input/4_PIS_dinar_comparison_h2-wt.txt Version 1
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-DiNAR/
SEEK ID: https://fairdomhub.org/data_files/5115?version=1
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input/4_PIS_dinar_comparison_h2-wt.txt
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probeID clade LogFC_h2.wt pAdj_h2.wt g15680 4CLL 2.47 2e-04 g7226 ACH 1 0.0012 g94763 ACO 3.7 0.0372 g110 ACS1,2,6 2.3 0.0027 g98107 ACX1,5 0.79 0.0161 g74214 ADT 1.99 1e-04 g48179 AGO1,5,7,10 1.87 0.0353 g24790 AOC 2.18 0.0013 g68176 AOS 2.56 4e-04 g74581 APX1,2 -1 0.0393 g58109 APX3 -1.1 0.029 g41270 APX4 -3.38 0.0018 g58903 ASK 0.69 0.0467 g46963 ATPB -0.74 0.1608 g73355 bHLH 0.68 0.0176 g48033 CAMTA 0.67 0.0085 g81197 CAT1,2,3 1.39 0.0173 g47201 CLH -2.35 0.0023 g22769 CM 1.15 0.0232 g2366 CML42 1 0.0873 g33598 COI1 0.45 0.1325 g115444 CPK4,5,6,11 0.4 0.0812 g60724 CRT1,2 1.34 0.0043 g96456 CRT3 0.8 0.0092 g103432 CTR -0.49 0.1184 g29012 CTS 0.44 0.0363 g90041 CUL 0.28 0.2497 g8133 CYP94 1.62 0.0018 g86929 DXPS 6.27 7e-04 g14686 EBF -0.66 0.0906 g12642 EDF -1.51 0.0119 g29542 EIN2 0.97 0.0175 g90995 EIN3(EIL1) 1.59 0.0107 g1650 ERF1,2 -1.48 0.0266 g97252 ERF104 -1.66 0.0034 g37276 ERF105 0.31 0.6315 g64272 ETR -1.12 8e-04 g33365 GRAS2 1.01 0.0087 g119629 GST 1.52 0.0036 g67142 HMA 2 0.0433 g92328 ICS -0.78 0.0713 g99312 JAR 1.38 0.0044 g94936 JAZ1,2,5,6 3.82 1e-04 g33245 JMT 1.32 0.005 g21233 LOX 4.17 0.0015 g47512 MES 0.13 0.7179 g70445 MFP 0.95 0.0126 g110094 MIND1 -0.45 0.1516 g9063 MOS 0.68 0.0017 g97771 MPK4 -0.66 0.061 g8740 MPK6 0.33 0.0409 g2832 MYB113 5.36 0.0169 g34850 MYB44,70,73 2.53 0.0037 g99248 MYC 2.08 0.0084 g73486 NADPH-oxidase 1.79 2e-04 g119355 NDA -2.28 0.0105 g23352 NDB 2.38 0.0028 g97425 NDC -0.78 0.0017 g120824 OMR1 2.66 2e-04 g65921 OPR 2.42 0.0012 g114938 PA -0.34 0.2256 g120999 PAL 4.09 0 g87733 PR1 9.18 0.0402 g24398 PR3 5.83 1e-04 g60136 PR4 4.76 0.0094 g8456 PSAK -3.11 0.023 g119538 RBCL -0.33 0.3354 g24746 RBCS -4.57 0.0046 g125569 RGA1,2 -0.66 0.003 g99438 RH 0.37 0.0831 g98443 RTE1 -1.77 0.0017 g64887 SAHH -0.81 0.057 g60842 SAMS 0.84 0.0105 g61550 SERK 0.95 0.0058 g95192 SOD -2.27 7e-04 g88154 TGA2,5,6 0.86 0.0133 g132812 TRX-H 0.45 0.395 g128834 WAK 1.6 0.0213 g110530 WD40 1.51 8e-04 g18994 WRKY11,17 1.64 0.0011
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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
