_A_05_assembly1-rnaSPAdes
Short Name: 05_assembly1-rnaSPAdes Assay Class: DRY Assay Type: rnaSPAdes Title: P citri de-novo transcriptome assembly Description: P citri VF RNA-seq samples were assembled using rnaSPAdes assembler Phenodata: ../../phenodata_20181003.txt Featuredata: Data:
SEEK ID: https://fairdomhub.org/assays/1884
Experimental assay
Projects: SUSPHIRE - Sustainable Bioproduction of Pheromones for Insect Pest Contr...
Investigation: _I_T31_mealybug
Study: _S_P4_Pcitri_tr1
Assay position:
Assay type: Experimental Assay Type
Technology type: Technology Type
Organisms: No organisms
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Created: 16th May 2022 at 10:34
Last updated: 6th Nov 2024 at 15:25
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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: T31_mealybug Title: Mealybug genome and transcriptome analyses Description: Searching for enzymes involved in the mealybug pheromone biosynthesis pathways. These pheromones are known to be released by virgin females. Phenodata: ./phenodata_20190523.txt Featuredata: Principal investigator: Heribert Warzecha, Špela Baebler License: Creative Commons Attribution 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Studies: Investigation files, _S_P3_expressionEcoli, _S_P4_AdPathGenes, _S_P4_Pcitri_IsoSeq, _S_P4_Pcitri_genome, _S_P4_Pcitri_genome_extSamples, _S_P4_Pcitri_tr1, _S_P4_Pcitri_tr1tr2combo, _S_P4_Pcitri_tr2, _S_P4_cand_all, _S_P4_cand_genomic
Assays: _A_01-CoEXpNetViz_tr2-coexpr, _A_01_NGI-IsoSeq, _A_01_RNAseq-CLC, _A_01_assembly2-rnaSPAdes, _A_01_mapToGenomeAll-STAR, _A_01_renameFASTA-Bioinfo, _A_02-CoEXpNetViz_gen-coexpr, _A_02_CDHIT-Bioinfo, _A_02_assembly2-IPS, _A_02_cDNAcupcake-dry, _A_02_limma-R, _A_02_mapToGenomeAll_limma-R, _A_03-IPS, _A_03_CDHIT2-Bioinfo, _A_03_limma_min50counts-R, _A_03_mapAs2ToGenome-STAR, _A_04_limma_min10counts-R, _A_04_mapIllumina-STAR, _A_04_mapReadsToAs2-STAR, _A_05_As2_tr_limmaDE-R, _A_05_DE_limma-R, _A_05_assembly1-rnaSPAdes, _A_06_assembly1-IPS, _A_07_mapAs1ToGenome-STAR, _A_08_mapReadsToAs1-STAR, _A_09_As1_tr_limmaDE-R, _A_C98F-EcoliExpr, _A_IDIsearch-Bioinfo, _A_IPS-bioinfo, _A_MAST-bioinfo, _A_MEME-bioinfo, _A_MSA-bioinfo, _A_MeUppS-EcoliExpr, _A_Node14610-EcoliExpr, _A_Node14610DmTP-EcoliExpr, _A_OtherMealybugCandidates-Alignment, _A_Pc1599-EcoliExpr, _A_Pc23180-EcoliExpr, _A_Pc2704-EcoliExpr, _A_Pc32607-EcoliExpr, _A_Pc7366II-EcoliExpr, _A_PcCis24-EcoliExpr, _A_Strep_CLDS-bioinfo, _A_TPS_phy-bioinfo, _A_Terzyme-bioinfo, _A_Trans1153-EcoliExpr, _A_Trans2-EcoliExpr, _A_Trans39-EcoliExpr, _A_Trans57-EcoliExpr, _A_Trans64-EcoliExpr, _A_Trans94-EcoliExpr, _A_candidatemining-bioinfo, _A_g14825_recon-bioinfo, _A_smallIDSsubunit-motifs, _I_T31_mealybug-files, _S_P3_expressionEcoli-files, _S_P4_AdPathGenes-files, _S_P4_Pcitri_IsoSeq-files, _S_P4_Pcitri_genome-files, _S_P4_Pcitri_genome_extSamples-files, _S_P4_Pcitri_tr1-files, _S_P4_Pcitri_tr1tr2combo-files, _S_P4_Pcitri_tr2-files, _S_P4_cand_all-files, _S_P4_cand_genomic-files
Investigation: _I_T3.1_mealybug project: _p_SUSPHIRE Short Name: P4_Pcitri_tr Title: P. citri transcriptome study Description: We are interested in certain mealybugs both because they are important pests and very difficult to control but because their sex pheromones are irregular terpenoids, which are (a) very cool molecules and (b) extremely difficult and expensive to make using chemistry.In our project, we will be doing comparative transcriptomics of virgin and mated females to attempt to ...
Submitter: Marko Petek
Investigation: _I_T31_mealybug
Assays: _A_05_assembly1-rnaSPAdes, _A_06_assembly1-IPS, _A_07_mapAs1ToGenome-STAR, _A_08_mapReadsToAs1-STAR, _A_09_As1_tr_limmaDE-R, _S_P4_Pcitri_tr1-files
_p_SUSPHIRE/_I_T31_mealybug/_S_P4_Pcitri_tr1/_A_05_assembly1-rnaSPAdes/
_p_SUSPHIRE/_I_T31_mealybug/_S_P4_Pcitri_tr1/_A_05_assembly1-rnaSPAdes/
_p_SUSPHIRE/_I_T31_mealybug/_S_P4_Pcitri_tr1/_A_05_assembly1-rnaSPAdes/
_p_SUSPHIRE/_I_T31_mealybug/_S_P4_Pcitri_tr1/_A_05_assembly1-rnaSPAdes/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T31_mealybug/_S_P4_Pcitri_tr1/_A_05_assembly1-rnaSPAdes/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T31_mealybug/_S_P4_Pcitri_tr1/_A_05_assembly1-rnaSPAdes/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T31_mealybug/_S_P4_Pcitri_tr1/_A_05_assembly1-rnaSPAdes/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T31_mealybug/_S_P4_Pcitri_tr1/_A_05_assembly1-rnaSPAdes/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T31_mealybug/_S_P4_Pcitri_tr1/_A_05_assembly1-rnaSPAdes/
Creator: Marko Petek
Submitter: Marko Petek
_p_SUSPHIRE/_I_T31_mealybug/_S_P4_Pcitri_tr1/_A_05_assembly1-rnaSPAdes/
Creator: Marko Petek
Submitter: Marko Petek
