: abnormal? cell cycle arrestqualifier=at_high_temperature,allele=deletion(reb1)/cdc10-129
reb1 change cell cycle arrest in mitotic G1 phase to "increased rate of"allele=overexpression


21680738
ppe1TG: positive regulation of the mevalonate pathway, isopentenyl diphosphate biosynthetic process, positivr regulation of HMG-CoA reductase activity. GO:1900486 + have requested term +ve reg of hmg-coaIMP, regulates dephosphorylation of hmg1, annotation_extension=in presence of sugar / during cell growth


9427748
DBLCHECKmight be more appropriate with response to metal rather than salt stressgo back and look when have time
deletion ppb1|overexpression pmp1suppresses salt stress sensitivity
deletion pmp1|expression of const. active ppb1deltaC (C-term truncated)suppresses salt stress sensitivity
deletion pmp1|expression of const. active ppb1deltaC (C-term truncated)suppresses FK506 sensitivity
deletion pmp1|expression of ppb1 overexpressedsensitive to salt stress and FK506
deletion pmp1|deletion ppb1|deletion pmk1normal cell growth
deletion ppb1|deletionpmk1filamentous and multiseptateallele=deletion
deletion ppb1|overexpression pmp1normal morphology


11461899
stm1early G1 arrest in response to nitrogen starvationallele=deletion,flow cytometry
stm1|ras1absence of G1 arrest in response to nitrogen starvationallele+deletion (both) flow cytometry
stm1|ras1slow cell growth in minimal media containing ammonia nitrogen sourceallele=deletion (both) cell growth assay
stm1|gpa2normal cell growth in minimal media containing ammonia nitrogen sourceannotation_extension=condition(overexpression - stm1)allele=deletion (gpa2) cell growth assay
stm1|gpa2normal septationannotation_extension=condition(overexpression - stm1)allele=deletion (gpa2) cell growth assay


21960007
mag1structure PDB ID 3S61according to authors, does not appear to match however


1448087
pyp2552 bp 5' UTR
pyp1|pyp2inviable germinating sporeallele=deletion (both)
pyp1 cdc25cell cycle arrestannotation_extension=condition(overexpression, pyp1), allele=cdc25-22, anotation_extension=condition(at_normal_temperature)
pyp2 cdc25cell cycle arrestannotation_extension=condition(overexpression, pyp1), allele=cdc25-22, anotation_extension=condition(at_normal_temperature)
pyp1 cdc25cell cycle arrestannotation_extension=condition(overexpression, pyp1), allele=cdc25-22, anotation_extension=condition(at_high_temperature)
pyp2 cdc25cell cycle arrestannotation_extension=condition(overexpression, pyp1), allele=cdc25-22, anotation_extension=condition(at_high_temperature)
pyp1 cdc2normal cell length (cell division/cell cycle)annotation_extension=condition(overexpression, pyp1), allele=cdc2-1w
pyp2 cdc2normal cell length (cell division/cell cycle)annotation_extension=condition(overexpression, pyp1), allele=cdc2-1w
pyp1 wee1elongated cellsannotation_extension=condition(overexpression, pyp1), allele=wee1-50, anotation_extension=condition(at_normal_temperature)
pyp2 wee1elongated cellsannotation_extension=condition(overexpression, pyp1), allele=wee1-50, anotation_extension=condition(at_normal_temperature)
pyp1 wee1normal cell length (possibly could use normal cell growth or normal cell division/mitotic cell cycleannotation_extension=condition(overexpression, pyp1), allele=wee1-50, anotation_extension=condition(at_high_temperature)
pyp2 wee1normal cell length (possibly could use normal cell growth or normal cell division/mitotic cell cycleannotation_extension=condition(overexpression, pyp1), allele=wee1-50, anotation_extension=condition(at_high_temperature)
pyp1 cdc25normal cell lengthallele=deletion, pyp1), allele=cdc25-22, annotation_extension=condition(at_normal_temperature)
pyp2 cdc25elongated cellsallele=deletion, pyp1), allele=cdc25-22, annotation_extension=condition(at_normal_temperature)
pyp1 cdc25elongated cellsallele=deletion, pyp1), allele=cdc25-22, annotation_extension=condition(at_high_temperature)


16884933
gnr1decresed sensitivity to pheromone/increased maximum efficacy of responseannotation_extension=condition(overexpression)
git5normal sensitivity to pheromone/increased maximum efficacy of responseallele=deletion
git5decresed sensitivity to pheromone/increased maximum efficacy of responseannotation_extension=condition(overexpression)


11470243
fas2increased accumulation of see belowallele=H201(I1276T),annotation_extension=condition(at_high_temperature)
fas2increased accumulation of see belowallele=H265(Q4Y),annotation_extension=condition(at_high_temperature)
fas2increased accumulation of see belowallele=H518(I600N),annotation_extension=condition(at_high_temperature)
fas2decreased accumulation of see belowallele=H201(I1276T),annotation_extension=condition(at_high_temperature)
fas2decreased accumulation of see belowallele=H265(Q4Y),annotation_extension=condition(at_high_temperature)
fas2decreased accumulation of see belowallele=H518(I600N),annotation_extension=condition(at_high_temperature)

For the 3 mutants above:
increased accumulation of at high temp: N-monomethyldioleoyl-PE (N-monomethyl-C18:1-C18:1-PE) N,N-dimethyl-C18:1-C18:1-PE N,N-monomethyl-C18:1-C18:1-PE N,N-dimethyl-C16:1-C18:1-PE 1-melissoyl-oleolyl-sn-glycero-3-phosphoethanolamine (C30:0-C18:1-PE) 1-melissoyl-2-oleolyl-sn-glycero-3-phosphocholine (C30:0-C18:1-PC) CHEBI:16337 CHEBI:36711


decreased accumulation of at high temp: (NOT in mutant 518) 1-oleolyl-2-caproyl-sn-glycero-3-phosphocholine (C18:1-C10:0-PC) C18:0-C10:0-PC C18:0-C8:0-PC CHEBI:18303 CHEBI:17517


15075260
pdf1annotated inviable germinating spore but should it really be inviable spore?allele=deletion
pdf1dbl mutant normal growth in presence of sodium orthovanadateallele=S106A(S106A),allele=H478A(H478A) (2 plasmids)
pdf1dbl mutant normal growth in presence of sodium orthovanadateallele=D226A(D226A),allele=H478A(H478A) (2 plasmids)
pdf1dbl mutant normal growth in presence of 'near alkaline/high' pH (=condition?)allele=S106A(S106A),allele=H478A(H478A) (2 plasmids)
pdf1dbl mutant normal growth in presence of 'near alkaline/high' pH (=condition?)allele=D226A(D226A),allele=H478A(H478A) (2 plasmids)


9017391
gcs1 + ade6sensitive to cadmiumallele=apd1-1(unknown),allele=ade6-210(unknown)
gcs1 + ade6sensitive to cadmiumallele=deletion,allele=ade6-210(unknown))
gcs1 + ade6normal growth in presence of either ions: Ca|Na|Mgallele=apd1-1(unknown),allele=ade6-210(unknown)
gcs1 + ade6normal cell growthannotation_extension=condition(in_rich_media),allele=apd1-1(unknown),allele=ade6-210(unknown)
gcs1 + ade6resistant to MNNG (N-methyl-N'-nitro-N-nitrosoguanidine)allele=deletion,allele=ade6-210(unknown))|
gcs1 + ade6slow cell growthannotation_extension=condition(in_minimal_media),allele=apd1-1(unknown),allele=ade6-210(unknown)
gcs1 + ade6slow cell growthannotation_extension=condition(in_minimal_media),allele=deletion,allele=ade6-210(unknown)
gsh2 + ade6slow cell growthannotation_extension=condition(in_minimal_media),allele=deletion,allele=ade6-210(unknown)
hmt1 + ade6normal cell growthannotation_extension=condition(in_minimal_media),allele=deletion,allele=ade6-210(unknown)
gcs1 + ade6normal cell growthannotation_extension=condition(in_minimal_media),annotation_extension=in_presence_of(CHEBI:16856),allele=apd1-1(unknown),allele=ade6-210(unknown)
gcs1 + ade6normal cell growthannotation_extension=condition(in_minimal_media),annotation_extension=in_presence_of(CHEBI:16856),allele=deletion,allele=ade6-210(unknown)
gsh2 + ade6normal cell growthannotation_extension=condition(in_minimal_media),annotation_extension=in_presence_of(CHEBI:16856),allele=deletion,allele=ade6-210(unknown)
gcs1 + ade6sporulation abolishedallele=apd1-1(unknown),allele=ade6-210(unknown)
gcs1 + ade6normal sporulationannotation_extension=in_presence_of(CHEBI:16856),allele=apd1-1(unknown),allele=ade6-210(unknown)
ade6red pigmentation of coloniesallele=ade6-210(unknown)
hmt1 + ade6red pigmentation of coloniesallele=deletion,allele=ade6-210(unknown)
gcs1 + ade6absent/reduced red pigmentation of coloniesallele=apd1-1(unknown),allele=ade6-210(unknown)
gcs1 + ade6absent/reduced red pigmentation of coloniesallele=deletion,allele=ade6-210(unknown)
gsh2 + ade6reduced red pigmentation of coloniesallele=deletion,allele=ade6-210(unknown)
gcs1 + ade6absent/reduced red pigmentation of coloniesannotation_extension=condition(in_minimal_media),annotation_extension=in_presence_of(CHEBI:16856),allele=apd1-1(unknown),allele=ade6-210(unknown)
ade6reduced red pigmentation of coloniesannotation_extension=in_presence_of(CHEBI:46442),allele=ade6-210(unknown)


1448066
ade2/ade6dbl mutant sensitive to cadmiumallele=ade6-216(unknown),allele=ade2(deletion), growth assay
ade2/ade7dbl mutant sensitive to cadmiumallele=ade7-50(unknown),allele=ade2(deletion), growth assay
-asked for a term to describe HMW complex. Link to it
ade2/ade6dbl mutant can't accumulate HMW PC-Cd-S2- complexallele=ade6-216(unknown),allele=ade2(deletion)
ade2/ade7dbl mutant can't accumulate HMW PC-Cd-S2- complexallele=ade7-50(unknown),allele=ade2(deletion)
-asked for a term to describe HMW complex. Link to it - GO:0090424


12905027
SPAC3H1.10MOD requested: cadmium containing modified residueresidue=C173


7876244
hmt1requested phytochelatin transmembrane transporter ATPase activityIMP - replace less specific MF


19001374
hmt1is involved in the transport of PC2 but NOT PC3 or PC4 into vacuolesIMP


9016341
ade2 + ade7sensitive to cisplatinallele=deletion (ade2) allele=ade7.50
ade2 + ade6sensitive to cisplatinallele=deletion (ade2) allele=ade6.216


16928959
perhaps should use +ve reg of transcr instead of calcium response for the var agentsgo over again


19646873
gef1delta + orb6-25 normal morphology at high tempmicroscopy
rga4 overexpressed + orb6-25 normal morphology at high tempmicroscopy
Gef1 overexpression + orb6-as2stubby PCO:0000005 at normal temp
orb6-25 + rga4deltastubby at normal temp PCO:0000005


19285552
rgs1decreased transcriptional response in response to pheromoneallele=noname(overexpression),​​annotation_extension=occurs_in(CL:0002674)
gpa1can probably migrate some terms to abnormal decrease in transcription/increase, see what midori says


10438147
gaf1abolished transcription factor activityallele=GAF1N(del_1-565,​​del_686-855) Reporter gene assay
20396879
dak1/dak2 dbl mutnormal cell growthallele=dak1-delta(deletion),allele=dak2-delta(deletion),condition=PCO:0000014
dak1/dak2decreased glycerol dehydrogenase activityallele=dak1-delta(deletion),allele=dak2-delta(deletion),condition=PCO:0000072
dak1/dak2increased accumulation of DHAallele=dak1-delta(deletion),allele=dak2-delta(deletion),condition=PCO:0000072
dak1/dak2slow aerobic cell growthallele=dak1-delta(deletion),allele=ak2-delta(deletion),condition=PCO:0000072
dak1/dak2/gld1abolished glycerol dehydrogenase activityallele=dak1-delta(deletion),allele=dak2-delta(deletion),allele=gld1-delta(deletion),condition=PCO:0000072
dak1/dak2slow aerobic cell growthallele=dak1-delta(deletion),allele=ak2-delta(deletion),condition=PCO:0000073
dak1/dak2slow aerobic cell growthallele=dak1-delta(deletion),allele=ak2-delta(deletion),condition=PCO:0000076,condition=PCO:0000014
tup11/tup12increased glycerol dehydrogenase activityallele=tup11-delta(deletion),allele=tup12-delta(deletion),condition=PCO:0000014
gld1/dak1/dak2slow cell growthallele=noname(overexpression),condition=PCO:0000077


9585505
atf1 + pap1sensitive to cisplatinallele=atf1-delta(deletion), allele=pap1-delta(deletion), condition=PCO:0000012, CGA


1448080
crm1 + pap1normal growth at cold /or/ normal cell growth condition=low tempallele=crm1-809(unknown),allele=pap1-delta(deletion),PCO:0000012
crm1 + pap1sensitive to staurosporineallele=crm1-809(unknown),allele=pap1-delta(deletion),PCO:0000012
crm1 + pap1normal protein accumulationallele=crm1-809(unknown),allele=pap1-delta(deletion),annotation_extension=has_regulation_target(PomBase:SPAC3C7.14c)


7642144
rpn11resistant to actinomycin Dqualifier=NOT,allele=noname(overexpression),​condition=PCO:0000012
rpn11| pmd1resistant to K-252aallele=pmd1-delta(deletion),allele=noname(overexpression),​condition=PCO:0000012
rpn11| pmd1resistant to staurosporineallele=pmd1-delta(deletion),allele=noname(overexpression),​condition=PCO:0000012
rpn11| pmd1resistant to vanadateallele=pmd1-delta(deletion),allele=noname(overexpression),​condition=PCO:0000012
rpn11| pmd1resistant to cycloheximideallele=pmd1-delta(deletion),allele=noname(overexpression),​condition=PCO:0000012
rpn11| pmd1resistant to actinomycin Dqualifier=NOT, allele=pmd1-delta(deletion),allele=noname(overexpression),​condition=PCO:0000012
rpn11| pmd1resistant to thiabendazolequalifier=NOT, allele=pmd1-delta(deletion),allele=noname(overexpression),​condition=PCO:0000012


21324894
cia1 | mts2increased protein level allele=asf1-30(F24S,​G120S,​D173G), allele=mts2-1(unknown), condition=PCO:0000004,annotation_extension=has_regulation/downstream_target(PomBase:SPCC663.05c), western
cia1 | mts2slow growth allele=asf1-30(F24S,​G120S,​D173G), allele=mts2-1(unknown), condition=PCO:0000005, condition=PCO:0000012, CGA
cia1 | mts2slow growth at high temp allele=asf1-30(F24S,​G120S,​D173G), allele=mts2-1(unknown), condition=PCO:0000012, CGA
cia1 | ubc4slow growth allele=asf1-30(F24S,​G120S,​D173G), allele=ubc4ts(P61S), condition=PCO:0000005, condition=PCO:0000012, CGA
cia1 | ubc4slow growth at high temp allele=asf1-30(F24S,​G120S,​D173G), allele=ubc4ts(P61S), condition=PCO:0000012, CGA
cia1 + mts2FYPO:0000783, cia1 normally found in nucleus, but here found in cytoplasmallele=asf1-30(F24S,​G120S,​D173G),allele=mts2-1(unknown), condition=PCO:0000004, specify cia in annex? has_target cia1?
cia1 | ubc4increased protein level allele=asf1-30(F24S,​G120S,​D173G), allele=ubc4ts(P61S), condition=PCO:0000004,annotation_extension=has_regulation/downstream_target(PomBase:SPCC663.05c), western
cia1 | SPBC2A(.04Cincreased protein level allele=asf1-30(F24S,​G120S,​D173G), allele=san1-delta(deletion), condition=PCO:0000004,annotation_extension=has_regulation/downstream_target(PomBase:SPCC663.05c), western
cia1 | hrd1 slow growth at normal temp allele=asf1-30(F24S,​G120S,​D173G),allele=hrd1-delta(deletion), condition=PCO:0000012
cia1 | hrd1 slow growth at high temp allele=asf1-30(F24S,​G120S,​D173G),allele=hrd1-delta(deletion), condition=PCO:0000012
cia1 | doa10 slow growth at normal temp allele=asf1-30(F24S,​G120S,​D173G),allele=doa10-delta(deletion), condition=PCO:0000012
cia1 | doa10 slow growth at high temp allele=asf1-30(F24S,​G120S,​D173G),allele=doa10-delta(deletion), condition=PCO:0000012
cia1 | san1 normal cell growth allele=asf1-30(F24S,​G120S,​D173G),allele=san1-delta(deletion), condition=PCO:0000012, condition=PCO:0000006
cia1 | san1 slow growth at high temp allele=asf1-30(F24S,​G120S,​D173G),allele=san1-delta(deletion), condition=PCO:0000012
cia1 | ubr1 normal cell growth allele=asf1-30(F24S,​G120S,​D173G),allele=ubr1-delta(deletion), condition=PCO:0000012, condition=PCO:0000006
cia1 | ubr1 slow growth at high temp allele=asf1-30(F24S,​G120S,​D173G),allele=ubr1-delta(deletion), condition=PCO:0000012
cia1 | ubr11 normal cell growth allele=asf1-30(F24S,​G120S,​D173G),allele=ubr11-delta(deletion), condition=PCO:0000012, condition=PCO:0000006
cia1 | ubr11 slow growth at high temp allele=asf1-30(F24S,​G120S,​D173G),allele=ubr11-delta(deletion), condition=PCO:0000012
SPBC2A9.04c | mis12 normal cell growth at high tempallele=san1-delta(deletion),allele=mis12-537(unknown), condition=PCO:0000012, condition=PCO:0000012
SPBC2A9.04c | pim1 normal cell growth at high tempallele=san1-delta(deletion),allele=pim1-46(unknown), condition=PCO:0000012, condition=PCO:0000012
SPBC2A9.04c | cnp1 normal cell growth at high tempallele=san1-delta(deletion),allele=cnp1-1(unknown), condition=PCO:0000012, condition=PCO:0000012


9191271
mfm1dbl check annotations, allele descr for phenotype annotationhas_regulation_target(PomBase:SPMTR.02))


11470243http://oliver0.sysbiol.cam.ac.uk/pombe/curs/d6acad95cdc1056
fas2palmitic acid biosynthetic processIMP


7772832http://oliver0.sysbiol.cam.ac.uk/pombe/curs/67a45bb75e85f945
pik3abnormal/decreased accumulation of PI-3-P ADD EVIDENCEevidence=chromatography, allele=TM1B(unknown)
pik3abnormal/increased accumulation of PI-4-P ADD EVIDENCEevidence=chromatography, allele=TM1B(unknown)


19366728
sty1process: morphological changes during G1 to G0 transitionIMP
wis1process: morphological changes during G1 to G0 transitionIMP
GO:1900527 Label: regulation of nucleus size involved in G1 to G0 transition
GO:1900528 Label: regulation of cell shape involved in G1 to G0 transition
end4normal nuclear / medial cortex morphology during nitrogen starvation allele=end4-507(G73D), condition=PCO:0000098, microscopy
end4abnormal nuclear / medial cortex morphology during nitrogen starvation allele=end4-507(G73D), condition=PCO:0000097, microscopy


7893167http://oliver0.sysbiol.cam.ac.uk/pombe/curs/b2ba58a5b035015f
gpt2resistant to tunicamycinallele=noname(overexpression), condition=PCO:0000103, condition=PCO:0000014, condition=PCO:0000005|allele=noname(overexpression), condition=PCO:0000104, condition=PCO:0000014, condition=PCO:0000005


8321236http://oliver0.sysbiol.cam.ac.uk/pombe/curs/169dc6a662075c56/gene/1
frp1abolished ferric iron reductase activity, not req yetallele=G-100(W314->opal)
waiting reply from val on paper


7565608http://oliver0.sysbiol.cam.ac.uk/pombe/curs/07cc7abfbaa6d1b0
rds1cellular response to adenine starvation, term reqIMP - IEP is more appropriate perhaps..
ade genesfor FYPO:0000825 annotation add 'during cellular response to adenine starvation' term reqdon't add for cyr1
rds1 /controlled_curation="term=gene expression, mRNA level; annotation_extension=during(cellular response to adenine starvation); qualifier=increased; evidence=ECO:0000106; db_xref=7565608; date=20120504"


9135147
pmk1GO:1900529 Label: regulation of cell shape involved in cellular response to glucose starvationIMP
pmk1GO:1900530 Label: regulation of cell shape involved in cellular response to salt stressIMP
pmk1GO:1900531 Label: regulation of cell shape involved in cellular response to heatIMP
pmk1increased cell wall thicknessallele=pmk1delta(deletion), condition=PCO:0000014, condition=PCO:0000102
pmk1delaminate cell wall allele=pmk1delta(deletion), condition=PCO:0000014, condition=PCO:0000102
pmk1normal arrest in g1 during nitrogen starvation see https://sourceforge.net/tracker/index.php?func=detail&aid=3524737&group_id=65526&atid=2096431allele=pmk1delta(deletion)
pmk1normal arrest in g2 during glucose starvation see https://sourceforge.net/tracker/index.php?func=detail&aid=3524737&group_id=65526&atid=2096431allele=pmk1delta(deletion)


sessions with negated phenotypes
http://oliver0.sysbiol.cam.ac.uk/pombe/curs/0d6e46fca4be8cc5


missing annotations
http://oliver0.sysbiol.cam.ac.uk/pombe/curs/219e86a87274fe5f/ro/


HTP gene expression data
15004206for future ref
19366728table 3 + gene expression omnibus GEOhashGSE14319for future ref


misc to add
positive reg of protein targeting to vacuolar membrane