_S_P4_DiNAR
Actions 
Order Assays
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
SEEK ID: https://fairdomhub.org/studies/950
Projects: SUSPHIRE - Sustainable Bioproduction of Pheromones for Insect Pest Contr...
Study position:
Export PNG
Download
Creators and Submitter
Views: 1778
Created: 9th Apr 2022 at 18:40
Last updated: 21st Sep 2022 at 10:44
TagsThis item has not yet been tagged.
Related items
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
Files connected to study: _S_P4_DiNAR
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_T21_SXPsysbio
Study: _S_P4_DiNAR
Short Name: CKN-DiNAR Assay Class: DRY Assay Type: DiNAR Title: Visualisation of DE genes in SxPv1.0 lines with DiNAR Description: Mapping of SxPv1.0 data to Nb genome v1, DE was done by lines (low1, low2, high1, high2) against wt. 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
Short Name: CKN_NbL35-DiNAR Assay Class: DRY Assay Type: DiNAR Title: Visualisation of SxP DE genes in CKN with DiNAR tool Description: Mapping to Nb genome v3.5, DE was done by groups (v1.0 low, v1.0 high, v1.2 high) against wt and without the 3 outliers. 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
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
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
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
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-SxPv12-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-SxPv12-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-SxPv12-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-SxPv12-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_PIS-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_CKN_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_CKN_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T21_SXPsysbio/_S_P4_DiNAR/_A_CKN_NbL35-DiNAR/
Creator: Marko Petek
Submitter: Marko Petek
