input/2_PIS_dinar_comparison_l2-wt.txt Version 1
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-DiNAR/
SEEK ID: https://fairdomhub.org/data_files/5113?version=1
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input/2_PIS_dinar_comparison_l2-wt.txt
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probeID clade LogFC_l2.wt pAdj_l2.wt g15680 4CLL 0.78 0.2533 g7226 ACH 0.21 0.6012 g94763 ACO 0.37 0.9211 g110 ACS1,2,6 0.64 0.5561 g98107 ACX1,5 0.2 0.6621 g74214 ADT 0.75 0.1607 g48179 AGO1,5,7,10 0.72 0.6322 g24790 AOC 0.67 0.4009 g68176 AOS 0.8 0.3255 g74581 APX1,2 -0.97 0.1949 g58109 APX3 -0.51 0.5001 g41270 APX4 -0.9 0.5363 g58903 ASK 0.02 0.9719 g46963 ATPB 0.19 0.8201 g73355 bHLH -0.23 0.5682 g48033 CAMTA 0.46 0.2285 g81197 CAT1,2,3 0.25 0.8059 g47201 CLH 0.12 0.9075 g22769 CM 0.09 0.9291 g2366 CML42 -0.65 0.6025 g33598 COI1 0.39 0.4009 g115444 CPK4,5,6,11 0.1 0.7863 g60724 CRT1,2 -0.24 0.7205 g96456 CRT3 0.12 0.8044 g103432 CTR 0.47 0.3086 g29012 CTS 0.41 0.1971 g90041 CUL 0.08 0.8484 g8133 CYP94 1.03 0.1264 g86929 DXPS 1.8 0.4294 g14686 EBF 0.41 0.4935 g12642 EDF 0.28 0.7556 g29542 EIN2 -0.2 0.7881 g90995 EIN3(EIL1) 0.84 0.3475 g1650 ERF1,2 -0.74 0.3988 g97252 ERF104 -0.96 0.2112 g37276 ERF105 -0.2 0.8693 g64272 ETR -0.03 0.9342 g33365 GRAS2 0.5 0.3975 g119629 GST 0.28 0.6918 g67142 HMA 0.9 0.5602 g92328 ICS 0.26 0.6814 g99312 JAR 0.6 0.3779 g94936 JAZ1,2,5,6 0.88 0.4258 g33245 JMT -0.33 0.6214 g21233 LOX 1.17 0.4002 g47512 MES 0.27 0.6202 g70445 MFP 0.11 0.8636 g110094 MIND1 -0.11 0.8271 g9063 MOS 0.01 0.9721 g97771 MPK4 0.34 0.4548 g8740 MPK6 -0.07 0.7908 g2832 MYB113 2 0.5954 g34850 MYB44,70,73 -1.24 0.5271 g99248 MYC 0.67 0.6038 g73486 NADPH-oxidase 0.4 0.4775 g119355 NDA -0.02 0.9897 g23352 NDB 0.02 0.9932 g97425 NDC 0.18 0.5847 g120824 OMR1 1.36 0.0539 g65921 OPR 1.02 0.3216 g114938 PA -0.43 0.3408 g120999 PAL 1.42 0.0285 g87733 PR1 2.44 0.7412 g24398 PR3 1.52 0.2071 g60136 PR4 0.31 0.9326 g8456 PSAK -0.7 0.7628 g119538 RBCL 0.35 0.4981 g24746 RBCS -0.88 0.7385 g125569 RGA1,2 -0.13 0.6661 g99438 RH 0.32 0.3371 g98443 RTE1 0.27 0.7234 g64887 SAHH -0.59 0.3754 g60842 SAMS 0.4 0.3992 g61550 SERK 0.46 0.3723 g95192 SOD -0.6 0.4192 g88154 TGA2,5,6 0.28 0.5829 g132812 TRX-H 0.06 0.9497 g128834 WAK 1.27 0.2452 g110530 WD40 -0.05 0.937 g18994 WRKY11,17 -0.27 0.7313
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Created: 9th Apr 2022 at 20:16
Last updated: 21st Sep 2022 at 10:45
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Version 1 (earliest) Created 9th Apr 2022 at 20:16 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
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
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
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
Short Name: DiNAR Title: DiNAR analyses of SxP DE data Description: DiNAR visualisation of SxPv1.0 and SxPv1.2 expressoin data in either PIS or CKN networks. 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_CKN-DiNAR, _A_CKN_NbL35-DiNAR, _A_PIS-DiNAR, _A_PIS-SxPv12-DiNAR, _A_PIS_NbL35-DiNAR, _S_P4_DiNAR-files
Short Name: PIS-DiNAR Assay Class: DRY Assay Type: DiNAR Title: SxP v1.0 DE genes visualised in DiNAR Description: Visualisation of DE genes from SxPv1.0 data in PIS network. Mapping to genome v1, contrasts by lines (low1, low2, high1, high2) pISA Assay creation date: 2020-12-15 pISA Assay creator: Mojca Juteršek Phenodata: None Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_T21_SXPsysbio
Study: _S_P4_DiNAR
