_A_07_allReads_meta-assembly
Short Name: 07_allReads_meta-assembly Assay Class: DRY Assay Type: assembly Title: De novo assembly of metagenome using metaSPAdes Description: De novo assembly of microbes present in the metagenome using metaSPAdes using all reads without selection but with rigorous filtering and read correction pISA Assay creation date: 2021-01-16 pISA Assay creator: Marko Petek Phenodata: ../../phenodata_20210115.txt Featuredata: Data:
SEEK ID: https://fairdomhub.org/assays/1604
Experimental assay
Projects: _p_RNAinVAL
Investigation: _I_03_Omics
Study: _S_02_metagenome_resp
Assay position:
Assay type: Experimental Assay Type
Technology type: Technology Type
Organisms: No organisms
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Created: 12th Nov 2021 at 22:44
Last updated: 12th Nov 2021 at 23:07
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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
This project’s main objective was to identify novel Colorado potato beetle gene targets for the development of specific RNAi insecticides and further validate prospective targets using transcriptomics. The work included gene selection, establishment of double-stranded RNA (dsRNA) production methodology and the evaluation of dsRNAs’ insecticidal potential in CPB feeding laboratory and field trials.
Programme: NIBSys
Public web page: http://projects.nib.si/rnainval/
Start date: 1st Nov 2014
End date: 31st Oct 2017
Short Name: 03_Omics Title: Omics analysis of RNAi response in CPB Description: Transcriptomics and metagenome changes upon feeding CPB larvae with dsRNA Phenodata: ./phenodata_20210115.txt pISA Investigation creation date: 2021-01-15 pISA Investigation creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Studies: Investigation files, _S_01_ns-dsRNA_trans, _S_02_metagenome_resp
Assays: _A_01-DNAisol, _A_01_RNA-Seq_dsEGFP-NGS, _A_02-DNASeq, _A_02_CLC-RNASeq, _A_03-Centrifuge, _A_04_DE_divers-R, _A_05_extr_reads-rcf, _A_06_extr_bact-assembly, _A_07_allReads_meta-assembly, _I_03_Omics-files, _S_01_ns-dsRNA_trans-files, _S_02_metagenome_resp-files
Short Name: 02_metagenome_resp Title: CPB gut microbiome response to dsRNA feeding Description: Response of CPB gut microbiome to dsRNA feeding on the level of microbe abundance Raw Data: pISA Study creation date: 2021-01-15 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Investigation: _I_03_Omics
Assays: _A_01-DNAisol, _A_02-DNASeq, _A_03-Centrifuge, _A_04_DE_divers-R, _A_05_extr_reads-rcf, _A_06_extr_bact-assembly, _A_07_allReads_meta-assembly, _S_02_metagenome_resp-files
_p_RNAinVAL/_I_03_Omics/_S_02_metagenome_resp/_A_07_allReads_meta-assembly/
_p_RNAinVAL/_I_03_Omics/_S_02_metagenome_resp/_A_07_allReads_meta-assembly/
_p_RNAinVAL/_I_03_Omics/_S_02_metagenome_resp/_A_07_allReads_meta-assembly/
_p_RNAinVAL/_I_03_Omics/_S_02_metagenome_resp/_A_07_allReads_meta-assembly/
_p_RNAinVAL/_I_03_Omics/_S_02_metagenome_resp/_A_07_allReads_meta-assembly/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_03_Omics/_S_02_metagenome_resp/_A_07_allReads_meta-assembly/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_03_Omics/_S_02_metagenome_resp/_A_07_allReads_meta-assembly/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_03_Omics/_S_02_metagenome_resp/_A_07_allReads_meta-assembly/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_03_Omics/_S_02_metagenome_resp/_A_07_allReads_meta-assembly/
Creator: Marko Petek
Submitter: Marko Petek
_p_RNAinVAL/_I_03_Omics/_S_02_metagenome_resp/_A_07_allReads_meta-assembly/
Creator: Marko Petek
Submitter: Marko Petek
