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@manulera @github-actions
manulera authored and github-actions[bot] committed Jul 23, 2023
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Showing 7 changed files with 12,410 additions and 12,403 deletions.
85 changes: 44 additions & 41 deletions data/alleles.tsv
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24,593 changes: 12,299 additions & 12,294 deletions data/alleles_pre_format_canto.tsv
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123 changes: 63 additions & 60 deletions data/alleles_pre_format_phaf.tsv
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1 change: 1 addition & 0 deletions results/allele_cannot_fix_other_errors.tsv
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Expand Up @@ -203,6 +203,7 @@ SPNCRNA.1343 nc-1343-Adelta ???? pattern_error ????
SPNCRNA.1343 nc-1343-Bdelta ???? pattern_error ????
SPNCRNA.1710 adh1AS-deltapromoter III:1593402-1593818 pattern_error III:
SPNCRNA.1712 nc-pho1-DSR DSR domain mutated pattern_error DSR domain mutated
SPNCRNA.1712 nc-pho1-dual-PAS-mut ATTTTT-342-CTCGAG,AATAAA-568-GGCGGG invalid_error Peptide sequence of SPNCRNA.1712 missing (perhaps multiple transcripts)
SPNCRNA.214 ter1-m1 AATTTGG_813-820_TTAAACC pattern_error AATTTGG_,_TTAAACC
SPNCRNA.214 ter1-m1,m3 AATTTGG_813-820_TTAAACC,TTT_823-825_CCC pattern_error AATTTGG_,_TTAAACC,TTT_,_CCC
SPNCRNA.214 ter1-m1,m4 AATTTGG_813-820_TTAAACC,TTT_822-824_CTC,TGT_838-840_CTC,ACA_888-890_GAG pattern_error AATTTGG_,_TTAAACC,TTT_,_CTC,TGT_,_CTC,ACA_,_GAG
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5 changes: 0 additions & 5 deletions results/allele_cannot_fix_sequence_errors.tsv
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@@ -1,6 +1,4 @@
systematic_id allele_name allele_description sequence_error
SPAC10F6.09c psm3-Q1168E Q1168E Q1168
SPAC10F6.09c psm3-R1127I R1127I R1127
SPAC13A11.04c Y96C Y96
SPAC14C4.13 rad17-d14 C1231T C1231
SPAC17G8.14c pck1-N(1-400) 401-998 998
Expand All @@ -18,7 +16,6 @@ SPAC22G7.08 ppk8'-6 T471C,G473C T471|G473
SPAC22G7.08 ppk8'-7 T471A,C472A,G473C T471||G473
SPAC22G7.08 ppk8'-8 T471A T471
SPAC23C11.16 plo1-K65R K65R K65
SPAC23C4.19 spt5(WT)7 T1T T1
SPAC24B11.11c sid2-as4 M285A,T384A |T384
SPAC27D7.03c mei2--G1512T -G1512T G1512
SPAC27D7.03c mei2--G1512T,-G1692T -G1512T,-G1692T G1512|G1692
Expand Down Expand Up @@ -49,7 +46,6 @@ SPAPB1E7.05 gde1-E845A,D847A E845A,D847A E845|D847
SPAPB1E7.05 gde1-H810A,R811A H810A,R811A H810|R811
SPAPB1E7.05 gde1-R501G,G502V,Y503F,L504T,H505P,L506S,A507R(1-507) 508-1134,R501G,G502V,Y503F,L504T,H505P,L506S,A507R |R501|G502|Y503|L504|H505||A507
SPAPB1E7.05 gde1-Y21F,K25A,N139A Y21F,K25A,N139A Y21|K25|N139
SPBC146.03c cut3-K38T K38T K38
SPBC14C8.07c cdc18-46 E521A,Q334A |Q334
SPBC15D4.02 gsf1-AAD-1 C22T C22
SPBC1604.21c ptr3-1 C1892A C1892
Expand Down Expand Up @@ -109,7 +105,6 @@ SPBC725.16 res1'-B A1087T A1087
SPBC725.16 res1'-D C1085G C1085
SPBC725.16 res1'-E C1088G C1088
SPBC800.05c alp2-996 G1065A G1065
SPBC8D2.03c hhf2-L83S L83S L83
SPBC8E4.01c pho84-TATA box mutant T-33C,A-32G,T-31C,A-30G,T-29C,A-28G,T-27C,A-26G |A(-32)||A(-30)||A(-28)|T(-27)|A(-26)
SPBP19A11.06 lid2-H512A H512A H512
SPCC16C4.11 pef1-N146S N146S N146
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2 changes: 1 addition & 1 deletion results/protein_modification_auto_fix.tsv
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Expand Up @@ -6,8 +6,8 @@ SPAC1834.03c hhf1 MOD:00663 Inferred from Sequence or Structural Similarity K20
SPAC1834.04 hht1 MOD:00663 K14 present_during(GO:0031508) PMID:14561399 4896 2010-03-11 K14 K15 histone_fix
SPAC1834.04 hht1 MOD:01148 Inferred from Direct Assay K14 added_by(PomBase:SPAC23H4.18c) PMID:31468675 4896 2019-10-02 K14 K15 histone_fix
SPAC1834.04 hht1 MOD:00663 Inferred from Sequence or Structural Similarity K4 PB_REF:0000001 4896 2010-03-11 K4 K5 histone_fix
SPAC1834.04 hht1 MOD:00723 Inferred from Direct Assay K4 added_during(GO:0000084) PMID:20299449 4896 2014-12-23 K4 K5 histone_fix
SPAC1834.04 hht1 MOD:00723 Inferred from Direct Assay K4 added_by(PomBase:SPAC637.12c) PMID:20299449 4896 2014-12-23 K4 K5 histone_fix
SPAC1834.04 hht1 MOD:00723 Inferred from Direct Assay K4 added_during(GO:0000084) PMID:20299449 4896 2014-12-23 K4 K5 histone_fix
SPAC1834.04 hht1 MOD:00723 Inferred from Direct Assay K56 added_by(PomBase:SPBC342.06c) PMID:17369611 4896 2011-08-08 K56 K57 histone_fix
SPAC1834.04 hht1 MOD:00723 Inferred from Direct Assay K56 added_during(GO:0000084) PMID:20299449 4896 2014-12-23 K56 K57 histone_fix
SPAC1834.04 hht1 MOD:00663 K9 present_during(GO:0031508) PMID:14561399 4896 2010-03-11 K9 K10 histone_fix
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4 changes: 2 additions & 2 deletions results/protein_modification_cannot_fix_sequence_errors.tsv
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Expand Up @@ -150,12 +150,12 @@ SPCC162.07 ent1 MOD:00047 tryptic phosphopeptide mapping assay evidence used in
SPCC162.07 ent1 MOD:00047 tryptic phosphopeptide mapping assay evidence used in automatic assertion T647 PMID:30726745 4896 2019-02-05 T647
SPCC16C4.17 mug123 MOD:00046 tryptic phosphopeptide mapping assay evidence used in automatic assertion S228,S101 PMID:30726745 4896 2019-02-05 S228|
SPCC1739.11c cdc11 MOD:00046 Inferred from Direct Assay S12 PMID:22419817 4896 2013-08-22 S12
SPCC1795.06 map2 MOD:01641 Inferred from Direct Assay L23 removed_by(PomBase:SPAC1296.03c) PMID:8861202 4896 2011-10-19 L23
SPCC1795.06 map2 MOD:01641 Inferred from Direct Assay L23 removed_by(PomBase:SPAC1296.03c) PMID:9191272 4896 2011-10-10 L23
SPCC1795.06 map2 MOD:01641 Inferred from Direct Assay L23 removed_by(PomBase:SPAC1296.03c) PMID:8654750 4896 2011-10-10 L23
SPCC1795.06 map2 MOD:01641 Inferred from Direct Assay L23 removed_by(PomBase:SPAC1296.03c) PMID:8654750 4896 2011-10-10 L23
SPCC1795.06 map2 MOD:01641 Inferred from Direct Assay L23 removed_by(PomBase:SPAC1296.03c) PMID:8654750 4896 2011-10-10 L23
SPCC1795.06 map2 MOD:01641 Inferred from Direct Assay L23 removed_by(PomBase:SPAC1296.03c) PMID:8861202 4896 2011-10-19 L23
SPCC1795.06 map2 MOD:01641 Inferred from Direct Assay L23 removed_by(PomBase:SPAC1296.03c) PMID:8736868 4896 2011-10-10 L23
SPCC1795.06 map2 MOD:01641 Inferred from Direct Assay L23 removed_by(PomBase:SPAC1296.03c) PMID:9191272 4896 2011-10-10 L23
SPCC18B5.11c cds1 MOD:00696 Inferred from Direct Assay T121 PMID:24663817 4896 2020-03-09 T121
SPCC18B5.11c cds1 MOD:00047 Inferred from Direct Assay T334 added_by(PomBase:SPCC18B5.11c) PMID:19357077 4896 2014-02-04 T334
SPCC18B5.11c cds1 MOD:00047 Inferred from Direct Assay T379 added_by(PomBase:SPCC18B5.11c) PMID:19357077 4896 2014-02-04 T379
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