input/3_PIS_dinar_comparison_h1-wt.txt Version 1
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-DiNAR/
SEEK ID: https://fairdomhub.org/data_files/5114?version=1
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input/3_PIS_dinar_comparison_h1-wt.txt
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probeID clade LogFC_h1.wt pAdj_h1.wt g15680 4CLL 2.63 1e-04 g7226 ACH 0.79 0.0039 g94763 ACO 4.52 0.0113 g110 ACS1,2,6 2.05 0.0046 g98107 ACX1,5 0.97 0.0041 g74214 ADT 2.07 1e-04 g48179 AGO1,5,7,10 0.97 0.2827 g24790 AOC 1.45 0.0097 g68176 AOS 1.95 0.0015 g74581 APX1,2 -0.51 0.2659 g58109 APX3 -0.52 0.2802 g41270 APX4 -4.02 7e-04 g58903 ASK 1.21 0.0018 g46963 ATPB -1.32 0.021 g73355 bHLH 0.54 0.0443 g48033 CAMTA 0.6 0.0132 g81197 CAT1,2,3 1.91 0.0019 g47201 CLH -3.96 0.0014 g22769 CM 0.36 0.4821 g2366 CML42 1.14 0.0463 g33598 COI1 0.66 0.0267 g115444 CPK4,5,6,11 0.83 0.0015 g60724 CRT1,2 0.63 0.12 g96456 CRT3 0.97 0.0024 g103432 CTR -1.24 0.0018 g29012 CTS 0.37 0.064 g90041 CUL 0.51 0.0328 g8133 CYP94 2.53 1e-04 g86929 DXPS 5.07 0.0019 g14686 EBF -0.96 0.0152 g12642 EDF -2.29 0.001 g29542 EIN2 0.93 0.018 g90995 EIN3(EIL1) 1.77 0.0046 g1650 ERF1,2 -1.89 0.0099 g97252 ERF104 -1.05 0.0301 g37276 ERF105 1.12 0.0424 g64272 ETR -1.12 8e-04 g33365 GRAS2 1.01 0.0074 g119629 GST 2.55 2e-04 g67142 HMA -0.02 0.9884 g92328 ICS -0.93 0.0321 g99312 JAR 1.54 0.0018 g94936 JAZ1,2,5,6 3.66 2e-04 g33245 JMT 0.27 0.5289 g21233 LOX 2.63 0.0103 g47512 MES 0.91 0.0131 g70445 MFP 1.04 0.006 g110094 MIND1 -0.8 0.0121 g9063 MOS 0.57 0.0042 g97771 MPK4 -1.11 0.0063 g8740 MPK6 0.28 0.0692 g2832 MYB113 4.72 0.0274 g34850 MYB44,70,73 2.16 0.0082 g99248 MYC 2.29 0.0037 g73486 NADPH-oxidase 1.88 1e-04 g119355 NDA -2.81 0.0025 g23352 NDB 1.99 0.0072 g97425 NDC -0.42 0.0462 g120824 OMR1 2.55 2e-04 g65921 OPR 1.38 0.0285 g114938 PA -0.76 0.0105 g120999 PAL 3.43 0 g87733 PR1 8.65 0.044 g24398 PR3 5.47 1e-04 g60136 PR4 4.06 0.0181 g8456 PSAK -4.38 0.0022 g119538 RBCL -0.72 0.0347 g24746 RBCS -5.11 0.0017 g125569 RGA1,2 -0.81 8e-04 g99438 RH 0.49 0.0225 g98443 RTE1 -2.42 3e-04 g64887 SAHH -1.21 0.0054 g60842 SAMS 0.9 0.0057 g61550 SERK 0.98 0.0037 g95192 SOD -2.12 8e-04 g88154 TGA2,5,6 1.1 0.0024 g132812 TRX-H 1.16 0.0269 g128834 WAK 0.78 0.2745 g110530 WD40 1.29 0.0017 g18994 WRKY11,17 1.75 7e-04
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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
