input/Prioritization/output/clades.organism.NGS.priority.txt Version 1
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-SxPv12-DiNAR/
SEEK ID: https://fairdomhub.org/data_files/5403?version=1
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input/Prioritization/output/clades.organism.NGS.priority.txt
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probeID clade LogFC_line41.wt LogFC_line43.wt g15680 4CLL 1.552961285 1.518995534 g45732 AAO NA NA g7226 ACH 0.336184218 0.415186477 g94763 ACO 4.523320664 4.22497792 g73461 ACS1,2,6 -0.694825835 -1.637423548 g98107 ACX1,5 0.724210352 0.706213242 g78851 ACX3,6 0.957842168 1.228333228 g129959 ADT -4.503423871 -4.453653762 g69305 AGO1,5,7,10 1.750317221 3.078382987 g132548 AOC 0.561451352 0.495236497 g52939 AOS 4.063312185 4.677205913 g121142 APX1,2 0.781650287 0.941137262 g25138 APX3 1.342159502 1.241701341 g41270 APX4 -3.98877301 -4.821658385 g87550 ASK 1.408126349 1.347243114 g46963 ATPB -1.004573303 -1.679745514 g83286 BG NA NA g99545 bHLH -0.757226875 -0.905078823 g48033 CAMTA NA 0.407225916 g103971 CAT1,2,3 1.634390226 2.254298705 g47201 CLH -6.026512452 -6.958080718 g5318 CM 0.692735936 0.891328668 g2366 CML42 1.800448549 1.651038295 g97382 COI1 0.787607873 0.76406061 g102272 CPK4,5,6,11 0.445426534 0.42836091 g77424 CRT1,2 -0.651907915 -1.062443357 g96456 CRT3 0.810718437 0.703814365 g41496 CTR -1.502915072 -1.990234861 g29012 CTS 0.358516829 0.567915927 g90041 CUL 1.089412363 0.680272509 g20023 CYP94 -2.419665577 -3.376725763 g101818 DNAJ -0.605946133 -0.869673021 g48659 DXPS -2.998330237 -3.962138272 g93993 EBF 0.42745928 0.441360085 g17423 EDF -2.447027985 -3.123663717 g36954 EDS5 NA NA g29544 EIN2 1.571868176 1.590377203 g90995 EIN3(EIL1) 1.606605833 1.218498666 g38402 ERF098 NA NA g81610 ERF1,2 4.359764618 4.330890487 g97252 ERF104 NA NA g37276 ERF105 1.391852323 1.430745825 g1760 ERF13 NA NA g38400 ERF14,95,96 NA NA g1661 ERF5,6 NA NA g96725 ETR -1.150726625 -1.551438334 g26107 FLS2 0.605193951 0.604508408 g33365 GRAS2 0.907975157 0.935767619 g106066 GRX480 NA -0.689845171 g46556 GSNO 0.789733904 0.79423892 g119629 GST 2.388328273 1.963200709 g67142 HMA -1.466469399 -1.924367812 g92328 ICS -1.439633781 -1.593157056 g116180 JAM1,2 -0.924741384 -1.284888096 g13034 JAM3 NA NA g59793 JAR -1.906916491 -1.614956882 g14280 JAZ1,2,5,6 0.957339672 0.888982255 g132757 JMT 5.449164241 5.761005567 g64133 KAT 0.915952888 1.095901986 g21245 LOX 4.012546513 4.310493319 g47512 MES 0.516868366 0.548680585 g126860 MFP 1.265529085 1.61669031 g110094 MIND1 -1.071725536 -1.106744278 g70255 MOS -1.01652072 -0.535260263 g27688 MPK3 NA NA g116083 MPK4 -1.23780347 -1.417445637 g75416 MPK6 0.382105907 0.557274044 g2832 MYB113 NA NA g34850 MYB44,70,73 1.711576324 1.665606211 g99241 MYC -2.681897938 -4.614579311 g93354 NAC19,55,72 3.094886497 3.426477893 g103126 NAC32 NA NA g73486 NADPH-oxidase 1.687234839 1.612345939 g119355 NDA -3.987949748 -4.656331937 g124810 NDB -0.936988816 -1.523562043 g97425 NDC -0.520609035 -0.56943977 g122900 NPR1 NA 0.511705814 g96952 OBE 0.654791264 0.661182254 g88615 OMR1 -0.393764407 -0.840753055 g56859 OPR 0.788637519 0.784720823 g114938 PA -0.693762599 -0.879990399 g83183 PAL 2.024588948 1.499043292 g4501 PBB 1.348351469 1.321709166 g114282 PBE 0.380866303 0.494881076 g58068 PR1 3.708145852 3.542732624 g87521 PR3 3.088227359 3.036054625 g60136 PR4 3.934729175 3.75486626 g104627 PR5 NA NA g8456 PSAK -4.074300328 -5.136168806 g119538 RBCL -0.90404351 -1.38819715 g24746 RBCS -5.278982272 -6.281707969 g121803 RGA1,2 3.970055967 4.503573288 g16549 RH NA NA g98443 RTE1 -1.828137102 -2.257326903 g117758 SAG101 NA NA g129927 SAG12 NA NA g53286 SAGT NA NA g64887 SAHH -1.925173661 -2.273944851 g6562 SAMS -1.492452423 -1.879671755 g20040 SEN4 NA NA g82180 SERK 0.785594408 0.893317291 g57918 SOD -2.130207937 -2.187364106 g112292 TDX NA NA g129321 TGA2,5,6 1.43311034 1.523784673 g132812 TRX-H 1.502088193 1.370955283 g128834 WAK NA 1.300751951 g83732 WD40 0.590406632 0.550270159 g15912 WRKY11,17 1.881824603 2.034766438 g128918 WRKY33 1.515707335 1.909862174 g37745 WRKY57 0.974865947 0.86371177 g40376 XRN -1.239649695 -1.282516505
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Created: 11th Apr 2022 at 14:16
Last updated: 21st Sep 2022 at 10:45
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Version 1 (earliest) Created 11th Apr 2022 at 14:16 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-SxPv12-DiNAR Assay Class: DRY Assay Type: DiNAR Title: SxP v1.2 DE genes visualised in DiNAR Description: Visualisation of DE genes from SxPv1.2 data in PIS network. Mapping to genome v1, contrasts by lines (low1, low2, high1, high2) pISA Assay creation date: 2021-11-10 pISA Assay creator: MJU Phenodata: ../../phenodata_20191104.txt Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_T21_SXPsysbio
Study: _S_P4_DiNAR
