diff --git a/converter-sbml/src/main/java/lcsb/mapviewer/converter/model/sbml/reaction/SbmlReactionExporter.java b/converter-sbml/src/main/java/lcsb/mapviewer/converter/model/sbml/reaction/SbmlReactionExporter.java index ebc4091132d32be99d20e2aee0210a0f74fad8ee..9e2a086c561145bf14225b5fdadbcb014464f0f6 100644 --- a/converter-sbml/src/main/java/lcsb/mapviewer/converter/model/sbml/reaction/SbmlReactionExporter.java +++ b/converter-sbml/src/main/java/lcsb/mapviewer/converter/model/sbml/reaction/SbmlReactionExporter.java @@ -311,9 +311,7 @@ public class SbmlReactionExporter extends SbmlBioEntityExporter @@ -6425,7 +6425,7 @@ RecName: Full=Glucose-6-phosphate isomerase; Short=GPI; EC=5.3.1.9; AltName: Ful Name: alpha-D-glucose Synonyms: alpha-D-Glc, alpha-D-Glucose, ALPHA-D-GLUCOSE, alpha-D-glucose, alpha-dextrose SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -6467,7 +6467,7 @@ HGNC_ID: 4056 EntrezGene_ID: 2538, 2538, 2538 RefSeq_ID: NM_000151, NM_000151 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Glucose-6-phosphatase; Short=G-6-Pase; Short=G6Pase; EC=3.1.3.9; AltName: Full=Glucose-6-phosphatase alpha; Short=G6Pase-alpha; @@ -6569,7 +6569,7 @@ HGNC_ID: 4922 EntrezGene_ID: 3098, 3098, 3098 RefSeq_ID: NM_000188, NM_000188 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -6726,7 +6726,7 @@ HGNC_ID: 4195 EntrezGene_ID: 2645, 2645, 2645 RefSeq_ID: NM_000162, NM_000162 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -6983,7 +6983,7 @@ TransparencyZoomLevelVisibility: 0 Name: alpha-D-glucose 6-phosphate Synonyms: 6-O-phosphono-alpha-D-glucopyranose, alpha-D-Glucose 6-phosphate, ALPHA-D-GLUCOSE-6-PHOSPHATE SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -7023,7 +7023,7 @@ HGNC_ID: 8905 EntrezGene_ID: 5236, 5236, 5236 RefSeq_ID: NM_002633, NM_002633 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Phosphoglucomutase-1; Short=PGM 1; EC=5.4.2.2; AltName: Full=Glucose phosphomutase 1; @@ -7205,7 +7205,7 @@ HGNC_ID: 24063 EntrezGene_ID: 130589, 130589, 130589 RefSeq_ID: NM_138801, NM_138801 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Aldose 1-epimerase; EC=5.1.3.3; AltName: Full=Galactose mutarotase; @@ -7318,7 +7318,7 @@ HGNC_ID: 4458 EntrezGene_ID: 2821, 2821, 2821 RefSeq_ID: NM_000175, NM_000175 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Glucose-6-phosphate isomerase; Short=GPI; EC=5.3.1.9; AltName: Full=Autocrine motility factor; Short=AMF; AltName: Full=Neuroleukin; Short=NLK; AltName: Full=Phosphoglucose isomerase; Short=PGI; AltName: Full=Phosphohexose isomerase; Short=PHI; AltName: Full=Sperm antigen 36; Short=SA-36; @@ -7448,7 +7448,7 @@ RecName: Full=Glucose-6-phosphate isomerase; Short=GPI; EC=5.3.1.9; AltName: Ful Name: alpha-D-glucose 1-phosphate Synonyms: 1-O-phosphono-alpha-D-glucopyranose, alpha-D-glucopyranosyl phosphate, alpha-D-Glucose 1-phosphate, alpha-D-Glucose-1-phosphate, ALPHA-D-GLUCOSE-1-PHOSPHATE, Cori ester, D-Glucose 1-phosphate, D-Glucose alpha-1-phosphate SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -7555,7 +7555,7 @@ HGNC_ID: 3606 EntrezGene_ID: 2203, 2203, 2203 RefSeq_ID: NM_000507, NM_000507 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Fructose-1,6-bisphosphatase 1; Short=FBPase 1; EC=3.1.3.11; AltName: Full=D-fructose-1,6-bisphosphate 1-phosphohydrolase 1; @@ -7765,7 +7765,7 @@ HGNC_ID: 8877 EntrezGene_ID: 5213, 5213, 5213 RefSeq_ID: NM_000289, NM_000289 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=6-phosphofructokinase, muscle type; EC=2.7.1.11; AltName: Full=Phosphofructo-1-kinase isozyme A; Short=PFK-A; Short=Phosphofructokinase-M; AltName: Full=Phosphofructokinase 1; AltName: Full=Phosphohexokinase; @@ -7869,7 +7869,7 @@ RecName: Full=6-phosphofructokinase, muscle type; EC=2.7.1.11; AltName: Full=Pho Name: beta-D-fructofuranose 6-phosphate Synonyms: 6-O-phosphono-beta-D-fructofuranose, beta-D-Fructose 6-phosphate, FRUCTOSE-6-PHOSPHATE SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -7945,7 +7945,7 @@ HGNC_ID: 414 EntrezGene_ID: 226, 226, 226 RefSeq_ID: NM_000034, NM_000034 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Fructose-bisphosphate aldolase A; EC=4.1.2.13; AltName: Full=Lung cancer antigen NY-LU-1; AltName: Full=Muscle-type aldolase; @@ -8067,7 +8067,7 @@ HGNC_ID: 8876 EntrezGene_ID: 5211, 5211, 5211 RefSeq_ID: NM_001002021, NM_001002021 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -8219,7 +8219,7 @@ TransparencyZoomLevelVisibility: 0 Name: D-mannose 6-phosphate Synonyms: 6-O-phosphono-D-mannose, D-Mannose 6-phosphate, Mannose 6-phosphate SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -8251,7 +8251,7 @@ TransparencyZoomLevelVisibility: 0 Name: beta-D-fructofuranose 1,6-bisphosphate Synonyms: 1,6-di-O-phosphono-beta-D-fructofuranose, BETA FRUCTOSE 1,6-DIPHOSPHATE, beta-D-Fructose 1,6-bisphosphate, Fosfructose SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -8387,7 +8387,7 @@ HGNC_ID: 12009 EntrezGene_ID: 7167, 7167, 7167 RefSeq_ID: NM_000365, NM_000365 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -8570,7 +8570,7 @@ TransparencyZoomLevelVisibility: 0 Name: 3-phospho-D-glyceroyl dihydrogen phosphate Synonyms: (R)-2-Hydroxy-3-(phosphonooxy)-1-monoanhydride with phosphoric propanoic acid, 1,3-Bisphospho-D-glycerate, 3-Phospho-D-glyceroyl phosphate SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -8610,7 +8610,7 @@ HGNC_ID: 1093 EntrezGene_ID: 669, 669, 669 RefSeq_ID: NM_001724, NM_001724 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -8757,7 +8757,7 @@ TransparencyZoomLevelVisibility: 0 Name: 3-phospho-D-glyceroyl dihydrogen phosphate Synonyms: (R)-2-Hydroxy-3-(phosphonooxy)-1-monoanhydride with phosphoric propanoic acid, 1,3-Bisphospho-D-glycerate, 3-Phospho-D-glyceroyl phosphate SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -8834,7 +8834,7 @@ HGNC_ID: 4141 EntrezGene_ID: 2597, 2597, 2597 RefSeq_ID: NM_002046, NM_002046 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Glyceraldehyde-3-phosphate dehydrogenase; Short=GAPDH; EC=1.2.1.12; AltName: Full=Peptidyl-cysteine S-nitrosylase GAPDH; EC=2.6.99.-; @@ -8976,7 +8976,7 @@ HGNC_ID: 10901 EntrezGene_ID: 6502, 6502, 6502 RefSeq_ID: NM_005983, NM_005983 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=S-phase kinase-associated protein 2; AltName: Full=Cyclin-A/CDK2-associated protein p45; AltName: Full=F-box protein Skp2; AltName: Full=F-box/LRR-repeat protein 1; AltName: Full=p45skp2; @@ -9101,7 +9101,7 @@ HGNC_ID: 8896 EntrezGene_ID: 5230, 5230, 5230 RefSeq_ID: NM_000291, NM_000291 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -9358,7 +9358,7 @@ HGNC_ID: 1785 EntrezGene_ID: 1027, 1027, 1027 RefSeq_ID: NM_004064, NM_004064 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Cyclin-dependent kinase inhibitor 1B; AltName: Full=Cyclin-dependent kinase inhibitor p27; AltName: Full=p27Kip1; @@ -9471,7 +9471,7 @@ RecName: Full=Cyclin-dependent kinase inhibitor 1B; AltName: Full=Cyclin-depende Name: 3-phosphonato-D-glycerate(3-) Synonyms: 3-phospho-D-glycerate, 3-phosphonato-D-glycerate, 3-phosphonato-D-glycerate trianion SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -9507,7 +9507,7 @@ TransparencyZoomLevelVisibility: 0 Name: regulation of cell cycle SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Any process that modulates the rate or extent of progression through the cell cycle. @@ -9579,7 +9579,7 @@ HGNC_ID: 21731 EntrezGene_ID: 441531, 441531, 441531 RefSeq_ID: NM_001029891, NM_001029891 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -9682,7 +9682,7 @@ TransparencyZoomLevelVisibility: 0 Name: glutathione disulfide Synonyms: Glutathione disulfide, glutathione disulphide, GSSG, oxidised glutathione, Oxidized glutathione, Oxidized glutathione, OXIDIZED GLUTATHIONE DISULFIDE, Oxiglutatione SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -9719,7 +9719,7 @@ HGNC_ID: 1579 EntrezGene_ID: 891, 891, 891 RefSeq_ID: NM_031966, NM_031966 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=G2/mitotic-specific cyclin-B1; @@ -9876,7 +9876,7 @@ HGNC_ID: 4057 EntrezGene_ID: 2539, 2539, 2539 RefSeq_ID: NM_000402, NM_000402 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -10075,7 +10075,7 @@ HGNC_ID: 8874 EntrezGene_ID: 5209, 5209, 5209 RefSeq_ID: NM_004566, NM_004566 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -10296,7 +10296,7 @@ TransparencyZoomLevelVisibility: 0 Name: glutathione Synonyms: 5-L-Glutamyl-L-cysteinylglycine, gamma-L-Glutamyl-L-cysteinyl-glycine, Glutathione, Glutathione-SH, GSH, N-(N-gamma-L-Glutamyl-L-cysteinyl)glycine, Reduced glutathione SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -10327,7 +10327,7 @@ TransparencyZoomLevelVisibility: 0 Name: propionate metabolic process SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 The chemical reactions and pathways involving propionate, the anion derived from propionic (propanoic) acid, a carboxylic acid important in the energy metabolism of ruminants. @@ -10360,7 +10360,7 @@ The chemical reactions and pathways involving propionate, the anion derived from Name: phosphoenolpyruvate Synonyms: 2-(phosphonooxy)-2-propenoate, 2-(phosphonooxy)acrylate, 2-hydroxy-2-propenoate (dihydrogen phosphate) (ester), 2-hydroxy-2-propenoate phosphate (ester), O-phosphono-enol-pyruvate, PEP, Phosphoenolpyruvate, PHOSPHOENOLPYRUVATE, phosphoenolpyruvate(1-) SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -10401,7 +10401,7 @@ HGNC_ID: 8891 EntrezGene_ID: 5226, 5226, 5226 RefSeq_ID: NM_002631, NM_002631 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=6-phosphogluconate dehydrogenase, decarboxylating; EC=1.1.1.44; @@ -10545,7 +10545,7 @@ HGNC_ID: 3350 EntrezGene_ID: 2023, 2023, 2023 RefSeq_ID: NM_001428, NM_001428 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Alpha-enolase; EC=4.2.1.11; AltName: Full=2-phospho-D-glycerate hydro-lyase; AltName: Full=C-myc promoter-binding protein; AltName: Full=Enolase 1; AltName: Full=MBP-1; AltName: Full=MPB-1; AltName: Full=Non-neural enolase; Short=NNE; AltName: Full=Phosphopyruvate hydratase; AltName: Full=Plasminogen-binding protein; @@ -10674,7 +10674,7 @@ RecName: Full=Alpha-enolase; EC=4.2.1.11; AltName: Full=2-phospho-D-glycerate hy Name: 2-phosphonato-D-glycerate(3-) Synonyms: 2-phospho-D-glycerate, 2-phosphonato-D-glycerate, 2-phosphonato-D-glycerate trianion SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -10715,7 +10715,7 @@ HGNC_ID: 9020 EntrezGene_ID: 5313, 5313, 5313 RefSeq_ID: NM_000298, NM_000298 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Pyruvate kinase isozymes R/L; EC=2.7.1.40; AltName: Full=Pyruvate kinase 1; AltName: Full=R-type/L-type pyruvate kinase; AltName: Full=Red cell/liver pyruvate kinase; @@ -10849,7 +10849,7 @@ HGNC_ID: 1722 EntrezGene_ID: 983, 983, 983 RefSeq_ID: NM_001786, NM_001786 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Cyclin-dependent kinase 1; Short=CDK1; EC=2.7.11.22; EC=2.7.11.23; AltName: Full=Cell division control protein 2 homolog; AltName: Full=Cell division protein kinase 1; AltName: Full=p34 protein kinase; @@ -10980,7 +10980,7 @@ HGNC_ID: 1771 EntrezGene_ID: 1017, 1017, 1017 RefSeq_ID: NM_001290230, NM_001290230 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Cyclin-dependent kinase 2; EC=2.7.11.22; AltName: Full=Cell division protein kinase 2; AltName: Full=p33 protein kinase; @@ -13006,7 +13006,7 @@ HGNC_ID: 8903 EntrezGene_ID: 25796, 25796, 25796 RefSeq_ID: NM_012088, NM_012088 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=6-phosphogluconolactonase; Short=6PGL; EC=3.1.1.31; @@ -13108,7 +13108,7 @@ HGNC_ID: 1748 EntrezGene_ID: 999, 999, 999 RefSeq_ID: NM_004360, NM_004360 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -13269,7 +13269,7 @@ HGNC_ID: 1774 EntrezGene_ID: 1020, 1020, 1020 RefSeq_ID: NM_001164410, NM_001164410 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Cyclin-dependent kinase 5; EC=2.7.11.22; AltName: Full=Cell division protein kinase 5; AltName: Full=Serine/threonine-protein kinase PSSALRE; AltName: Full=Tau protein kinase II catalytic subunit; Short=TPKII catalytic subunit; @@ -13403,7 +13403,7 @@ RecName: Full=Cyclin-dependent kinase 5; EC=2.7.11.22; AltName: Full=Cell divisi Name: aldehydo-D-ribose 5-phosphate Synonyms: 5-O-phosphono-D-ribose, D-Ribose 5-phosphate, Ribose 5-phosphate SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -13439,7 +13439,7 @@ HGNC_ID: 1775 EntrezGene_ID: 8851 RefSeq_ID: NM_003885 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Cyclin-dependent kinase 5 activator 1; Short=CDK5 activator 1; AltName: Full=Cyclin-dependent kinase 5 regulatory subunit 1; AltName: Full=TPKII regulatory subunit; Contains: RecName: Full=Cyclin-dependent kinase 5 activator 1, p35; Short=p35; Contains: RecName: Full=Cyclin-dependent kinase 5 activator 1, p25; Short=p25; AltName: Full=Tau protein kinase II 23 kDa subunit; Short=p23; Flags: Precursor; @@ -13552,7 +13552,7 @@ RecName: Full=Cyclin-dependent kinase 5 activator 1; Short=CDK5 activator 1; Alt Name: hydron Synonyms: H+, H(+), Hydron SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -13588,7 +13588,7 @@ HGNC_ID: 10925 EntrezGene_ID: 9122, 9122, 9122 RefSeq_ID: NM_004696, NM_004696 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Monocarboxylate transporter 5; Short=MCT 5; AltName: Full=Monocarboxylate transporter 4; Short=MCT 4; AltName: Full=Solute carrier family 16 member 4; @@ -13705,7 +13705,7 @@ RecName: Full=Monocarboxylate transporter 5; Short=MCT 5; AltName: Full=Monocarb Synonyms: (+)-lactate, (S)-lactate, L(+)-lactate, L-(+)-lactate, L-lactate Reactome_ID: REACT_4026.1 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -13743,7 +13743,7 @@ TransparencyZoomLevelVisibility: 0 Synonyms: 2-oxopropanoate, 2-oxopropanoic acid, ion(1-), pyruvate Reactome_ID: REACT_3219.1 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -13783,7 +13783,7 @@ HGNC_ID: 6541 EntrezGene_ID: 3945, 3945, 3945 RefSeq_ID: NM_002300, NM_002300 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -13884,7 +13884,7 @@ TransparencyZoomLevelVisibility: 0 Name: tricarboxylic acid cycle SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 A nearly universal metabolic pathway in which the acetyl group of acetyl coenzyme A is effectively oxidized to two CO2 and four pairs of electrons are transferred to coenzymes. The acetyl group combines with oxaloacetate to form citrate, which undergoes successive transformations to isocitrate, 2-oxoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate again, thus completing the cycle. In eukaryotes the tricarboxylic acid is confined to the mitochondria. See also glyoxylate cycle. @@ -13921,7 +13921,7 @@ HGNC_ID: 10922 EntrezGene_ID: 6566, 6566, 6566 RefSeq_ID: NM_003051, NM_003051 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=Monocarboxylate transporter 1; Short=MCT 1; AltName: Full=Solute carrier family 16 member 1; @@ -14017,7 +14017,7 @@ HGNC_ID: 10928 EntrezGene_ID: 9194, 9194, 9194 RefSeq_ID: NM_004731, NM_004731 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 @@ -14111,7 +14111,7 @@ HGNC_ID: 6535 EntrezGene_ID: 3939, 3939, 3939 RefSeq_ID: NM_005566, NM_005566 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 RecName: Full=L-lactate dehydrogenase A chain; Short=LDH-A; EC=1.1.1.27; AltName: Full=Cell proliferation-inducing gene 19 protein; AltName: Full=LDH muscle subunit; Short=LDH-M; AltName: Full=Renal carcinoma antigen NY-REN-59; @@ -14318,7 +14318,7 @@ RecName: Full=L-lactate dehydrogenase A chain; Short=LDH-A; EC=1.1.1.27; AltName Name: anaphase-promoting complex SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 7 +SemanticZoomLevelTransparency: 7 A ubiquitin ligase complex that degrades mitotic cyclins and anaphase inhibitory protein, thereby triggering sister chromatid separation and exit from mitosis. Substrate recognition by APC occurs through degradation signals, the most common of which is termed the Dbox degradation motif, originally discovered in cyclin B. @@ -14373,7 +14373,7 @@ A ubiquitin ligase complex that degrades mitotic cyclins and anaphase inhibitory Name: SCF ubiquitin ligase complex SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 7 +SemanticZoomLevelTransparency: 7 A ubiquitin ligase complex in which a cullin from the Cul1 subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by a Skp1 adaptor and an F-box protein. SCF complexes are involved in targeting proteins for degradation by the proteasome. The best characterized complexes are those from yeast and mammals (with core subunits named Cdc53/Cul1, Rbx1/Hrt1/Roc1). diff --git a/rest-api/testFiles/convert/neuron_cd.xml b/rest-api/testFiles/convert/neuron_cd.xml index 895c90cd888a87114626134c6224f4dbaf4b97f6..0d4dbbe150363e65e5210455c5e5ff24c2660e95 100644 --- a/rest-api/testFiles/convert/neuron_cd.xml +++ b/rest-api/testFiles/convert/neuron_cd.xml @@ -31,7 +31,7 @@ </head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -48,7 +48,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11929" name="MAPK3"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -70,7 +70,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11930" name="MAPK1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -92,7 +92,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11961" name="PP2B"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 5 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -109,7 +109,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11937" name="CALM1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -131,7 +131,7 @@ HGNC_ID: 236 EntrezGene_ID: 111 RefSeq_ID: NM_183357 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -177,7 +177,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11957" name="PPP1CA"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 5 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -193,7 +193,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11935" name="PPP1CA"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -209,7 +209,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11963" name="EGR1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 5 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -231,7 +231,7 @@ HGNC_ID: 10251 EntrezGene_ID: 6093 RefSeq_ID: NM_005406 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -282,7 +282,7 @@ HGNC_ID: 10252 EntrezGene_ID: 9475 RefSeq_ID: NM_004850 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -328,7 +328,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11941" name="CREB1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 5 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -349,7 +349,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11913" name="PPP3R1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -365,7 +365,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11914" name="PPP3R2"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -381,7 +381,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11915" name="PPP3CA"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -397,7 +397,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11916" name="PPP3CB"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -413,7 +413,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11917" name="PPP3CC"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -436,7 +436,7 @@ HGNC_ID: 4574 EntrezGene_ID: 2893 RefSeq_ID: NM_000829 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -493,7 +493,7 @@ HGNC_ID: 4573 EntrezGene_ID: 2892 RefSeq_ID: NM_000828 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -546,7 +546,7 @@ HGNC_ID: 4571 EntrezGene_ID: 2890 RefSeq_ID: NM_000827 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -603,7 +603,7 @@ HGNC_ID: 4572 EntrezGene_ID: 2891 RefSeq_ID: NM_000826 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -655,7 +655,7 @@ HGNC_ID: 1509 EntrezGene_ID: 841 RefSeq_ID: NM_001228 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -707,7 +707,7 @@ HGNC_ID: 1509 EntrezGene_ID: 841 RefSeq_ID: NM_001228 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -760,7 +760,7 @@ HGNC_ID: 4851 EntrezGene_ID: 3064 RefSeq_ID: NM_002111 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -817,7 +817,7 @@ HGNC_ID: 2514 EntrezGene_ID: 1499 RefSeq_ID: NM_001098210 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -873,7 +873,7 @@ HGNC_ID: 9380 EntrezGene_ID: 5566 RefSeq_ID: NM_002730 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -925,7 +925,7 @@ HGNC_ID: 9381 EntrezGene_ID: 5567 RefSeq_ID: NM_182948 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -977,7 +977,7 @@ HGNC_ID: 9382 EntrezGene_ID: 5568 RefSeq_ID: NM_002732 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1023,7 +1023,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_csa1947" name="catalytic_BR_subunit"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 4 +SemanticZoomLevelTransparency: 4 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1038,7 +1038,7 @@ TransparencyZoomLevelVisibility: 4 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_csa1946" name="regulatory_BR_subunit"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 4 +SemanticZoomLevelTransparency: 4 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1059,7 +1059,7 @@ HGNC_ID: 344 EntrezGene_ID: 10768 RefSeq_ID: NM_001242673 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1110,7 +1110,7 @@ HGNC_ID: 12692 EntrezGene_ID: 7431 RefSeq_ID: NM_003380 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1168,7 +1168,7 @@ HGNC_ID: 1874 EntrezGene_ID: 1072 RefSeq_ID: NM_005507 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1224,7 +1224,7 @@ HGNC_ID: 1875 EntrezGene_ID: 1073 RefSeq_ID: NM_138638 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1280,7 +1280,7 @@ HGNC_ID: 344 EntrezGene_ID: 10768 RefSeq_ID: NM_001242673 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1332,7 +1332,7 @@ HGNC_ID: 6182 EntrezGene_ID: 3710 RefSeq_ID: NM_002224 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1385,7 +1385,7 @@ HGNC_ID: 4571 EntrezGene_ID: 2890 RefSeq_ID: NM_000827 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1443,7 +1443,7 @@ HGNC_ID: 4572 EntrezGene_ID: 2891 RefSeq_ID: NM_000826 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1496,7 +1496,7 @@ HGNC_ID: 4574 EntrezGene_ID: 2893 RefSeq_ID: NM_000829 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1554,7 +1554,7 @@ HGNC_ID: 4573 EntrezGene_ID: 2892 RefSeq_ID: NM_000828 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1607,7 +1607,7 @@ HGNC_ID: 4851 EntrezGene_ID: 3064 RefSeq_ID: NM_002111 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1664,7 +1664,7 @@ HGNC_ID: 29176 EntrezGene_ID: 23108 RefSeq_ID: NM_015085 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1717,7 +1717,7 @@ HGNC_ID: 9858 EntrezGene_ID: 5909 RefSeq_ID: NM_002885 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1763,7 +1763,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11931" name="PPP2CA"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1779,7 +1779,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11932" name="PPP2CB"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1801,7 +1801,7 @@ HGNC_ID: 6291 EntrezGene_ID: 3781 RefSeq_ID: NM_021614 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1853,7 +1853,7 @@ HGNC_ID: 6290 EntrezGene_ID: 3780 RefSeq_ID: NM_002248 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1905,7 +1905,7 @@ HGNC_ID: 6292 EntrezGene_ID: 3782 RefSeq_ID: NM_002249 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -1957,7 +1957,7 @@ HGNC_ID: 9381 EntrezGene_ID: 5567 RefSeq_ID: NM_182948 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2009,7 +2009,7 @@ HGNC_ID: 9380 EntrezGene_ID: 5566 RefSeq_ID: NM_002730 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2061,7 +2061,7 @@ HGNC_ID: 9382 EntrezGene_ID: 5568 RefSeq_ID: NM_002732 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2113,7 +2113,7 @@ HGNC_ID: 1875 EntrezGene_ID: 1073 RefSeq_ID: NM_138638 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2170,7 +2170,7 @@ HGNC_ID: 1874 EntrezGene_ID: 1072 RefSeq_ID: NM_005507 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2221,7 +2221,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11958" name="ELK1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 5 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2237,7 +2237,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11918" name="GRIN1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2253,7 +2253,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11919" name="GRIN2A"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2269,7 +2269,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11920" name="GRIN2B"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2285,7 +2285,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11921" name="GRIN2C"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2301,7 +2301,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11922" name="GRIN2D"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2317,7 +2317,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11933" name="CAPN1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2333,7 +2333,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_sa11934" name="CAPNS1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2349,7 +2349,7 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:annotation> </celldesigner:species> <celldesigner:species id="s_id_csa1945" name="PKA_space_catalytic_space_subunit"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 4 +SemanticZoomLevelTransparency: 4 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -2371,7 +2371,7 @@ HGNC_ID: 9392 EntrezGene_ID: 5577 RefSeq_ID: NM_002736 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/"> <rdf:Description rdf:about="#"> @@ -4450,23 +4450,23 @@ TransparencyZoomLevelVisibility: 0 </celldesigner:listOfProteins> <celldesigner:listOfGenes></celldesigner:listOfGenes> <celldesigner:listOfRNAs><celldesigner:RNA id="r_s_id_sa11826" name="EGR1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 5 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></celldesigner:notes></celldesigner:RNA><celldesigner:RNA id="r_s_id_sa11836" name="PPP1R1B"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 5 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></celldesigner:notes></celldesigner:RNA><celldesigner:RNA id="r_s_id_sa11827" name="PDYN"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 5 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></celldesigner:notes></celldesigner:RNA><celldesigner:RNA id="r_s_id_sa11824" name="FOS"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 5 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></celldesigner:notes></celldesigner:RNA><celldesigner:RNA id="r_s_id_sa11825" name="DUSP1"><celldesigner:notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 5 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></celldesigner:notes></celldesigner:RNA></celldesigner:listOfRNAs> @@ -4500,7 +4500,7 @@ Striatal D1 neuron intracellular signaling </rdf:RDF> </annotation> <notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 4 +SemanticZoomLevelTransparency: 4 </body></html></notes> </compartment> @@ -4515,7 +4515,7 @@ TransparencyZoomLevelVisibility: 4 </rdf:RDF> </annotation> <notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 3 +SemanticZoomLevelTransparency: 3 </body></html></notes> </compartment> @@ -4530,7 +4530,7 @@ TransparencyZoomLevelVisibility: 3 </rdf:RDF> </annotation> <notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 6 +SemanticZoomLevelTransparency: 6 </body></html></notes> </compartment> @@ -4550,7 +4550,7 @@ TransparencyZoomLevelVisibility: 6 </rdf:RDF> </annotation> <notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 4 +SemanticZoomLevelTransparency: 4 </body></html></notes> </compartment> @@ -4565,7 +4565,7 @@ TransparencyZoomLevelVisibility: 4 </rdf:RDF> </annotation> <notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 5 +SemanticZoomLevelTransparency: 5 </body></html></notes> </compartment> @@ -4585,7 +4585,7 @@ TransparencyZoomLevelVisibility: 5 </rdf:RDF> </annotation> <notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 6 +SemanticZoomLevelTransparency: 6 </body></html></notes> </compartment> @@ -4605,7 +4605,7 @@ TransparencyZoomLevelVisibility: 6 </rdf:RDF> </annotation> <notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 7 +SemanticZoomLevelTransparency: 7 </body></html></notes> </compartment> @@ -4652,7 +4652,7 @@ TransparencyZoomLevelVisibility: 7 <species name="cAMP" id="s_id_sa11840" metaid="s_id_sa11840" initialAmount="0.0" charge="0" compartment="s_id_ca169"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: 3',5'-cyclic AMP Synonyms: 3', 5'-Cyclic AMP, adenosine 3', 5'-cyclic monophosphate, Adenosine 3', 5'-cyclic phosphate, Adenosine 3', 5'-phosphate, ADENOSINE-3', 5'-CYCLIC-MONOPHOSPHATE, cAMP, Cyclic adenylic acid, Cyclic AMP, Recon metabolite: camp SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 VMH database: <a href="http://vmh.uni.lu/#metabolite/camp">camp</a></body></html></notes> @@ -4678,7 +4678,7 @@ HGNC_ID: 1144 EntrezGene_ID: 8945 RefSeq_ID: NM_033637 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 </body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>PROTEIN</celldesigner:class> @@ -4850,7 +4850,7 @@ TransparencyZoomLevelVisibility: 0 <species name="cAMP" id="s_id_sa11703" metaid="s_id_sa11703" initialAmount="0.0" charge="0" compartment="s_id_ca173"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: 3',5'-cyclic AMP Synonyms: 3', 5'-Cyclic AMP, adenosine 3', 5'-cyclic monophosphate, Adenosine 3', 5'-cyclic phosphate, Adenosine 3', 5'-phosphate, ADENOSINE-3', 5'-CYCLIC-MONOPHOSPHATE, cAMP, Cyclic adenylic acid, Cyclic AMP, Recon metabolite: camp SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 VMH database: <a href="http://vmh.uni.lu/#metabolite/camp">camp</a></body></html></notes> @@ -4926,7 +4926,7 @@ HGNC_ID: 13727 EntrezGene_ID: 10048 RefSeq_ID: NM_005493 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 </body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>PROTEIN</celldesigner:class> @@ -5017,7 +5017,7 @@ HGNC_ID: 24615 EntrezGene_ID: 29904 RefSeq_ID: NM_013302 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5073,7 +5073,7 @@ HGNC_ID: 9392 EntrezGene_ID: 5577 RefSeq_ID: NM_002736 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5129,7 +5129,7 @@ HGNC_ID: 9879 EntrezGene_ID: 10235 RefSeq_ID: NM_153819 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5274,7 +5274,7 @@ Charge: 0 </species> <species name="postsynaptic_space_response" id="s_id_sa11717" metaid="s_id_sa11717" initialAmount="0.0" charge="0" compartment="s_id_ca168"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: excitatory postsynaptic potential SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 A process that leads to a temporary increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell. The flow of ions that causes an EPSP is an excitatory postsynaptic current (EPSC) and makes it easier for the neuron to fire an action potential.</body></html></notes> @@ -5326,7 +5326,7 @@ HGNC_ID: 13727 EntrezGene_ID: 10048 RefSeq_ID: NM_005493 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5394,7 +5394,7 @@ HGNC_ID: 24615 EntrezGene_ID: 29904 RefSeq_ID: NM_013302 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5483,7 +5483,7 @@ HGNC_ID: 4851 EntrezGene_ID: 3064 RefSeq_ID: NM_002111 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5538,7 +5538,7 @@ HGNC_ID: 3020 EntrezGene_ID: 1812 RefSeq_ID: NM_000794 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5596,7 +5596,7 @@ HGNC_ID: 6153 EntrezGene_ID: 3688 RefSeq_ID: NM_002211 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5664,7 +5664,7 @@ HGNC_ID: 344 EntrezGene_ID: 10768 RefSeq_ID: NM_001242673 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5721,7 +5721,7 @@ Charge: 0 </species> <species name="PKA" id="s_id_csa1931" metaid="s_id_csa1931" initialAmount="0.0" compartment="s_id_ca188"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: cAMP-dependent protein kinase complex SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 7 +SemanticZoomLevelTransparency: 7 An enzyme complex, composed of regulatory and catalytic subunits, that catalyzes protein phosphorylation. Inactive forms of the enzyme have two regulatory chains and two catalytic chains; activation by cAMP produces two active catalytic monomers and a regulatory dimer.</body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>COMPLEX</celldesigner:class> @@ -5745,7 +5745,7 @@ HGNC_ID: 12692 EntrezGene_ID: 7431 RefSeq_ID: NM_003380 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5822,7 +5822,7 @@ Charge: 0 </species> <species name="AMPA_space_receptor" id="s_id_csa1900" metaid="s_id_csa1900" initialAmount="0.0" charge="0" compartment="s_id_ca188"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: AMPA glutamate receptor complex SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 4 +SemanticZoomLevelTransparency: 4 Charge: 0 An assembly of four or five subunits which form a structure with an extracellular N-terminus and a large loop that together form the ligand binding domain. The C-terminus is intracellular. The ionotropic glutamate receptor complex itself acts as a ligand gated ion channel; on binding glutamate, charged ions pass through a channel in the center of the receptor complex. The AMPA receptors mediate fast synaptic transmission in the CNS and are composed of subunits GluR1-4, products from separate genes. These subunits have an extracellular N-terminus and an intracellular C-terminus.</body></html></notes> @@ -5875,7 +5875,7 @@ HGNC_ID: 14581 EntrezGene_ID: 65018 RefSeq_ID: NM_032409 SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -5932,7 +5932,7 @@ HGNC_ID: 6180 EntrezGene_ID: 3708 RefSeq_ID: NM_002222 SemanticZoomLevelVisibility: 7 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -6001,7 +6001,7 @@ Charge: 0 <species name="cAMP" id="s_id_sa11795" metaid="s_id_sa11795" initialAmount="0.0" charge="0" compartment="s_id_ca188"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: 3',5'-cyclic AMP Synonyms: 3', 5'-Cyclic AMP, adenosine 3', 5'-cyclic monophosphate, Adenosine 3', 5'-cyclic phosphate, Adenosine 3', 5'-phosphate, ADENOSINE-3', 5'-CYCLIC-MONOPHOSPHATE, cAMP, Cyclic adenylic acid, Cyclic AMP, Recon metabolite: camp SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 VMH database: <a href="http://vmh.uni.lu/#metabolite/camp">camp</a></body></html></notes> @@ -6054,7 +6054,7 @@ VMH database: <a href="http://vmh.uni.lu/#metabolite/camp">camp</a></body></htm <species name="IP3_space_" id="s_id_sa11736" metaid="s_id_sa11736" initialAmount="0.0" compartment="s_id_ca188"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: 1D-myo-inositol 1,4,5-trisphosphate Synonyms: 1, 4, 5-Insp3, 1D-myo-Inositol 1, 4, 5-trisphosphate, D-myo-Inositol 1, 4, 5-trisphosphate, D-MYO-INOSITOL-1, 4, 5-TRIPHOSPHATE, Inositol 1, 4, 5-trisphosphate, Ins(1, 4, 5)P3, InsP3, IP3, Recon metabolite: mi145p SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 VMH database: <a href="http://vmh.uni.lu/#metabolite/mi145p">mi145p</a></body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> @@ -6079,7 +6079,7 @@ HGNC_ID: 9392 EntrezGene_ID: 5577 RefSeq_ID: NM_002736 SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -6153,7 +6153,7 @@ Charge: 0 <species name="diglyceride" id="s_id_sa11733" metaid="s_id_sa11733" initialAmount="0.0" compartment="s_id_ca188"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: diglyceride Synonyms: a diacylglycerol, di-O-acylglycerols, Diacylglycerol, diacylglycerols, Diglyceride, diglycerides SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 </body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>innerSurface</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> @@ -6203,7 +6203,7 @@ HGNC_ID: 3020 EntrezGene_ID: 1812 RefSeq_ID: NM_000794 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -6294,7 +6294,7 @@ Charge: 0 </species> <species name="UPS" id="s_id_sa11719" metaid="s_id_sa11719" initialAmount="0.0" compartment="s_id_ca173"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: proteasome complex SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 A large multisubunit complex which catalyzes protein degradation, found in eukaryotes, archaea and some bacteria. In eukaryotes, this complex consists of the barrel shaped proteasome core complex and one or two associated proteins or complexes that act in regulating entry into or exit from the core.</body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>PHENOTYPE</celldesigner:class> @@ -6335,7 +6335,7 @@ A large multisubunit complex which catalyzes protein degradation, found in eukar </species> <species name="UPS" id="s_id_sa11732" metaid="s_id_sa11732" initialAmount="0.0" compartment="s_id_ca173"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: proteasome complex SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 A large multisubunit complex which catalyzes protein degradation, found in eukaryotes, archaea and some bacteria. In eukaryotes, this complex consists of the barrel shaped proteasome core complex and one or two associated proteins or complexes that act in regulating entry into or exit from the core.</body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>PHENOTYPE</celldesigner:class> @@ -6355,7 +6355,7 @@ A large multisubunit complex which catalyzes protein degradation, found in eukar </species> <species name="PKA" id="s_id_csa1901" metaid="s_id_csa1901" initialAmount="0.0" compartment="s_id_ca168"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: cAMP-dependent protein kinase complex SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 7 +SemanticZoomLevelTransparency: 7 An enzyme complex, composed of regulatory and catalytic subunits, that catalyzes protein phosphorylation. Inactive forms of the enzyme have two regulatory chains and two catalytic chains; activation by cAMP produces two active catalytic monomers and a regulatory dimer.</body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>COMPLEX</celldesigner:class> @@ -6413,7 +6413,7 @@ HGNC_ID: 18618 EntrezGene_ID: 120892 RefSeq_ID: XM_058513 SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 </body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>PROTEIN</celldesigner:class> @@ -6463,7 +6463,7 @@ TransparencyZoomLevelVisibility: 0 </species> <species name="AMPA_space_receptor" id="s_id_csa1907" metaid="s_id_csa1907" initialAmount="0.0" charge="0" compartment="s_id_ca188"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: AMPA glutamate receptor complex SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 3 +SemanticZoomLevelTransparency: 3 Charge: 0 An assembly of four or five subunits which form a structure with an extracellular N-terminus and a large loop that together form the ligand binding domain. The C-terminus is intracellular. The ionotropic glutamate receptor complex itself acts as a ligand gated ion channel; on binding glutamate, charged ions pass through a channel in the center of the receptor complex. The AMPA receptors mediate fast synaptic transmission in the CNS and are composed of subunits GluR1-4, products from separate genes. These subunits have an extracellular N-terminus and an intracellular C-terminus.</body></html></notes> @@ -6487,7 +6487,7 @@ An assembly of four or five subunits which form a structure with an extracellula Synonyms: (S)-2-aminopentanedioic acid, (S)-glutamic acid, acide glutamique, acido glutamico, acidum glutamicum, E, Glu, Glutamate, GLUTAMIC ACID, glutamic acid, L-Glu, L-Glutamic acid, L-Glutaminic acid, L-Glutaminsaeure, Recon metabolite: glu_L Reactome_ID: REACT_13119.1 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 VMH database: <a href="http://vmh.uni.lu/#metabolite/glu_L">glu_L</a></body></html></notes> @@ -6524,7 +6524,7 @@ VMH database: <a href="http://vmh.uni.lu/#metabolite/glu_L">glu_L</a></body></h </species> <species name="filamentous_space_actin" id="s_id_csa1898" metaid="s_id_csa1898" initialAmount="0.0" charge="0" compartment="s_id_ca169"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: filamentous actin SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 7 +SemanticZoomLevelTransparency: 7 Charge: 0 A two-stranded helical polymer of the protein actin.</body></html></notes> @@ -6552,7 +6552,7 @@ HGNC_ID: 18618 EntrezGene_ID: 120892 RefSeq_ID: XM_058513 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -6603,7 +6603,7 @@ Charge: 0 </species> <species name="protein_space_translation" id="s_id_sa11705" metaid="s_id_sa11705" initialAmount="0.0" charge="0" compartment="s_id_ca173"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: regulation of cytoplasmic translational elongation SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 Any process that modulates the frequency, rate or extent of cytoplasmic translational elongation.</body></html></notes> @@ -6640,7 +6640,7 @@ HGNC_ID: 2514 EntrezGene_ID: 1499 RefSeq_ID: NM_001098210 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -6733,7 +6733,7 @@ Charge: 0 </species> <species name="dendritic_space_spine_space_development" id="s_id_sa11725" metaid="s_id_sa11725" initialAmount="0.0" charge="0" compartment="s_id_ca169"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: dendritic spine development SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 The process whose specific outcome is the progression of the dendritic spine over time, from its formation to the mature structure. A dendritic spine is a protrusion from a dendrite and a specialized subcellular compartment involved in synaptic transmission.</body></html></notes> @@ -6759,7 +6759,7 @@ HGNC_ID: 1144 EntrezGene_ID: 8945 RefSeq_ID: NM_033637 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 </body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>PROTEIN</celldesigner:class> @@ -6809,7 +6809,7 @@ HGNC_ID: 12692 EntrezGene_ID: 7431 RefSeq_ID: NM_003380 SemanticZoomLevelVisibility: 3 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -6864,7 +6864,7 @@ HGNC_ID: 9399 EntrezGene_ID: 5580 RefSeq_ID: NM_001316327 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -6976,7 +6976,7 @@ HGNC_ID: 8032 EntrezGene_ID: 4915 RefSeq_ID: XM_005252001 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -7054,7 +7054,7 @@ Charge: 0 </species> <species name="mitochondrial_space_motility" id="s_id_sa11729" metaid="s_id_sa11729" initialAmount="0.0" charge="0" compartment="s_id_ca168"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: mitochondrion transport along microtubule SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 The directed movement of a mitochondrion along a microtubule, mediated by motor proteins.</body></html></notes> @@ -7121,7 +7121,7 @@ HGNC_ID: 6181 EntrezGene_ID: 3709 RefSeq_ID: NM_002223 SemanticZoomLevelVisibility: 7 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -7184,7 +7184,7 @@ HGNC_ID: 10000 EntrezGene_ID: 5999 RefSeq_ID: NM_005613 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -7265,7 +7265,7 @@ Charge: 0 <species name="PIP2" id="s_id_sa11759" metaid="s_id_sa11759" initialAmount="0.0" compartment="s_id_ca188"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate Synonyms: 1, 2-Diacyl-sn-glycero-3-phospho-(1'-myo-inositol-4', 5'-bisphosphate), 1-Phosphatidyl-1D-myo-inositol 4, 5-bisphosphate, 1-Phosphatidyl-1D-myo-inositol 4, 5-bisphosphate, 1-Phosphatidyl-D-myo-inositol 4, 5-bisphosphate, 1-Phosphatidyl-D-myo-inositol 4, 5-bisphosphate, Phosphatidyl-myo-inositol 4, 5-bisphosphate, Phosphatidyl-myo-inositol 4, 5-bisphosphate, Phosphatidylinositol-4, 5-bisphosphate, Phosphatidylinositol-4, 5-bisphosphate, PIP2, PIPP, PtsIns(4, 5)P2, PtsIns-4, 5-P2 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 </body></html></notes> <annotation><celldesigner:extension><celldesigner:positionToCompartment>innerSurface</celldesigner:positionToCompartment><celldesigner:speciesIdentity><celldesigner:class>SIMPLE_MOLECULE</celldesigner:class> @@ -7329,7 +7329,7 @@ TransparencyZoomLevelVisibility: 0 <species name="ATP" id="s_id_sa11839" metaid="s_id_sa11839" initialAmount="0.0" charge="0" compartment="s_id_ca169"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: ATP Synonyms: Adenosine 5'-triphosphate, Adenosine triphosphate, ADENOSINE-5'-TRIPHOSPHATE, Adephos, Adetol, Adynol, Atipi, ATP, Atriphos, Cardenosine, Fosfobion, Glucobasin, H4atp, Myotriphos, Triadenyl, Triphosphaden, Recon metabolite: atp SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 VMH database: <a href="http://vmh.uni.lu/#metabolite/atp">atp</a></body></html></notes> @@ -7400,7 +7400,7 @@ VMH database: <a href="http://vmh.uni.lu/#metabolite/atp">atp</a></body></html> <species name="GNAL" id="s_id_sa11741" metaid="s_id_sa11741" initialAmount="0.0" charge="0" compartment="s_id_ca169"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Symbol: GNAL Name: G protein subunit alpha L SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -7422,7 +7422,7 @@ Charge: 0 </species> <species name="dendrite_space_extension" id="s_id_sa11699" metaid="s_id_sa11699" initialAmount="0.0" charge="0" compartment="s_id_ca168"><notes><html xmlns="http://www.w3.org/1999/xhtml"><head><title/></head><body>Name: dendrite extension SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 Long distance growth of a single dendrite involved in cellular development.</body></html></notes> @@ -7488,7 +7488,7 @@ Name: GNAS complex locus Previous Symbols: GNAS1 Synonyms: GNASXL, GPSA, NESP, NESP55, SCG6, SgVI SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -7535,7 +7535,7 @@ HGNC_ID: 24615 EntrezGene_ID: 29904 RefSeq_ID: NM_013302 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -7614,7 +7614,7 @@ HGNC_ID: 6839 EntrezGene_ID: 4133 RefSeq_ID: NM_001039538 SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -7737,7 +7737,7 @@ HGNC_ID: 9879 EntrezGene_ID: 10235 RefSeq_ID: NM_153819 SemanticZoomLevelVisibility: 4 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -7794,7 +7794,7 @@ HGNC_ID: 18618 EntrezGene_ID: 120892 RefSeq_ID: XM_058513 SemanticZoomLevelVisibility: 6 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes> @@ -7852,7 +7852,7 @@ HGNC_ID: 6182 EntrezGene_ID: 3710 RefSeq_ID: NM_002224 SemanticZoomLevelVisibility: 7 -TransparencyZoomLevelVisibility: 0 +SemanticZoomLevelTransparency: 0 Charge: 0 </body></html></notes>