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_p_stRT/_I_STRT/_S_04_stPanTr/_A_07_Desiree-mapping
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# new NGS # https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE123176 # https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE123037 # https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE140083 # https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE123037 # https://trace.ncbi.nlm.nih.gov/Traces/sra/?run=SRR10416847 # selected NGS # https://www.ncbi.nlm.nih.gov/biosample?LinkName=bioproject_biosample_all&from_uid=588198 # https://www.ebi.ac.uk/ena/data/view/SRX7115040 Run BioSample Bases Bytes Cultivar Experiment GEO_Accession Sample Name source_name treatment SRR10416835 SAMN13230831 3.25 G 1.81 Gb DESIEE SRX7115028 GSM4154161 GSM4154161 DESIEE LEAF IRRIGATION 1-1 IRRIGATION SRR10416836 SAMN13230830 3.20 G 1.77 Gb DESIEE SRX7115029 GSM4154162 GSM4154162 DESIEE LEAF IRRIGATION 2-1 IRRIGATION SRR10416837 SAMN13230829 4.07 G 2.25 Gb DESIEE SRX7115030 GSM4154163 GSM4154163 DESIEE LEAF IRRIGATION 3-1 IRRIGATION SRR10416847 SAMN13230840 3.77 G 2.09 Gb DESIEE SRX7115040 GSM4154173 GSM4154173 DESIEE LEAF DROUGHT 1-1 DROUGHT SRR10416848 SAMN13230839 3.68 G 2.03 Gb DESIEE SRX7115041 GSM4154174 GSM4154174 DESIEE LEAF DROUGHT 2-1 DROUGHT SRR10416849 SAMN13230838 3.72 G 2.05 Gb DESIEE SRX7115042 GSM4154175 GSM4154175 DESIEE LEAF DROUGHT 3-1 DROUGHT
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Created: 22nd Mar 2020 at 23:02
Last updated: 22nd Mar 2020 at 23:02
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Version 1 (earliest) Created 22nd Mar 2020 at 23:02 by Andrej Blejec
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Related items
Projects: HYp - Spatiotemporal analysis of hypersensitive response to Potato virus Y in potato, pISA-tree, INDIE - Biotechnological production of sustainable indole, _p_stRT, Public project, Playground, SUSPHIRE - Sustainable Bioproduction of Pheromones for Insect Pest Control in Agriculture
Institutions: National Institute of Biology, NewHorizon
https://orcid.org/0000-0001-7484-6031
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
project: _p_stRT Short Name: stRT Title: Solanum tuberosum Reference Transcriptomes Description: Cultivar-specific transcriptome and pan-transcriptome reconstruction of tetraploid potato pISA projects path: ../pISA-Projects Local pISA-tree organisation: National Institute of Biology pISA project creation date: 2019-10-22 pISA project creator: Maja Zagorscak, Ziva Ramsak, Marko Petek Project funding code: This project was supported by the Slovenian Research Agency (grants P4-0165, J4-4165, J4-7636, ...
Programme: NIBSys
Public web page: http://www.nib.si/eng/index.php/systems-biology
Start date: 1st Dec 2017
End date: 1st Jan 2020
Investigation: _I_STRT Short Name: STRT Title: Cultivar-specific transcriptome and pan-transcriptome reconstruction of tetraploid potato Description: Cultivar-specific transcriptome and pan-transcriptome reconstruction of tetraploid potato Phenodata: ./phenodata_20191022.txt pISA Investigation creation date: 2019-10-22 pISA Investigation creator: Maja Zagorscak, Ziva Ramsak, Marko Petek Principal investigator: Kristina Gruden License: MIT Sharing permission: Public Upload to FAIRDOMHub: Yes
RELATED ...
Submitter: Maja Zagorscak
Studies: SupplementaryInformation, _S_01_sequences, _S_02_denovo, _S_03_stCuSTr, _S_04_stPanTr
Assays: Supplementary Information, _A_01_GC_content-count, _A_01_evigene, _A_02.1_BUSCO, _A_02.2_assembly-contribution-count, _A_02.3_InterProScan, _A_02.4_STAR, _A_02.5_STARlong_matchAnnot, _A_02.6_TransRate, _A_02.7_VecScreen, _A_02.8_DIAMOND, _A_02_cdhit_3cvs-GFFmerged, _A_03.1_filtering, _A_03.2_components, _A_03_components_3cvs-GFFmerged, _A_04_BUSCO_3cvs-GFFmerged, _A_04_TransRate, _A_05_BUSCO, _A_05_MSA_3cvs-GFFmerged, _A_06_tr_rep-transrate, _A_07_Desiree-mapping, _A_08_centrifuge_3cvs-GFFmerged, _A_09_annotation-GFFmerged
Short Name: 04_stPanTr Title: Solanum tuberosum Pan-Transcriptome Description: Solanum tuberosum Pan-Transcriptome Raw Data: pISA Study creation date: 2019-10-22 pISA Study creator: Maja Zagorscak Principal investigator: Kristina Gruden License: CC BY 4.0 Sharing permission: Public Upload to FAIRDOMHub: Yes
Submitter: Andrej Blejec
Investigation: _I_STRT
Assays: _A_01_GC_content-count, _A_02_cdhit_3cvs-GFFmerged, _A_03_components_3cvs-GFFmerged, _A_04_BUSCO_3cvs-GFFmerged, _A_05_MSA_3cvs-GFFmerged, _A_06_tr_rep-transrate, _A_07_Desiree-mapping, _A_08_centrifuge_3cvs-GFFmerged, _A_09_annotation-GFFmerged
Short Name: 07_Desiree-mapping Assay Class: DRY Assay Type: mapping Title: Desiree mapping Description: Mapping of Desiree samples (drought stress) to Desiree and Phureja transcriptomes pISA Assay creation date: 2020-03-11 pISA Assay creator: Maja Zagorscak Phenodata: None Featuredata: Data:
Submitter: Andrej Blejec
Biological problem addressed: Model Analysis Type
Investigation: _I_STRT
Study: _S_04_stPanTr
