output/byLines/MJU_20200212_GSEA_1_Data-output.tsv Version 1
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_SxP10-newG-DE/_A_04_GSEA-Stat/
SEEK ID: https://fairdomhub.org/data_files/5291?version=1
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output/byLines/MJU_20200212_GSEA_1_Data-output.tsv
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NAME SIZE high-low-up high-wt-up low-wt-up NAME SIZE high-low-down high-wt-down low-wt-down 1 PS 327 -68% -69% -63% 1.1 PS.LIGHTREACTION 221 -66% -68% -56% 1.1.1 PS.LIGHTREACTION.PHOTOSYSTEM II 92 -80% -79% -62% 1.1.1.1 PS.LIGHTREACTION.PHOTOSYSTEM II.LHC-II 38 -92% -92% +11% 1.1.1.2 PS.LIGHTREACTION.PHOTOSYSTEM II.PSII POLYPEPTIDE SUBUNITS 53 -72% -74% -68% 1.1.2 PS.LIGHTREACTION.PHOTOSYSTEM I 49 -90% -90% -80% 1.1.2.1 PS.LIGHTREACTION.PHOTOSYSTEM I.LHC-I 20 -100% -100% -85% 1.1.2.2 PS.LIGHTREACTION.PHOTOSYSTEM I.PSI POLYPEPTIDE SUBUNITS 27 -85% -85% -85% 1.1.4 PS.LIGHTREACTION.ATP SYNTHASE 33 -55% -61% -15% 1.1.6 PS.LIGHTREACTION.NADH DH 15 -33% -67% -47% 1.2 PS.PHOTORESPIRATION 40 -63% -65% -28% 1.3 PS.CALVIN CYCLE 64 -83% -80% -75% 2 MAJOR CHO METABOLISM 135 +18% +16% +20% 2.1 MAJOR CHO METABOLISM.SYNTHESIS 42 -50% -31% +40% 2.1.2 MAJOR CHO METABOLISM.SYNTHESIS.STARCH 33 -39% -33% +18% 2.2 MAJOR CHO METABOLISM.DEGRADATION 92 +23% +20% +32% 2.2.1 MAJOR CHO METABOLISM.DEGRADATION.SUCROSE 47 +28% +30% +32% 2.2.1.3 MAJOR CHO METABOLISM.DEGRADATION.SUCROSE.INVERTASES 21 +33% +33% -29% 2.2.2 MAJOR CHO METABOLISM.DEGRADATION.STARCH 45 -53% +16% +38% 2.2.2.1 MAJOR CHO METABOLISM.DEGRADATION.STARCH.STARCH CLEAVAGE 21 +33% +38% +52% 3 MINOR CHO METABOLISM 106 +22% +25% +41% 3.2 MINOR CHO METABOLISM.TREHALOSE 24 +17% +29% +58% 3.5 MINOR CHO METABOLISM.OTHERS 40 +18% +18% -35% 4 GLYCOLYSIS 88 -32% -26% +19% 4.1 GLYCOLYSIS.CYTOSOLIC BRANCH 63 -32% -27% +19% 5 FERMENTATION 16 +63% +44% +13% 7 OPP 32 +41% +31% -38% 7.1 OPP.OXIDATIVE PP 19 +47% +53% -11% 8 TCA / ORGANIC TRANSFORMATION 102 +36% -24% -39% 8.1 TCA / ORGANIC TRANSFORMATION.TCA 66 +38% +23% -36% 8.1.1 TCA / ORGANIC TRANSFORMATION.TCA.PYRUVATE DH 23 -30% -30% -39% 8.2 TCA / ORGANIC TRANSFORMATION.OTHER ORGANIC ACID TRANSFORMATIONS 28 +36% -32% -71% 9 MITOCHONDRIAL ELECTRON TRANSPORT / ATP SYNTHESIS 127 +54% +25% -57% 9.1 MITOCHONDRIAL ELECTRON TRANSPORT / ATP SYNTHESIS.NADH-DH (TYPE I) 43 +86% +51% -49% 9.1.1 MITOCHONDRIAL ELECTRON TRANSPORT / ATP SYNTHESIS.NADH-DH (TYPE I).COMPLEX I 17 +71% -100% -71% 9.1.2 MITOCHONDRIAL ELECTRON TRANSPORT / ATP SYNTHESIS.NADH-DH (TYPE I).LOCALISATION NOT CLEAR 26 +92% +58% -27% 9.9 MITOCHONDRIAL ELECTRON TRANSPORT / ATP SYNTHESIS.F1-ATPASE 41 +10% +10% -39% 10 CELL WALL 341 +13% -26% -11% 10.1 CELL WALL.PRECURSOR SYNTHESIS 67 +51% +34% -15% 10.2 CELL WALL.CELLULOSE SYNTHESIS 40 -23% +3% +45% 10.2.1 CELL WALL.CELLULOSE SYNTHESIS.CELLULOSE SYNTHASE 31 -23% +23% +52% 10.5 CELL WALL.CELL WALL PROTEINS 48 +17% +13% -10% 10.5.1 CELL WALL.CELL WALL PROTEINS.AGPS 19 -53% -47% -100% 10.5.1.1 CELL WALL.CELL WALL PROTEINS.AGPS.AGP 19 -53% -47% -100% 10.6 CELL WALL.DEGRADATION 110 -36% -39% -10% 10.6.1 CELL WALL.DEGRADATION.CELLULASES AND BETA-1,4-GLUCANASES 28 -57% -50% +43% 10.6.2 CELL WALL.DEGRADATION.MANNAN-XYLOSE-ARABINOSE-FUCOSE 36 +14% -36% -25% 10.6.3 CELL WALL.DEGRADATION.PECTATE LYASES AND POLYGALACTURONASES 37 -41% -30% +49% 10.7 CELL WALL.MODIFICATION 37 +30% +41% +22% 10.8 CELL WALL.PECTINESTERASES 23 +17% +48% -9% 11 LIPID METABOLISM 411 +21% +27% +20% 11.1 LIPID METABOLISM.FA SYNTHESIS AND FA ELONGATION 121 -34% -34% -23% 11.1.8 LIPID METABOLISM.FA SYNTHESIS AND FA ELONGATION.ACYL COA LIGASE 18 +33% +44% +56% 11.2 LIPID METABOLISM.FA DESATURATION 15 -60% -60% -40% 11.3 LIPID METABOLISM.PHOSPHOLIPID SYNTHESIS 36 -25% -28% -19% 11.6 LIPID METABOLISM.LIPID TRANSFER PROTEINS ETC 22 +55% +55% +27% 11.8 LIPID METABOLISM.EXOTICS (STEROIDS, SQUALENE ETC) 73 +26% +18% -18% 11.8.1 LIPID METABOLISM.EXOTICS (STEROIDS, SQUALENE ETC).SPHINGOLIPIDS 34 -26% -21% -18% 11.9 LIPID METABOLISM.LIPID DEGRADATION 114 +26% +42% +26% 11.9.2 LIPID METABOLISM.LIPID DEGRADATION.LIPASES 31 +45% +42% +26% 11.9.2.1 LIPID METABOLISM.LIPID DEGRADATION.LIPASES.TRIACYLGLYCEROL LIPASE 29 +41% +41% +55% 11.9.3 LIPID METABOLISM.LIPID DEGRADATION.LYSOPHOSPHOLIPASES 45 +18% +29% -29% 11.9.4 LIPID METABOLISM.LIPID DEGRADATION.BETA-OXIDATION 30 +33% +50% +33% 12 N-METABOLISM 22 -36% -27% +32% 13 AMINO ACID METABOLISM 294 +16% +22% +16% 13.1 AMINO ACID METABOLISM.SYNTHESIS 223 +27% +19% +19% 13.1.1 AMINO ACID METABOLISM.SYNTHESIS.CENTRAL AMINO ACID METABOLISM 30 +37% +33% +10% 13.1.1.3 AMINO ACID METABOLISM.SYNTHESIS.CENTRAL AMINO ACID METABOLISM.ALANINE 16 -31% -38% +6% 13.1.3 AMINO ACID METABOLISM.SYNTHESIS.ASPARTATE FAMILY 49 -31% -29% -53% 13.1.3.4 AMINO ACID METABOLISM.SYNTHESIS.ASPARTATE FAMILY.METHIONINE 27 +33% +33% -70% 13.1.4 AMINO ACID METABOLISM.SYNTHESIS.BRANCHED CHAIN GROUP 21 -38% -57% -62% 13.1.5 AMINO ACID METABOLISM.SYNTHESIS.SERINE-GLYCINE-CYSTEINE GROUP 31 +39% +13% +26% 13.1.5.3 AMINO ACID METABOLISM.SYNTHESIS.SERINE-GLYCINE-CYSTEINE GROUP.CYSTEINE 23 -22% -26% +26% 13.1.6 AMINO ACID METABOLISM.SYNTHESIS.AROMATIC AA 64 +41% +36% +30% 13.1.6.1 AMINO ACID METABOLISM.SYNTHESIS.AROMATIC AA.CHORISMATE 17 +53% +35% +24% 13.1.6.5 AMINO ACID METABOLISM.SYNTHESIS.AROMATIC AA.TRYPTOPHAN 28 +21% +39% +46% 13.2 AMINO ACID METABOLISM.DEGRADATION 57 +30% +39% +25% 13.2.3 AMINO ACID METABOLISM.DEGRADATION.ASPARTATE FAMILY 18 +28% +33% +28% 15 METAL HANDLING 69 +22% +29% +9% 15.2 METAL HANDLING.BINDING, CHELATION AND STORAGE 48 +19% +17% -29% 16 SECONDARY METABOLISM 272 +35% +40% +29% 16.1 SECONDARY METABOLISM.ISOPRENOIDS 97 +23% +30% +18% 16.1.1 SECONDARY METABOLISM.ISOPRENOIDS.NON-MEVALONATE PATHWAY 31 +26% +32% +13% 16.1.2 SECONDARY METABOLISM.ISOPRENOIDS.MEVALONATE PATHWAY 19 +26% +37% -37% 16.1.4 SECONDARY METABOLISM.ISOPRENOIDS.CAROTENOIDS 24 -75% -58% +54% 16.1.5 SECONDARY METABOLISM.ISOPRENOIDS.TERPENOIDS 16 +56% +44% -19% 16.2 SECONDARY METABOLISM.PHENYLPROPANOIDS 72 +57% +46% +43% 16.2.1 SECONDARY METABOLISM.PHENYLPROPANOIDS.LIGNIN BIOSYNTHESIS 44 +55% +50% +59% 16.5 SECONDARY METABOLISM.SULFUR-CONTAINING 24 +46% +54% +38% 16.5.1 SECONDARY METABOLISM.SULFUR-CONTAINING.GLUCOSINOLATES 22 +50% +59% +36% 16.5.1.1 SECONDARY METABOLISM.SULFUR-CONTAINING.GLUCOSINOLATES.SYNTHESIS 20 +50% +60% +40% 16.5.1.1.1 SECONDARY METABOLISM.SULFUR-CONTAINING.GLUCOSINOLATES.SYNTHESIS.ALIPHATIC 20 +50% +60% +40% 16.8 SECONDARY METABOLISM.FLAVONOIDS 45 +42% +44% +33% 16.8.3 SECONDARY METABOLISM.FLAVONOIDS.DIHYDROFLAVONOLS 20 +35% +40% -40% 17 HORMONE METABOLISM 361 +24% +25% +42% 17.1 HORMONE METABOLISM.ABSCISIC ACID 51 +29% +57% +63% 17.1.1 HORMONE METABOLISM.ABSCISIC ACID.SYNTHESIS-DEGRADATION 16 +19% +13% +81% 17.1.2 HORMONE METABOLISM.ABSCISIC ACID.SIGNAL TRANSDUCTION 20 +60% +55% +40% 17.2 HORMONE METABOLISM.AUXIN 125 +20% +20% +37% 17.2.2 HORMONE METABOLISM.AUXIN.SIGNAL TRANSDUCTION 29 -52% -45% +38% 17.2.3 HORMONE METABOLISM.AUXIN.INDUCED-REGULATED-RESPONSIVE-ACTIVATED 85 +24% +24% +38% 17.3 HORMONE METABOLISM.BRASSINOSTEROID 42 -17% +31% +52% 17.3.1 HORMONE METABOLISM.BRASSINOSTEROID.SYNTHESIS-DEGRADATION 20 -45% -50% +30% 17.3.2 HORMONE METABOLISM.BRASSINOSTEROID.SIGNAL TRANSDUCTION 21 -14% +43% +71% 17.4 HORMONE METABOLISM.CYTOKININ 18 -33% -11% +56% 17.5 HORMONE METABOLISM.ETHYLENE 68 -24% +13% +18% 17.5.1 HORMONE METABOLISM.ETHYLENE.SYNTHESIS-DEGRADATION 38 +16% +16% +21% 17.5.2 HORMONE METABOLISM.ETHYLENE.SIGNAL TRANSDUCTION 24 -42% -50% -21% 17.6 HORMONE METABOLISM.GIBBERELIN 20 +60% +55% -20% 17.7 HORMONE METABOLISM.JASMONATE 33 +79% +73% +42% 17.7.1 HORMONE METABOLISM.JASMONATE.SYNTHESIS-DEGRADATION 24 +75% +75% +33% 18 CO-FACTOR AND VITAMINE METABOLISM 80 -28% -36% -23% 19 TETRAPYRROLE SYNTHESIS 70 -80% -73% +13% 20.1.2 STRESS.BIOTIC.RECEPTORS 424 +22% +33% +29% 20.1.2.1 STRESS.BIOTIC.RECEPTORS.CC-NBS-LRR 337 -18% +30% +29% 20.1.2.2 STRESS.BIOTIC.RECEPTORS.TIR-NBS-LRR 25 +68% +60% +56% 20.1.3 STRESS.BIOTIC.SIGNALLING 25 +52% +24% -32% 20.1.7 STRESS.BIOTIC.PR-PROTEINS 60 +43% +45% +28% 20.1.7.3 STRESS.BIOTIC.PR-PROTEINS.PR3/4/8/11 (CHITINASES AND CHITIN BINDING PROTEINS) 16 +31% +50% +38% 20.2 STRESS.ABIOTIC 284 +20% +27% +29% 20.2.1 STRESS.ABIOTIC.HEAT 218 +20% +25% +32% 20.2.3 STRESS.ABIOTIC.DROUGHT/SALT 36 +25% +31% +28% 21 REDOX 192 -22% -35% -31% 21.1 REDOX.THIOREDOXIN 71 +46% +20% -27% 21.1.1 REDOX.THIOREDOXIN.PDIL 18 +61% +67% -11% 21.2 REDOX.ASCORBATE AND GLUTATHIONE 68 +26% -28% -37% 21.2.1 REDOX.ASCORBATE AND GLUTATHIONE.ASCORBATE 31 +19% -48% -52% 21.4 REDOX.GLUTAREDOXINS 18 -44% -44% -17% 23 NUCLEOTIDE METABOLISM 178 -26% -29% -34% 23.1 NUCLEOTIDE METABOLISM.SYNTHESIS 38 -50% -63% -55% 23.1.2 NUCLEOTIDE METABOLISM.SYNTHESIS.PURINE 19 -58% -74% -42% 23.2 NUCLEOTIDE METABOLISM.DEGRADATION 28 +32% +36% +21% 23.3 NUCLEOTIDE METABOLISM.SALVAGE 47 -23% -23% -28% 23.3.2 NUCLEOTIDE METABOLISM.SALVAGE.NUCLEOSIDE KINASES 15 -40% -47% +27% 23.3.3 NUCLEOTIDE METABOLISM.SALVAGE.NUDIX HYDROLASES 18 +39% +44% -33% 23.4 NUCLEOTIDE METABOLISM.PHOSPHOTRANSFER AND PYROPHOSPHATASES 49 +10% -33% -47% 24 BIODEGRADATION OF XENOBIOTICS 15 +33% +33% -27% 25 C1-METABOLISM 39 +15% -36% -21% 26.2 MISC.UDP GLUCOSYL AND GLUCORONYL TRANSFERASES 176 +30% +26% +32% 26.3 MISC.GLUCO-, GALACTO- AND MANNOSIDASES 130 +22% +22% +23% 26.3.2 MISC.GLUCO-, GALACTO- AND MANNOSIDASES.BETA-GALACTOSIDASE 17 -41% -35% +29% 26.3.5 MISC.GLUCO-, GALACTO- AND MANNOSIDASES.GLYCOSYL HYDROLASE FAMILY 5 85 +13% +18% +27% 26.4 MISC.BETA 1,3 GLUCAN HYDROLASES 52 +44% +48% -15% 26.4.1 MISC.BETA 1,3 GLUCAN HYDROLASES.GLUCAN ENDO-1,3-BETA-GLUCOSIDASE 44 +30% +48% +14% 26.6 MISC.O-METHYL TRANSFERASES 22 +27% -41% -27% 26.7 MISC.OXIDASES - COPPER, FLAVONE ETC 70 +17% +21% +34% 26.8 MISC.NITRILASES, NITRILE LYASES, BERBERINE BRIDGE ENZYMES, RETICULINE OXIDASES, TROPONINE REDUCTASES 38 +39% +37% +24% 26.9 MISC.GLUTATHIONE S TRANSFERASES 40 +43% +43% +35% 26.10 MISC.CYTOCHROME P450 119 +38% +39% +39% 26.12 MISC.PEROXIDASES 27 +37% +41% +33% 26.13 MISC.ACID AND OTHER PHOSPHATASES 79 +41% +35% +29% 26.18 MISC.INVERTASE/PECTIN METHYLESTERASE INHIBITOR FAMILY PROTEIN 16 -56% -75% -56% 26.19 MISC.PLASTOCYANIN-LIKE 15 +27% +33% +13% 26.21 MISC.PROTEASE INHIBITOR/SEED STORAGE/LIPID TRANSFER PROTEIN (LTP) FAMILY PROTEIN 37 -30% -30% -35% 26.22 MISC.SHORT CHAIN DEHYDROGENASE/REDUCTASE (SDR) 45 +20% +29% +16% 26.24 MISC.GCN5-RELATED N-ACETYLTRANSFERASE 17 +24% +18% +18% 26.27 MISC.CALCINEURIN-LIKE PHOSPHOESTERASE FAMILY PROTEIN 16 +63% +44% +50% 26.28 MISC.GDSL-MOTIF LIPASE 47 -38% -34% -30% 27.1 RNA.PROCESSING 342 -41% -38% +25% 27.1.1 RNA.PROCESSING.SPLICING 90 -33% -7% +31% 27.1.2 RNA.PROCESSING.RNA HELICASE 52 -75% -52% +73% 27.1.3 RNA.PROCESSING.3' END PROCESSING 32 +9% +13% +31% 27.1.19 RNA.PROCESSING.RIBONUCLEASES 50 -32% -36% +8% 27.2 RNA.TRANSCRIPTION 75 +33% +33% -15% 27.3.3 RNA.REGULATION OF TRANSCRIPTION.AP2/EREBP, APETALA2/ETHYLENE-RESPONSIVE ELEMENT BINDING PROTEIN FAMILY 72 +25% +36% +31% 27.3.4 RNA.REGULATION OF TRANSCRIPTION.AUXIN RESPONSE TRANSCRIPTION FACTOR FAMILY (ARF) 29 -45% -24% +59% 27.3.5 RNA.REGULATION OF TRANSCRIPTION.ARR 23 +13% +13% +52% 27.3.6 RNA.REGULATION OF TRANSCRIPTION.BASIC HELIX-LOOP-HELIX FAMILY (BHLH) 119 +21% +34% +40% 27.3.7 RNA.REGULATION OF TRANSCRIPTION.C2C2(ZN) CONSTANS-LIKE ZINC FINGER FAMILY (CO-LIKE) 33 -36% -27% +39% 27.3.8 RNA.REGULATION OF TRANSCRIPTION.C2C2(ZN) DOF ZINC FINGER FAMILY 32 +41% +38% +34% 27.3.9 RNA.REGULATION OF TRANSCRIPTION.C2C2(ZN) GATA TRANSCRIPTION FACTOR FAMILY 30 -27% +30% +43% 27.3.11 RNA.REGULATION OF TRANSCRIPTION.C2H2 ZINC FINGER FAMILY 121 +40% +43% +30% 27.3.12 RNA.REGULATION OF TRANSCRIPTION.C3H ZINC FINGER FAMILY 34 +12% +29% +26% 27.3.20 RNA.REGULATION OF TRANSCRIPTION.G2-LIKE TRANSCRIPTION FACTOR FAMILY (GARP) 15 +27% +40% +20% 27.3.21 RNA.REGULATION OF TRANSCRIPTION.GRAS TRANSCRIPTION FACTOR FAMILY 33 +24% +36% +30% 27.3.22 RNA.REGULATION OF TRANSCRIPTION.HOMEOBOX TRANSCRIPTION FACTOR FAMILY (HB) 60 +23% +33% +45% 27.3.23 RNA.REGULATION OF TRANSCRIPTION.HEAT-SHOCK TRANSCRIPTION FACTOR FAMILY (HSF) 28 +25% +39% +61% 27.3.25 RNA.REGULATION OF TRANSCRIPTION.MYB DOMAIN TRANSCRIPTION FACTOR FAMILY 91 +32% +42% +36% 27.3.26 RNA.REGULATION OF TRANSCRIPTION.MYB-RELATED TRANSCRIPTION FACTOR FAMILY 28 -14% -14% -11% 27.3.27 RNA.REGULATION OF TRANSCRIPTION.NAC DOMAIN TRANSCRIPTION FACTOR FAMILY 47 +34% +38% +53% 27.3.29 RNA.REGULATION OF TRANSCRIPTION.TCP TRANSCRIPTION FACTOR FAMILY 28 -46% +11% +39% 27.3.30 RNA.REGULATION OF TRANSCRIPTION.TRIPLE-HELIX TRANSCRIPTION FACTOR FAMILY (TRIHELIX) 21 +52% +14% +43% 27.3.32 RNA.REGULATION OF TRANSCRIPTION.WRKY DOMAIN TRANSCRIPTION FACTOR FAMILY 53 +60% +66% +30% 27.3.35 RNA.REGULATION OF TRANSCRIPTION.BZIP TRANSCRIPTION FACTOR FAMILY 107 +37% +46% +45% 27.3.40 RNA.REGULATION OF TRANSCRIPTION.AUX/IAA FAMILY 27 -56% +26% +56% 27.3.44 RNA.REGULATION OF TRANSCRIPTION.CHROMATIN REMODELING FACTORS 41 -34% -15% +63% 27.3.50 RNA.REGULATION OF TRANSCRIPTION.GENERAL TRANSCRIPTION 30 -10% -33% -30% 27.3.52 RNA.REGULATION OF TRANSCRIPTION.GLOBAL TRANSCRIPTION FACTOR GROUP 21 -19% -100% +48% 27.3.55 RNA.REGULATION OF TRANSCRIPTION.HDA 18 +44% +39% +28% 27.3.57 RNA.REGULATION OF TRANSCRIPTION.JUMONJI FAMILY 22 -36% +32% +68% 27.3.59 RNA.REGULATION OF TRANSCRIPTION.METHYL BINDING DOMAIN PROTEINS 19 -5% -5% +32% 27.3.60 RNA.REGULATION OF TRANSCRIPTION.NIN-LIKE BZIP-RELATED FAMILY 19 +47% +58% +32% 27.3.63 RNA.REGULATION OF TRANSCRIPTION.PHD FINGER TRANSCRIPTION FACTOR 32 -44% +50% +50% 27.3.67 RNA.REGULATION OF TRANSCRIPTION.PUTATIVE TRANSCRIPTION REGULATOR 148 -43% +9% +36% 27.3.69 RNA.REGULATION OF TRANSCRIPTION.SET-DOMAIN TRANSCRIPTIONAL REGULATOR FAMILY 40 -65% -28% +68% 27.3.99 RNA.REGULATION OF TRANSCRIPTION.UNCLASSIFIED 190 -23% -24% +25% 27.4 RNA.RNA BINDING 240 -18% +28% +37% 28.1 DNA.SYNTHESIS/CHROMATIN STRUCTURE 346 -45% -37% -24% 28.1.1 DNA.SYNTHESIS/CHROMATIN STRUCTURE.RETROTRANSPOSON/TRANSPOSASE 75 +24% -27% -45% 28.1.1.4 DNA.SYNTHESIS/CHROMATIN STRUCTURE.RETROTRANSPOSON/TRANSPOSASE.HAT-LIKE TRANSPOSASE 63 +24% -27% -41% 28.1.3 DNA.SYNTHESIS/CHROMATIN STRUCTURE.HISTONE 55 -56% -69% -67% 28.1.3.2 DNA.SYNTHESIS/CHROMATIN STRUCTURE.HISTONE.CORE 51 -61% -75% -73% 28.1.3.2.3 DNA.SYNTHESIS/CHROMATIN STRUCTURE.HISTONE.CORE.H3 21 -71% -71% -81% 28.1.3.2.4 DNA.SYNTHESIS/CHROMATIN STRUCTURE.HISTONE.CORE.H4 16 -88% -88% -88% 28.2 DNA.REPAIR 110 -41% -28% +36% 28.99 DNA.UNSPECIFIED 158 +20% +33% +31% 29.1 PROTEIN.AA ACTIVATION 80 -49% -35% -36% 29.2.1.1 PROTEIN.SYNTHESIS.RIBOSOMAL PROTEIN.PROKARYOTIC 134 -49% -51% -76% 29.2.1.1.1 PROTEIN.SYNTHESIS.RIBOSOMAL PROTEIN.PROKARYOTIC.CHLOROPLAST 94 -70% -69% -74% 29.2.1.1.1.1 PROTEIN.SYNTHESIS.RIBOSOMAL PROTEIN.PROKARYOTIC.CHLOROPLAST.30S SUBUNIT 27 -74% -78% -67% 29.2.1.1.1.2 PROTEIN.SYNTHESIS.RIBOSOMAL PROTEIN.PROKARYOTIC.CHLOROPLAST.50S SUBUNIT 66 -68% -65% -79% 29.2.1.1.3 PROTEIN.SYNTHESIS.RIBOSOMAL PROTEIN.PROKARYOTIC.UNKNOWN ORGANELLAR 23 -9% -65% -74% 29.2.1.1.3.2 PROTEIN.SYNTHESIS.RIBOSOMAL PROTEIN.PROKARYOTIC.UNKNOWN ORGANELLAR.50S SUBUNIT 16 +100% -69% -88% 29.2.1.2 PROTEIN.SYNTHESIS.RIBOSOMAL PROTEIN.EUKARYOTIC 359 -92% -75% -80% 29.2.1.2.1 PROTEIN.SYNTHESIS.RIBOSOMAL PROTEIN.EUKARYOTIC.40S SUBUNIT 135 -38% -73% -81% 29.2.1.2.2 PROTEIN.SYNTHESIS.RIBOSOMAL PROTEIN.EUKARYOTIC.60S SUBUNIT 223 +98% -75% -79% 29.2.2 PROTEIN.SYNTHESIS.RIBOSOME BIOGENESIS 187 -48% -45% -24% 29.2.2.2 PROTEIN.SYNTHESIS.RIBOSOME BIOGENESIS.ASSEMBLY FACTORS 18 -100% -100% +100% 29.2.2.2.1 PROTEIN.SYNTHESIS.RIBOSOME BIOGENESIS.ASSEMBLY FACTORS.DEXD-BOX HELICASES 16 -100% -100% +100% 29.2.2.3 PROTEIN.SYNTHESIS.RIBOSOME BIOGENESIS.PRE-RRNA PROCESSING AND MODIFICATIONS 150 -55% -50% -26% 29.2.2.3.3 PROTEIN.SYNTHESIS.RIBOSOME BIOGENESIS.PRE-RRNA PROCESSING AND MODIFICATIONS.METHYLOTRANSFERASES 99 -46% -48% -20% 29.2.2.3.4 PROTEIN.SYNTHESIS.RIBOSOME BIOGENESIS.PRE-RRNA PROCESSING AND MODIFICATIONS.WD-REPEAT PROTEINS 19 -63% -47% +21% 29.2.2.3.5 PROTEIN.SYNTHESIS.RIBOSOME BIOGENESIS.PRE-RRNA PROCESSING AND MODIFICATIONS.DEXD-BOX HELICASES 16 -63% -19% +31% 29.2.3 PROTEIN.SYNTHESIS.INITIATION 98 +30% -21% -38% 29.2.4 PROTEIN.SYNTHESIS.ELONGATION 44 -98% -100% +14% 29.3 PROTEIN.TARGETING 317 +35% +26% -21% 29.3.1 PROTEIN.TARGETING.NUCLEUS 62 -27% -13% +53% 29.3.2 PROTEIN.TARGETING.MITOCHONDRIA 30 +30% +20% -47% 29.3.3 PROTEIN.TARGETING.CHLOROPLAST 38 -71% -63% -32% 29.3.4 PROTEIN.TARGETING.SECRETORY PATHWAY 152 +51% +45% -24% 29.3.4.1 PROTEIN.TARGETING.SECRETORY PATHWAY.ER 18 +44% +56% -22% 29.3.4.2 PROTEIN.TARGETING.SECRETORY PATHWAY.GOLGI 17 +65% +47% +24% 29.3.4.3 PROTEIN.TARGETING.SECRETORY PATHWAY.VACUOLE 28 +36% +57% +21% 29.3.4.99 PROTEIN.TARGETING.SECRETORY PATHWAY.UNSPECIFIED 78 +55% +45% -24% 29.3.5 PROTEIN.TARGETING.PEROXISOMES 18 +11% -100% -22% 29.4.1 PROTEIN.POSTRANSLATIONAL MODIFICATION.KINASE 368 +27% +36% +34% 29.4.1.57 PROTEIN.POSTRANSLATIONAL MODIFICATION.KINASE.RECEPTOR LIKE CYTOPLASMATIC KINASE VII 48 +31% +38% -17% 29.5.1 PROTEIN.DEGRADATION.SUBTILASES 40 +20% +33% +33% 29.5.2 PROTEIN.DEGRADATION.AUTOPHAGY 22 +64% +41% +36% 29.5.3 PROTEIN.DEGRADATION.CYSTEINE PROTEASE 48 +48% +42% +40% 29.5.4 PROTEIN.DEGRADATION.ASPARTATE PROTEASE 48 -25% +38% +38% 29.5.5 PROTEIN.DEGRADATION.SERINE PROTEASE 75 +19% +20% -16% 29.5.7 PROTEIN.DEGRADATION.METALLOPROTEASE 42 -55% -40% +40% 29.5.9 PROTEIN.DEGRADATION.AAA TYPE 25 +28% +32% +12% 29.5.11.1 PROTEIN.DEGRADATION.UBIQUITIN.UBIQUITIN 38 +42% +37% -55% 29.5.11.3 PROTEIN.DEGRADATION.UBIQUITIN.E2 53 +72% +28% -53% 29.5.11.4.1 PROTEIN.DEGRADATION.UBIQUITIN.E3.HECT 15 +100% +73% +87% 29.5.11.4.2 PROTEIN.DEGRADATION.UBIQUITIN.E3.RING 423 +32% +35% +37% 29.5.11.4.3 PROTEIN.DEGRADATION.UBIQUITIN.E3.SCF 240 -15% +21% +36% 29.5.11.4.3.2 PROTEIN.DEGRADATION.UBIQUITIN.E3.SCF.FBOX 219 -16% +22% +39% 29.5.11.4.5 PROTEIN.DEGRADATION.UBIQUITIN.E3.BTB/POZ CULLIN3 23 +26% +48% +48% 29.5.11.4.5.2 PROTEIN.DEGRADATION.UBIQUITIN.E3.BTB/POZ CULLIN3.BTB/POZ 17 +18% +47% +53% 29.5.11.5 PROTEIN.DEGRADATION.UBIQUITIN.UBIQUITIN PROTEASE 47 +32% +36% +51% 29.5.11.20 PROTEIN.DEGRADATION.UBIQUITIN.PROTEASOM 78 +79% +60% -50% 29.6 PROTEIN.FOLDING 99 -22% -32% -56% 29.7 PROTEIN.GLYCOSYLATION 62 +47% +45% -40% 29.8 PROTEIN.ASSEMBLY AND COFACTOR LIGATION 36 -31% -47% -22% 30.1 SIGNALLING.IN SUGAR AND NUTRIENT PHYSIOLOGY 41 +39% +46% +32% 30.1.1 SIGNALLING.IN SUGAR AND NUTRIENT PHYSIOLOGY.MISC 39 +41% +49% +33% 30.2.2 SIGNALLING.RECEPTOR KINASES.LEUCINE RICH REPEAT II 19 -21% -26% +58% 30.2.3 SIGNALLING.RECEPTOR KINASES.LEUCINE RICH REPEAT III 45 -60% -53% +44% 30.2.6 SIGNALLING.RECEPTOR KINASES.LEUCINE RICH REPEAT VI 32 -50% -44% -47% 30.2.8 SIGNALLING.RECEPTOR KINASES.LEUCINE RICH REPEAT VIII 23 +13% +30% +26% 30.2.10 SIGNALLING.RECEPTOR KINASES.LEUCINE RICH REPEAT X 24 +42% +54% +58% 30.2.11 SIGNALLING.RECEPTOR KINASES.LEUCINE RICH REPEAT XI 46 +15% +35% +52% 30.2.12 SIGNALLING.RECEPTOR KINASES.LEUCINE RICH REPEAT XII 15 -20% -20% +47% 30.2.16 SIGNALLING.RECEPTOR KINASES.CATHARANTHUS ROSEUS-LIKE RLK1 28 -18% +21% +36% 30.2.17 SIGNALLING.RECEPTOR KINASES.DUF 26 72 +22% +33% -25% 30.2.19 SIGNALLING.RECEPTOR KINASES.LEGUME-LECTIN 25 +68% +68% +52% 30.2.24 SIGNALLING.RECEPTOR KINASES.S-LOCUS GLYCOPROTEIN LIKE 26 +42% +42% +54% 30.2.99 SIGNALLING.RECEPTOR KINASES.MISC 23 +22% +30% +39% 30.3 SIGNALLING.CALCIUM 238 +26% +33% -16% 30.4 SIGNALLING.PHOSPHINOSITIDES 58 +10% +64% +50% 30.4.1 SIGNALLING.PHOSPHINOSITIDES.PHOSPHATIDYLINOSITOL-4-PHOSPHATE 5-KINASE 22 -45% +59% +82% 30.5 SIGNALLING.G-PROTEINS 251 +18% +22% +9% 30.6 SIGNALLING.MAP KINASES 70 +27% +40% +40% 30.7 SIGNALLING.14-3-3 PROTEINS 21 +100% -100% +19% 30.11 SIGNALLING.LIGHT 137 -26% +24% +47% 30.11.1 SIGNALLING.LIGHT.COP9 SIGNALOSOME 15 +53% +40% +33% 30.99 SIGNALLING.UNSPECIFIED 16 +25% +25% +44% 31.1 CELL.ORGANISATION 348 -25% -26% +26% 31.2 CELL.DIVISION 104 +14% +30% +32% 31.3 CELL.CYCLE 105 -27% -23% -37% 31.3.1 CELL.CYCLE.PEPTIDYLPROLYL ISOMERASE 38 +53% -34% -45% 31.4 CELL.VESICLE TRANSPORT 177 +35% +50% -19% 31.5 CELL.CELL DEATH 20 +10% +10% +30% 33 DEVELOPMENT 492 +16% +16% +21% 33.1 DEVELOPMENT.STORAGE PROTEINS 16 +50% +50% +63% 33.2 DEVELOPMENT.LATE EMBRYOGENESIS ABUNDANT 20 +35% -25% -25% 33.3 DEVELOPMENT.SQUAMOSA PROMOTER BINDING LIKE (SPL) 23 +13% +26% +57% 33.99 DEVELOPMENT.UNSPECIFIED 426 +17% +14% +24% 34.1 TRANSPORT.P- AND V-ATPASES 65 +46% +25% +20% 34.1.1 TRANSPORT.P- AND V-ATPASES.H+-TRANSPORTING TWO-SECTOR ATPASE 26 +65% +100% -65% 34.2 TRANSPORT.SUGARS 53 +30% +32% +32% 34.3 TRANSPORT.AMINO ACIDS 57 +35% +42% +32% 34.4 TRANSPORT.NITRATE 15 +40% +53% +47% 34.7 TRANSPORT.PHOSPHATE 18 +28% +33% +17% 34.8 TRANSPORT.METABOLITE TRANSPORTERS AT THE ENVELOPE MEMBRANE 41 -37% +12% +27% 34.9 TRANSPORT.METABOLITE TRANSPORTERS AT THE MITOCHONDRIAL MEMBRANE 87 -31% +14% +28% 34.10 TRANSPORT.NUCLEOTIDES 16 +38% +44% +31% 34.12 TRANSPORT.METAL 82 +23% +48% +41% 34.13 TRANSPORT.PEPTIDES AND OLIGOPEPTIDES 46 +37% +41% +43% 34.14 TRANSPORT.UNSPECIFIED CATIONS 48 -19% +13% +33% 34.15 TRANSPORT.POTASSIUM 51 -22% +33% +43% 34.16 TRANSPORT.ABC TRANSPORTERS AND MULTIDRUG RESISTANCE SYSTEMS 98 +16% +23% +40% 34.18 TRANSPORT.UNSPECIFIED ANIONS 29 -21% +38% +41% 34.19 TRANSPORT.MAJOR INTRINSIC PROTEINS 40 +52% +33% +30% 34.19.1 TRANSPORT.MAJOR INTRINSIC PROTEINS.PIP 22 +55% +45% +64% 34.22 TRANSPORT.CYCLIC NUCLEOTIDE OR CALCIUM REGULATED CHANNELS 19 +42% +32% +26% 34.99 TRANSPORT.MISC 81 +44% +23% +6% 35.1.3 NOT ASSIGNED.NO ONTOLOGY.ARMADILLO/BETA-CATENIN REPEAT FAMILY PROTEIN 22 +18% +18% +23% 35.1.5 NOT ASSIGNED.NO ONTOLOGY.PENTATRICOPEPTIDE (PPR) REPEAT-CONTAINING PROTEIN 344 -62% -41% +38% 35.1.27 NOT ASSIGNED.NO ONTOLOGY.TETRATRICOPEPTIDE REPEAT (TPR) 177 -39% -32% +32% 35.1.40 NOT ASSIGNED.NO ONTOLOGY.GLYCINE RICH PROTEINS 17 +53% +59% +47% 35.1.41 NOT ASSIGNED.NO ONTOLOGY.HYDROXYPROLINE RICH PROTEINS 35 -14% -17% +37% 35.1.42 NOT ASSIGNED.NO ONTOLOGY.PROLINE RICH FAMILY 16 +31% +19% +6%
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Created: 11th Apr 2022 at 13:41
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Version 1 (earliest) Created 11th Apr 2022 at 13:41 by Marko Petek
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https://orcid.org/0000-0003-3644-7827PhD in Biotechnology, Research Associate at Department of Biotechnology and Systems Biology, National Institute of Biology
Advanced Programmes list for this Data file with search and filtering
National Institute of Biology, Department of Biotechnology and Systems Biology projects
Projects: HYp - Spatiotemporal analysis of hypersensitive response to Potato virus Y in potato, pISA-tree, MOA - Multiomics analysis of potato response to Potato virus Y (PVY) infection, SUSPHIRE - Sustainable Bioproduction of Pheromones for Insect Pest Control in Agriculture, INDIE - Biotechnological production of sustainable indole, _p_stRT, ADAPT - Accelerated Development of multiple-stress tolerAnt PoTato, _p_RNAinVAL, tst, tst2, Playground
Web page: http://www.nib.si/eng/index.php/departments/department-of-biotechnology-and-systems-biology
Advanced Projects list for this Data file with search and filtering
SUSPHIRE aims to provide a sustainable, low-cost biomanufacturing platform for the commercial production of insect pheromones.
Synthetic biology data management spreadsheet: https://fairdomhub.org/data_files/6036
Programme: NIBSys
Public web page: http://susphire.info/susphireproject/
Start date: 1st Apr 2018
End date: 30th Sep 2021
Advanced Investigations list for this Data file with search and filtering
Short Name: T21_SXPsysbio Title: Use a systems biology approach to identify regulatory bottlenecks in SxPv1 Description: Samples from SXPv1.0 plants as well as sister nulls (progeny from the original transgenic event in which the transgene has segregated) and wild type will be grown and leaf samples taken for RNA extraction and profiling of primary metabolites and volatiles (target pheromones as well as potential derivatives) (P1, P5). Phenotypic and GC-MS data will be obtained and analysed from ...
Submitter: Marko Petek
Studies: Investigation files, _S_P1_SPv10T0andT1, _S_P1_SPv10T2andT3, _S_P1_SPv1TransientExp, _S_P1_SxPAltAcTransferases, _S_P1_SxPv10vsSxP12, _S_P1_SxPv12T2, _S_P4_CoExpNetViz, _S_P4_DiNAR, _S_P4_GAtreat, _S_P4_SxP10-newG-DE, _S_P4_SxP10-oldG-DE, _S_P4_SxP1012-finalG, _S_P4_SxP12-newG-DE
Assays: _A_00_SxP_photos-phenotyping, _A_01_RNA1-RNAisol, _A_01_SxP_Data_Only-CoExp, _A_01_SxPv12_fastq-QC, _A_01_mapping-CLC, _A_01_toNewGenome-CLC-mapping, _A_02_FastQC-bioinfo, _A_02_Nb_datasets-CoExp, _A_02_SxPv12_mapping-CLC, _A_02_limmavoomDE-R, _A_02a_limmavoom-multim-R, _A_02a_limmavoomDEbylines-R, _A_02b_limmavoom-uniquem-R, _A_03_MapMan-visualisation, _A_03_NewGenome-MapMan, _A_03_SxPv12_limmavoom_DE-R, _A_03_mapping-CLC, _A_03a_mapping2-STAR, _A_04_GSEA-Stat, _A_04_MapManBINenrich-GSEA, _A_04_Mercator-bioinfo, _A_04_SxPv12_GeneSetEnrichment-RNAseg-GSEA, _A_05_DEstat-R, _A_05_Phenotype_analysis-Stat, _A_05_VOCcomp-Bioinfo, _A_05a_DEstat2-R, _A_05b_DElow-wt-R, _A_06_MapMan-bioinfo, _A_06_SxPv1-0_Illumina-Centrifuge, _A_07_NbAUSv1-0-InterPro, _A_07_transgenes-CLC, _A_CKN-DiNAR, _A_CKN_NbL35-DiNAR, _A_LeavesSxPv10vsv12-GCMS, _A_P4_v10v12-phenotyping, _A_PIS-DiNAR, _A_PIS-SxPv12-DiNAR, _A_PIS_NbL35-DiNAR, _A_RootsSxPv10vsv12-GCMS, _A_SP10T0Analysis-GCMS, _A_SP10T1Analysis-GCMS, _A_SPv10EaDActAnalysis-GCMS, _A_SPv10T2Analysis-GCMS, _A_SPv10T3Analysis-GCMS, _A_SPv10_phenotyping-Images, _A_SxPAlternativeAcetyltransferases-GCMS, _A_SxPv10vsv12-phenotyping, _A_SxPv12ScreeningT2-GCMS, _A_TransientSPv11andSPv12-GCMS, _I_T21_SXPsysbio-files, _S_P1_SPv10T0andT1-files, _S_P1_SPv10T2andT3-files, _S_P1_SPv1TransientExp-files, _S_P1_SxPAltAcTransferases-files, _S_P1_SxPv10vsSxP12-files, _S_P1_SxPv12T2-files, _S_P4_CoExpNetViz-files, _S_P4_DiNAR-files, _S_P4_GAtreat-files, _S_P4_SxP10-newG-DE-files, _S_P4_SxP10-oldG-DE-files, _S_P4_SxP1012-finalG-files, _S_P4_SxP12-newG-DE-files
Advanced Studies list for this Data file with search and filtering
Short Name: P4_SxP10-newG-DE Title: SxPv1.0 RNA-seq analysis using the new Nb genome Description: Analysis of RNA-seq data (Illumina short reads) of two lines of SexyPlants (SxP v1.0) utilising the not yet published now high quality genome of Nicotiana benthamiana from the Newcotiana project. Raw Data: Principal investigator: Ĺ pela Baebler License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_T21_SXPsysbio
Assays: _A_01_toNewGenome-CLC-mapping, _A_02_limmavoomDE-R, _A_02a_limmavoomDEbylines-R, _A_03_NewGenome-MapMan, _A_04_GSEA-Stat, _A_05_Phenotype_analysis-Stat, _A_06_SxPv1-0_Illumina-Centrifuge, _A_07_NbAUSv1-0-InterPro, _S_P4_SxP10-newG-DE-files
Advanced Assays list for this Data file with search and filtering
Short Name: 04_GSEA-Stat Assay Class: DRY Assay Type: Stat Title: GSEA analysis of SxP data Description: Gene sets: MapMan3 BINs from mapping of NbV1 genome, Data: TMM-normalized total counts of mapping SxPv1.0 data to NbV1 genome. pISA Assay creation date: 2020-01-31 pISA Assay creator: Mojca Juteršek Analyst: Mojca Juteršek Phenodata: ../../phenodata_20181212.xlsx Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_T21_SXPsysbio
Study: _S_P4_SxP10-newG-DE
