input/Prioritization_filteredRBB/output/organism_NGS_to_PIS/PIS_dinar_comparison_high10-wt.txt Version 1
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
SEEK ID: https://fairdomhub.org/data_files/5561?version=1
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input/Prioritization_filteredRBB/output/organism_NGS_to_PIS/PIS_dinar_comparison_high10-wt.txt
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probeID clade LogFC_high10.wt pAdj_high10.wt NbL01g24240 4CLL 2.73 0 NbL07g08900 AAO -1 0.0022 NbL14g31500 ACH 1.02 2e-04 NbL10g03910 ACO 4.76 0.0011 NbL13g00560 ACS1,2,6 2.19 6e-04 NbL10g26760 ACS10 -1.3 0 NbL06g18000 ACS12 -0.5 0.011 NbL15g12390 ACX1,5 1.82 0 NbL02g01390 ACX2 1.96 0.0323 NbL18g05560 ACX3,6 0.98 0.0013 NbL15g03330 ACX4 0.8 0.026 NbL19g15530 ADT -2.7 6e-04 NbL06g12570 AGO1,5,7,10 0.49 0.0061 NbL09g13630 AGO4,6,8,9 -1.54 0 NbL19g28690 AOC 1.25 0.0025 NbL17g11130 AOS 2.44 4e-04 NbL10g23270 AOX1 0.77 0.0026 NbL02g10730 APK 0.51 0.0297 NbL03g08950 APX-TS -1.01 0 NbL05g05650 APX1,2 0.83 0.0226 NbL18g12260 APX3 -0.88 0 NbL11g16060 APX4 -4.13 0 NbL07g18370 APX6 -1.03 0 NbL10g05120 ARF1..22 1.12 0.001 NbL02g24980 ARF3 -0.18 0.4121 NbL07g21730 ARF4 -0.56 0.0183 NbL09g29080 ASK 1.33 2e-04 NbL01g18610 ATPB 0.76 0.0048 NbL15g00040 BRI1 0.95 4e-04 NbL15g21820 BRL 2.09 0 NbL01g07870 C19-GA2ox 2.68 0.0129 NbL12g21430 CAMTA 0.56 0.009 NbL03g16380 CAT1,2,3 1.92 0.0092 NbL09g18700 CLH -0.57 0.0452 NbL13g23270 CM 0.45 0.0109 NbL01g19070 CML42 0.95 0.0045 NbL10g14460 COI1 0.18 0.3685 NbL03g03250 CPK1 -0.12 0.6533 NbL04g17150 CPK15 -0.01 0.9753 NbL16g29590 CPK29 -1.23 0.0171 NbL12g19930 CPK4,5,6,11 0.73 0.004 NbL05g10880 CPK9 -1.42 9e-04 NbL18g13500 CRT1,2 -0.03 0.9391 NbL10g10300 CRT3 1.23 0 NbL05g03430 CTR 0.37 0.1655 NbL02g01570 CTS 0.41 0.0254 NbL09g18350 CUL 0.66 6e-04 NbL14g27350 CYP94 2.26 0 NbL15g29060 DNAJ 1.17 1e-04 NbL04g14050 DXPS -2.05 0.0178 NbL10g00840 EBF -0.61 0.0056 NbL01g17390 EDF -2.44 1e-04 NbL09g28720 EDS5 0.81 2e-04 NbL15g30150 EIN2 0.91 0.0098 NbL09g13830 EIN3(EIL1) 1.35 0 NbL16g21160 EMS -1.78 2e-04 NbL09g00220 ETR 0 0 NbL16g21790 GA20ox -5.91 2e-04 NbL15g13250 GA3ox 4.38 0.0225 NbL18g10530 GID1a,b,c 3.36 6e-04 NbL17g32670 GPX 1.11 0.0223 NbL03g02560 GRAS2 -0.12 0.46 NbL04g04790 GSNO 0.67 0.0116 NbL12g00740 GST 2.54 0 NbL17g32640 HMA 0 0 NbL02g12040 HMGR 1.79 0.0014 NbL18g26530 HSP17,18 1.2 0.0045 NbL16g29790 HSP90 1.39 2e-04 NbL09g07710 ICS -1.25 3e-04 NbL08g04130 IEGT 1.94 0 NbL10g24390 JAR 1.77 0 NbL19g29560 JMT 4.35 0.085 NbL04g05200 KAT 2.07 0 NbL07g13220 KS 2.39 0.0085 NbL16g19850 LOX 0 0 NbL16g34760 LRR -2.89 0 NbL04g08960 MES 0.85 0.0151 NbL15g25870 MFP 1.67 2e-04 NbL16g15670 MKK3 0.55 0.0054 NbL08g15160 MOS 0.91 0.0013 NbL01g04090 MPK13 0.28 0.2524 NbL12g03150 MPK3 -0.21 0.6895 NbL10g28220 MPK4 -0.74 0.0023 NbL18g22980 MPK6 0.52 0.0306 NbL15g25320 NAC19,55,72 1.49 0.059 NbL17g33490 NADPH-oxidase 2.14 0 NbL19g08990 NAK 1.42 0.004 NbL12g02250 NDA -3.3 0 NbL02g26510 NDB 2.43 5e-04 NbL10g14540 NDC -0.68 0.0041 NbL01g12100 NIK -1.82 0 NbL11g22460 NPR 2.84 0 NbL10g12580 OBE 0.92 0.0078 NbL09g23990 OMR1 -1.07 0 NbL17g02560 OPR 1.25 2e-04 NbL12g21970 PA -0.59 0.0105 NbL14g03190 PAA 0.67 9e-04 NbL08g31120 PAL 3.84 0.0042 NbL13g19640 PBB 1.36 4e-04 NbL16g21060 PBE 0.72 0.0019 NbL14g19230 PPL -5.09 0 NbL08g00470 PR1 9.1 0.1551 NbL06g21250 PR3 0 0 NbL08g11760 PR4 5.29 0.0418 NbL14g25990 PSAK -3.77 1e-04 NbL18g03130 RANGAP -0.9 0.009 NbL07g09390 RAR1 0.77 0.0034 NbL02g19000 RBCS -4.13 0 NbL14g03160 RBX -0.54 0.0979 NbL05g24950 RGA1,2 -1.11 0 NbL10g24850 RH 0.41 0.007 NbL07g15420 RPL17 -0.6 0.07 NbL07g17000 RPL7 0 0 NbL08g30600 SAHH -1.25 0.0025 NbL02g00660 SAMC -1.43 0 NbL05g04540 SAMS 0 0 NbL16g24960 SERK 0.68 0.0014 NbL16g19960 SGT1 0.93 1e-04 NbL17g09960 SOD -1.61 4e-04 NbL19g11630 SR1IP 0 0 NbL07g00220 TDX 0.51 0.0181 NbL12g22250 TGA1,4 5.33 0.034 NbL19g13020 TGA2,5,6 1.32 1e-04 NbL04g19740 TGA3,7 2.03 2e-04 NbL15g22710 UPL1,2 -3.97 0.1909 NbL09g29000 UPL3,4 -1.12 0.0379 NbL05g03960 UPL6,7 1.42 0 NbL04g09870 VDAC1 0.63 0.0053 NbL06g14600 WD40 1.63 0 NbL19g11360 WRKY33 1.37 0.0108 NbL01g15620 WRKY57 1.17 0.0355 NbL01g02880 XDH -0.22 0.6654 NbL11g12660 XRN -0.62 0.0376
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Created: 12th Apr 2022 at 09:43
Last updated: 21st Sep 2022 at 10:46
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Version 1 (earliest) Created 12th Apr 2022 at 09:43 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_NbL35-DiNAR Assay Class: DRY Assay Type: DiNAR Title: DE genes of SxP v1.0 and v1.2 visualisation in DiNAR Description: As input, DE genes determined by contrasting phenotype groups without outliers were used. Mapping to Nb genome v3.5. Visualisatoin in PIS network. pISA Assay creation date: 2022-01-30 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
