wiki:AntoniasCuratedPapers

Version 613 (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
AntoniasDoubleMutants


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


20018864Antonia
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
cnx1some confusing data regarding apoptosis. Notes in hardcopy paperallele=lumenal_cnx1p(aa_del488-560)
cnx1allele specifications may not be 100% correct


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


7975894Antonia
byr1decreased protein level during nitrogen starvationallele=sterile-byr1, assayed_using(PomBase:SPMTR.02), reporter gene assay
ste2decreased protein level during nitrogen starvationallele=sterile-ste2, assayed_using(PomBase:SPMTR.02), reporter gene assay
ste4decreased protein level during nitrogen starvationallele=sterile-ste4, assayed_using(PomBase:SPMTR.02), reporter gene assay
ras1decreased protein level during nitrogen starvationallele=sterile-ras1, assayed_using(PomBase:SPMTR.02), reporter gene assay
ste6decreased protein level during nitrogen starvationallele=sterile-ste6, assayed_using(PomBase:SPMTR.02), reporter gene assay
ste7decreased protein level during nitrogen starvationallele=sterile-ste7, assayed_using(PomBase:SPMTR.02), reporter gene assay
byr2decreased protein level during nitrogen starvationallele=sterile-byr2, assayed_using(PomBase:SPMTR.02), reporter gene assay
ste9decreased protein level during nitrogen starvationallele=sterile-ste9, assayed_using(PomBase:SPMTR.02), reporter gene assay
gpa1decreased protein level during nitrogen starvationallele=sterile-gpa1, assayed_using(PomBase:SPMTR.02), reporter gene assay
spk1decreased protein level during nitrogen starvationallele=sterile-spk1, assayed_using(PomBase:SPMTR.02), reporter gene assay


8314086Antonia
sxa2expressed in presence of p-factor
map2expressed in H- cells


18059475Antonia
ste11annotate promoter proximal element FLEX1 and FLEXL1 to ste11, artemis


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


1448087
pyp2552 bp 5' UTR


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


1448066
-asked for a term to describe HMW complex. Link to it - GO:0090424


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


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


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


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


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
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"


9135147http://oliver0.sysbiol.cam.ac.uk/pombe/curs/67ba83cbaba024a7
pmk1 | spk1sterileallele=pmk1delta(deletion), allele=spk1delta(deletion)
pmk1 | spk1abnormal morphologyallele=pmk1delta(deletion), allele=spk1delta(deletion), condition=PCO:0000014, condition=PCO:0000102
pmk1 | spk1normal response to salt stressallele=pmk1delta(deletion), allele=spk1delta(deletion), condition=PCO:0000014, condition=PCO:0000102
wis1 | pmk1 multiseptate microscopy, allele=wi1delta(deletion), allele=pmk1delta(deletion), condition=PCO:0000014, condition=PCO:0000102


1644306http://oliver0.sysbiol.cam.ac.uk/pombe/curs/1b8ed217ce984ab5
tnr3/thi1change FYPO terms so that extension is in term
tnr1increased RNA level, northern evidence, need to find what this gene is...allele=tnr1-18(unknown), annotation_extension=assayed_using(SPBC26H8.01),​ condition=PCO:0000014,​ annotation_extension=happens_during(GO:0071301)
tnr1cellular response to vitamin b1 - which gene is this?? IMP
thi2gene expression: expressed in response to thiamine starvation. repressed in response to thiamine....
/controlled_curation="term=gene expression, mRNA level; annotation_extension=during(GO:0036225); qualifier=increased; evidence=ECO:0000106; db_xref=1644306; date=20120509"
/controlled_curation="term=gene expression, mRNA level; annotation_extension=during(GO:0071301); qualifier=absent; evidence=ECO:0000106; db_xref=1644306; date=20120509"
/controlled_curation="term=gene expression, mRNA level; annotation_extension=in_response_to(CHEBI:16892); qualifier=increased; evidence=ECO:0000106; db_xref=1644306; date=20120509"
/controlled_curation="term=gene expression, mRNA level; annotation_extension=in_response_to(CHEBI:17957); qualifier=decreased; evidence=ECO:0000106; db_xref=1644306; date=20120509"


8675019http://oliver0.sysbiol.cam.ac.uk/pombe/curs/4b0970d0e5484486/
tnr1which gene is this? FYPO:0000825 northern evallele=tnr1-18(unknown), condition=PCO:0000014, annotation_extension=assayed_using(SPAC17A2.01)


2249257http://oliver0.sysbiol.cam.ac.uk/pombe/curs/40213c281e540075

/controlled_curation="term=gene expression, mRNA level; annotation_extension=during(cellular response to thiamine starvation); qualifier=increased; evidence=ECO:0000106; db_xref=2249257; date=20120510"


2878925http://curation.pombase.org/pombe/curs/462720c354cd7b67/
pma mutantnormal ATPase activity unknown, in vitro
pma mutantNormal enzyme in vitro response to Dio-9 unknown, in vitro
pma mutantNormal enzyme in vitro response to DCCD N,N'-dicyclohexylcarbodiimideunknown, in vitro
pma mutantNormal enzyme in vitro response to Miconazoleunknown, in vitro
pma mutantNormal enzyme in vitro response to DES diethylstilbestrolunknown, in vitro
pma mutantNormal enzyme in vitro response to Suloctidil unknown, in vitro
pma mutantNormal enzyme in vitro response to p-hydroxymercuribenzoate unknown, in vitro
pma mutantNormal enzyme in vitro response to protamine sulfate unknown, in vitro
pma mutantNormal enzyme in vitro response to decamethylene diguanidineunknown, in vitro
pma mutant decreased cellular pH CGA - should this be decreased medium pH?YE liquid


17384198http://curation.pombase.org/pombe/curs/42b53662d27d7951
other assaysRNA protection assay or transcript quantification assay


9813085http://curation.pombase.org/pombe/curs/b91556d0478e3dea
alg6lower cell density in stationary phasedeletion, glucose minimal medium, liquid, normal temp


7898433http://curation.pombase.org/pombe/curs/5964257cca6cfa69
uvi15gene expression, change in response to L-canavanine to during the above once the term is inartemis


22017871http://curation.pombase.org/pombe/curs/4d5512a5dc8ea4bc

Phenotypes:

ubr1increased protein level during cellular response to hypoxiaallele=deletion,assayed_using(sre1 precursor)
ubr1increased protein level during cellular response to hypoxiaallele=deletion,assayed_using(PR:000028992)
ubr1increased protein level during cellular response to oxygenallele=deletion,assayed_using(PR:000028992)
rhp6increased protein level during cellular response to hypoxiaallele=deletion,assayed_using(PR:000028992)
rhp6normal protein level during cellular response to hypoxiaallele=deletion,assayed_using(sre1 precursor)
rhp6increased protein level during cellular response to oxygenallele=deletion,assayed_using(PR:000028992)
sre1 | ubr11 normal protein level during cellular response to hypoxiaallele=sre1-N(recheck, cellpress down atm), allele=ubr11-delta,assayed_using(PR:000028992)
sre1 | ubr11 normal protein level during cellular response to oxygenallele=sre1-N(recheck, cellpress down atm), allele=ubr11-delta,assayed_using(PR:000028992)
sre1 normal protein level during cellular response to hypoxiaallele=sre1-N(recheck, cellpress down atm),assayed_using(PR:000028992)
sre1 | ofd1increased protein level during cellular response to oxygenallele=ofd1delta, allele=sre1-N, assayed_using(PR:000028992)
sre1 | ofd1increased protein level during cellular response to hypoxiaallele=ofd1delta, allele=sre1-N, assayed_using(PR:000028992)
ubr1 | ofd1increased protein level during cellular response to oxygenallele=ofd1delta, allele=ubr1delta, assayed_using(PR:000028992)
ubr1 | ofd1increased protein level during cellular response to hypoxiaallele=ofd1delta, allele=ubr1delta, assayed_using(PR:000028992)
ubr1 | nro1increased protein level during cellular response to oxygenallele=nro1delta, allele=ubr1delta, assayed_using(PR:000028992)
ubr1 | nro1increased protein level during cellular response to hypoxiaallele=nro1delta, allele=ubr1delta, assayed_using(PR:000028992)
ofd1increased protein level during cellular response to oxygenallele=ofd1delta, assayed_using(PomBase:SPAC222.11), NORTHERN
nro1decreased RNA level during cellular response to hypoxiaallele=deleteion, assayed using(PomBase:SPAC222.11), northern
nro1normal RNA level during cellular response to hypoxiaallele=deleteion, assayed using(PomBase:SPBC19C2.09), northern
ofd1decreased protein binding during cellular response to hypoxiaallele=H142A, assayed_using(PomBase:SPCC4B3.07)
ofd1overexpressed ofd1 C terminal domain -> decreased binding of sre1 to hem13 (chip assay)

Processes:

general:have requested cellular response to oxygen use TG after I get this
ofd1negative regulation of sterol regulatory element DNA bindingannotation_extension=requires_sequence_feature(Pfam:13640) | annotation_extension=happens_during(cellular response to oxygen
nro1+ve reg of cellular response to hypoxiaIDA


17905925http://curation.pombase.org/pombe/curs/61b0bcb9898f64f7
pps1normal cell growthallele=deletion, standard temperature, agar plates, standard glucose rich medium, ethanolamine added
pps1-GFPdecreased growthallele=c-term gfp fusion, yes, normal temp, plates
pps1-GFPnormal growthallele=c-term gfp fusion, yes, ethanolamine added, normal temp, plates
GFP-pps1normal growthn-term gfp fusion, MM, plates, normal temp


21811607http://curation.pombase.org/pombe/curs/db6b03f9221f5e4a/
cam1normal immediate intracellular calcium spike following extracellular calcium stimulusenzyme assay, allele=cam1-1(unknown)
ncs1normal immidiate intracellular calcium spike following extracellular calcium stimulusenzyme assay, allele=deletion
spcc633.14c(trp663)normal intracellular calcium spike following extracellular calcium stimulusenzyme assay, overexpression
spcc1322.03(trp1322)increased intracellular calcium spike following extracellular calcium stimulusenzyme assay, overexpression
1322.03increased transcription from CDRE promoter during vegetative growth, increased basal transcription from CDRE (SO:0001865) promoter/increased transcription from CRDE promoter in the absence of calciumreporter gene assay, overexpression
1322.03absent down regulation/attenuation of transcription from CDRE promoter in response to calciumreporter gene assay, overexpression, calcium added
1322.03C-terminal GFP tag renders protein non-functionalenzyme assay?
pkd2positive regulation (need to TG) of Golgi calcium ion exportIMP
pmc1golgi calcium ion exportIMP
pmc1GO:0051209 if it is extended to include golgiIMP
pkd2GO:0051209 if is extended to include the golgiIMP
pkd2increased prolonged cellular calcium level overexpression, enzyme assay
trp1322normal prolonged cellular calcium level overexpression, enzyme assay
trp1322 | pmr1normal prolonged cellular calcium level 1322overexpression, pmr1delta, enzyme assay
pkd2 | pmr1normal prolonged cellular calcium level pkd2overexpression, pmr1delta, enzyme assay
yam8increased cellular calcium level in response to sodium ionsdeletion, enzyme assay
cch1increased cellular calcium level in response to sodium ionsdeletion, enzyme assay
yam8 | cch1increased cellular calcium level in response to sodium ionsdoubledeletion, enzyme assay
ppb1increased cellular calcium level in response to sodium ionsdeletion, enzyme assay
yam8resistant to fk506deletion, Na ions added, enzyme assay data
cch1resistant to fk506deletion, Na ions added, enzyme assay data
ppb1resistant to fk506deletion, Na ions added, enzyme assay data
pmk1decreased cellular calcium leveldeletion, enzyme assay, sodium ions and FK506 added
mkh1decreased cellular calcium leveldeletion, enzyme assay, sodium ions and FK506 added
pek1decreased cellular calcium leveldeletion, enzyme assay, sodium ions and FK506 added
ppb1normal cellular response to fk506deletion, cga, plates, normal temp
pmk1normal cellular response to fk506deletion, cga, plates, normal temp
trp1322normal cellular response to fk506deletion, cga, plates, normal temp
ppb1normal cellular response to fk506 and sorbitoldeletion, cga, plates, normal temp
pmk1normal cellular response to fk506 and sorbitoldeletion, cga, plates, normal temp
trp1322normal cellular response to fk506 and sorbitoldeletion, cga, plates, normal temp
ppb1normal cellular response to fk506 and salt stressdeletion, cga, plates, normal temp
pmk1resistant to fk506 and salt stressdeletion, cga, plates, normal temp
trp1322resistant to fk506 and salt stressdeletion, cga, plates, normal temp
pek1increased calcium level in response to salt stresspek1DD(unknown), overexpression, enzyme assay
pmk1normal nuclear morphologymicroscopy, deletin, FK506 and Mg ions added
pkd2increased cellular calcium level during salt stressoverexpression
1322normal cellular calcium level during salt stressoverexpression
1322decreased cellular calcium level during salt stress tacrolimus added
pkd2normal cellular calcium level during salt stress
1322increased transcription from CRDE promoter (SO:0001865) in the absence of calcium / increased basal transcription from CDREpromoter overexpression
1322GO:1901198 Label: positive regulation of calcium ion transport into cytosol involved in cellular response to calcium ionIMP
1322GO:1901200 Label: negative regulation of calcium ion transport into cytosol involved in cellular response to salt stressIMP
1322increased transcription from CDRE promoter during vegetative growth/increased transcription from CDRE promoter (SO:0001865) in the absence of salt stress / increased basal transcription from CDREpromoter overexpression, reporter gene assay
1322decreased celluilar calcium level during salt stressoverexpression, reporter gene assay
1322decreased calcium level during salt stress1322delta
1322decreased calcium level during salt stress1322delta, tacrolimus added


9729425http://curation.pombase.org/pombe/curs/17c0501f20dc6e13/
tps1absent increase in trehalase activity following nutrient stimulusdeletion, enzyme assay, rich glycerol medium, exponential phase, glucose and asparagine added
tps1absent increase in trehalase activity following nutrient stimulusdeletion, enzyme assay, low glucose rich medium, stationary phase, glucose and asparagine added
tps1absent increase in trehalase activity in response to high temperaturedeletion, enzyme assay, high temp,
tps1normal increase in trehalase activity in response to salt stressdeletion, enzyme assay, NaCl? added
tps1normal rna level in response to heatdeletion, annotation_extension=assayed_using(PomBase:SPBC660.07)
tps1normal rna level in response to salt stressdeletion, NaCl? added, annotation_extension=assayed_using(PomBase:SPBC660.07)


10867006ste11 promoter


6948995http://curation.pombase.org/pombe/curs/ce34ef6bbf1bf95d
matpitrehalose biosynthetic process involved in ascospore formationIMP


15920625http://curation.pombase.org/pombe/curs/75dadd0ae174dd58/
ggt2increased gamma-glutamyl transpeptidase activityallele=overexpression
ggt2increased cellular GSH levelallele=overexpression
ggt2resistant to mercuryallele=overexpression, MM, agar
ggt2resistant to aluminium/aluminumallele=overexpression, MM, agar
ggt2resistant to diethylmaleateallele=overexpression, MM, agar


11318103http://curation.pombase.org/pombe/curs/f6bbb1302b15a4e8/
varin curs NTRs
vardextrose YE condition


|16262791
|http://curation.pombase.org/pombe/curs/722def8c5161e3f1/
varNTRs in session
rhb1normal GTP bindingS21G, enzyme assay data
rhb1normal GTP bindingK120R, enzyme assay data
rhb1normal GTP bindingN153T, enzyme assay data
rhb1decreased GTP bindingV17G, enzyme assay data
rhb1decreased GDP bindingV17G, enzyme assay data
rhb1decreased GDP bindingS21G, enzyme assay data
rhb1decreased GDP bindingK120R, enzyme assay data
rhb1decreased GDP bindingN153T, enzyme assay data
rhb1decreased GTPase activityS21G, enzyme assay data
rhb1decreased GTPase activityV17G, enzyme assay data
rhb1normal GTPase activityN153T, enzyme assay data
rhb1normal GTPase activityK120R, enzyme assay data
rhb1increased protein bindingK120R, annotation_extension=assayed_using(PomBase:SPBC216.07c), copurification and cosedimentation( western blot)
rhb1increased protein bindingV17G, annotation_extension=assayed_using(PomBase:SPBC216.07c), co-sedimentation(western blot)
rhb1increased protein bindingN153T, annotation_extension=assayed_using(PomBase:SPBC216.07c), co-sedimentation(western blot)
tsc1increased protein bindingN153T, annotation_extension=assayed_using(PomBase:SPBC428.16c|SPBC216.07c), co-sedimentation(western blot)


18637840http://curation.pombase.org/pombe/curs/b719dc2cd003f460
zrt1high affinity zinc ion import, NTR, replace 2 bpsIMP
zrt1sensitive to zinc starvationdeletion, liquid culture, standard temp,
zrt1sensitive to zinc starvationdeletion, agar plates, standard temp, EMM
zrt1reduced cellular zinc levelliquid scintillation counter/AAS/substance quantification, deletion, EMM, zinc added
zhf1reduced cellular zinc levelliquid scintillation counter/AAS/substance quantification, deletion, EMM, zinc added
zrt1 | zhf1reduced cellular zinc levelliquid scintillation counter/AAS/substance quantification, both deleted, EMM, zinc added
spcc126.09increased cellular zinc leveldeletion,limited zinc added, emm
zip2normal cellular zinc levelspectroscopy, EMM, zinc added, deletion
zip3normal cellular zinc levelspectroscopy, EMM, zinc added, deletion
zip2normal cellular copper levelspectroscopy, EMM, zinc added, deletion
zip3normal cellular copper levelspectroscopy, EMM, zinc added, deletion
zrt1normal cellular copper levelspectroscopy, EMM, zinc added, deletion
zhf1normal cellular copper levelspectroscopy, EMM, zinc added, deletion
zip2normal cellular iron levelspectroscopy, EMM, zinc added, deletion
zip3normal cellular iron levelspectroscopy, EMM, zinc added, deletion
zrt1normal cellular iron levelspectroscopy, EMM, zinc added, deletion
zhf1normal cellular iron levelspectroscopy, EMM, zinc added, deletion
zip2normal cellular potassium levelspectroscopy, EMM, zinc added, deletion
zip3normal cellular potassium levelspectroscopy, EMM, zinc added, deletion
zrt1normal cellular potassium levelspectroscopy, EMM, zinc added, deletion
zhf1normal cellular potassium levelspectroscopy, EMM, zinc added, deletion
zip2normal cellular magnesium levelspectroscopy, EMM, zinc added, deletion
zip3normal cellular magnesium levelspectroscopy, EMM, zinc added, deletion
zrt1normal cellular magnesium levelspectroscopy, EMM, zinc added, deletion
zhf1normal cellular magnesium levelspectroscopy, EMM, zinc added, deletion
zip2normal cellular manganese levelspectroscopy, EMM, zinc added, deletion
zip3normal cellular manganese levelspectroscopy, EMM, zinc added, deletion
zrt1normal cellular manganese levelspectroscopy, EMM, zinc added, deletion
zhf1normal cellular manganese levelspectroscopy, EMM, zinc added, deletion
zip2normal cellular molybdenum levelspectroscopy, zinc added, EMM, deletion
zip3normal cellular molybdenum levelspectroscopy, EMM, zinc added, deletion
zrt1normal cellular molybdenum levelspectroscopy, EMM, zinc added, deletion
zhf1normal cellular molybdenum levelspectroscopy, EMM, zinc added, deletion
zip2normal cellular nickel levelspectroscopy, EMM, zinc added, deletion
zip3normal cellular nickel levelspectroscopy, EMM, zinc added, deletion
zrt1normal cellular nickel levelspectroscopy, EMM, zinc added, deletion
zhf1normal cellular nickel levelspectroscopy, EMM, zinc added, deletion
zip2normal cellular phosphorus levelspectroscopy, EMM, zinc added, deletion
zip3normal cellular phosphorus levelspectroscopy, EMM, zinc added, deletion
zrt1normal cellular phosphorus levelspectroscopy, EMM, zinc added, deletion
zhf1normal cellular phosphorus levelspectroscopy, EMM, zinc added, deletion
zip2normal cellular sulfur levelspectroscopy, EMM, zinc added, deletion
zip3normal cellular sulfur levelspectroscopy, EMM, zinc added, deletion
zrt1normal cellular sulfur levelspectroscopy, EMM, zinc added, deletion
zhf1normal cellular sulfur levelspectroscopy, EMM, zinc added, deletion
zhf1decreased RNA level during cellular response to zinc iondeletion, annotation_extension=assayed_using(PomBase:SPBC16D10.06) RT-PCR
zhf1increased RNA level during cellular response to zinc ion starvationdeletion, annotation_extension=assayed_using(PomBase:SPBC16D10.06) RT-PCR
zhf1increased protein level during cellular response to zinc starvationdeletion, annotation_extension=assayed_using(PomBase:SPBC16D10.06) western
zhf1abnormal protein level during cellular response to zincdeletion, annotation_extension=assayed_using(PomBase:SPBC16D10.06) western
spcc126.09increased RNA leveldeletion, emm, limited zinc, annotation_extension=assayed_using(PomBase:SPBC16D10.06)


18662319http://curation.pombase.org/pombe/curs/6dc480135e507182/
suggestion in sess
pgt1 /controlled_curation="term=gene expression, mRNA level; annotation_extension=during(cellular response to cysteine); qualifier=decreased; evidence=ECO:0000049; db_xref=18662319; date=20120917"
20699567http://curation.pombase.org/pombe/curs/d66b2d02532cfbd6/
avt5decreased cellular lithium leveldeletion, particle count assay, li ions added
avt5lithium ion importIMP
21307582http://curation.pombase.org/pombe/curs/a8d91f7b56db5cd1LEVELS
atg22decreased vacuolar amino acid level (aspartate, glutamate, ornithine, lysine, histidine, arginine)deletion, yes
atg22decreased cytosolic amino acid level (aspartate, threonine, glutamate, valine, isoleucine, ornithine, lysine, histidine, arginine)deletion, yes
atg22normal vacuolar amino acid level (threonine, serine, asparagine, glutamine, glycine, alanine, valine, methionine, isoleucine, leucine, tyrosine, phenylalaine, tryptophan)deletion, yes
atg22normal cytosolic amino acid level (serine, glutamine, glycine, alanine, methionine, leucine, tyrosine, phenylalanine, tryptophan)deletion, yes
atg22aspartate homeostasisIMP
atg22threonine homeostasisIMP
atg22glutamate homeostasisIMP
atg22ornithine homeostasisIMP
atg22lysine homeostasisIMP
atg22histidine homeostasisIMP
atg22arginine homeostasisIMP
atg22L-arginine transmembrane transportIMP


20944394curation.pombase.org/pombe/curs/55b630d3d775188d
vba2decreased lysine import during vegetative growthdeletion, YES, substrate quant
vba2decreased histidine import during vegetative growthdeletion, YES, substrate quant
vba2decreased arginine import during vegetative growthdeletion, YES, substrate quant
vba2decreased valine import during vegetative growthdeletion, YES, substrate quant
vba2decreased asparagine import during vegetative growthdeletion, YES, substrate quant
vba2histidine importIMP
vba2arginine importIMP
vba2valine importIMP
vba2asparagine importIMP
vba2L-arginine transmembrane transporter activityIMP


20388511http://curation.pombase.org/pombe/curs/c49c381346278c08IMPORT
avt5L-arginine transportIMP
avt5L-histidine importIMP
avt5L-serine importIMP
avt5L-lysine importIMP
avt5glutamate import during cellular response to nitrogen starvationIMP
fnx1lysine import during cellular response to nitrogen starvationIMP
avt5decreased histidine importdeletion, substance quantification
avt5decreased glutamate importdeletion, substance quantification
avt5decreased tyrosine importdeletion, substance quantification
avt5decreased arginine importdeletion, substance quantification
avt5decreased lysine importdeletion, substance quantification
avt5decreased serine importdeletion, substance quantification
avt5normal glutamine importdeletion, substance quantification
avt5normal asparagine importdeletion, substance quantification
avt5normal isoleucine importdeletion, substance quantification
avt5normal valine importdeletion, substance quantification


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


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