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3422 Data files visible to you, out of a total of 5629

Predicted targets of endogenous small RNAs (sRNAs) by in silico approach. For each predicted interaction, miRNAs/phasiRNA ID, the target transcript identifiers, representative gene identifier, short gene name, full descriptions, MapMan ontology annotations (GoMapMan; (Ramšak et al., 2014)) and predicted target regulation (cleavage or translational repression) are shown. Short names for potato genes were inferred from Arabidopsis thaliana orthologs where applicable, else the StNIB_v1 gene identifier ...

sRNA regulatory network connecting endogenous miRNAs, phasiRNAs and their targets.

sRNA regulatory network connecting miRNAs, phasiRNAs, PVY-derived siRNAs (vsiRNAs) and their targets.

Table connecting MOA degradome pool identifiers to GEO identifiers.

Creators: None

Submitter: Ziva Ramsak

Experimentally validated targets of endogenous sRNAs by Degradome-Seq. For each identified interaction, miRNAs/phasiRNA ID, the target transcript identifiers, representative gene identifier, full descriptions, and MapMan ontology annotations (GoMapMan; (Ramšak et al., 2014)) are shown. Short names for potato genes were inferred from Arabidopsis thaliana orthologs where applicable, else the StNIB_v1 gene identifier was set (Ramšak et al., 2014). For each sRNA-target interaction, degradome category ...

Creators: None

Submitter: Ziva Ramsak

Targets of PVY-derived siRNAs identified by Degradome-Seq. For each predicted interaction, PVYNTN-derived siRNAs (vsiRNAs), the target transcript identifiers, representative gene identifier, full descriptions and MapMan ontology annotations (GoMapMan; (Ramšak et al., 2014)) are shown. Short names for potato genes were inferred from Arabidopsis thaliana orthologs where applicable, else the StNIB_v1 gene identifier was set (Ramšak et al., 2014). For each vsiRNA-target interaction, degradome category ...

Creators: None

Submitter: Ziva Ramsak

List of identified proteins and their counts; using MaxQuant software for selected MOA proteomics pool identifiers.

Creators: None

Submitter: Ziva Ramsak

List of identified peptides using MaxQuant software for selected MOA proteomics pool identifiers.

Creators: None

Submitter: Ziva Ramsak

Differentially expressed proteins between various comparison groups (Sheet: comparisons), with log2-fold changes and Benjamini-Hochberg FDR corrected p-values given for MaxQuant quantified proteins.

Creators: None

Submitter: Ziva Ramsak

List of identified proteins and their counts; using spectral counts (Proteome Discoverer) for selected MOA proteomics pool identifiers.

Creators: None

Submitter: Ziva Ramsak

List of identified peptides using spectral counts (Proteome Discoverer) for selected MOA proteomics pool identifiers.

Creators: None

Submitter: Ziva Ramsak

Differentially expressed proteins between various comparison groups (Sheet: comparisons), with log2-fold changes and Benjamini-Hochberg FDR corrected p-values given for spectral count (Proteome Discoverer) quantified proteins.

Creators: None

Submitter: Ziva Ramsak

Concentrations of seven different plant hormones (ABA, GA3, OPDA, JA, IAA and SA) as determined by gas chromatography coupled with mass spectrometry (GC-MS) for MOA samples.

Creators: None

Submitter: Ziva Ramsak

Significant changes for a set of hormones between treatment-genotype groups as determined by ANOVA followed by LSD post hoc analysis (FDR < 0.05) using the Agricolae R package.

Creators: None

Submitter: Ziva Ramsak

File describing the phenotypic observations taken on potato plants, namely spot necroses, vein necroses, chlorotic spots, yellowing and mechanicam damage.

Creators: None

Submitter: Ziva Ramsak

Measurements of photosynthetic activity, namely net photosynthesis (Pn), stomatal conductance (Cond), actual photochemical efficiency (Fv’/Fm’), potential photochemical activity (Fv/Fm), chlorophyll content (SPAD) and electron transport rate (ETR).

Creators: None

Submitter: Ziva Ramsak

Statistical analysis of measurements of photosynthetic parameters.

Creators: None

Submitter: Ziva Ramsak

qPCR measured values of Potato virus Y (PVY).

Creators: None

Submitter: Ziva Ramsak

Table connecting MOA Investigation sample ID's and GEO sample identifiers.

QC filtered and RSN normalised values for all MOA samples with microarray measurements.

Differential expression of genes between various comparison groups (Sheet: comparisons), with log2-fold changes and Benjamini-Hochberg FDR corrected p-values given.

Validation of microarray results by RT-qPCR. RT-qPCR measurements for eight genes: biologically relevant for photosynthesis chlorophyll a-b binding protein (CAB, CAB_NEW) and RuBisCO activase (RA); for defense response three classes of β-1,3-glucanases (Glu-I, Glu-II, Glu-III) and pathogenesis-related protein1b (PR-1b); and for sugar metabolism granule bound starch synthase I (GBSSI) and cell wall invertase (INV).

Creators: None

Submitter: Ziva Ramsak

RT-qPCR assays for microarray validation described using the MIQE standard.

Creators: None

Submitter: Ziva Ramsak

Table connecting MOA sample identifiers to GEO identifiers related to sRNAomics dataset.

Creators: None

Submitter: Ziva Ramsak

miRNAs and their counts identified in the MOA samples for sRNA-Seq.

Creators: None

Submitter: Ziva Ramsak

miRNAs and their RPM normalised counts identified in the MOA samples for sRNA-Seq.

Creators: None

Submitter: Ziva Ramsak

Differential expression of miRNAs between various comparison groups (Sheet: comparisons), with log2-fold changes and Benjamini-Hochberg FDR corrected p-values given.

Creators: None

Submitter: Ziva Ramsak

Here published artikel about The FAIR Guiding Principles for scientific data management and stewardship

FASTQ file made from AB1 files. Source: /mnt/users/fabig/DigiSal/crispr_RNAseq/sanger/data/fq

FASTQ file made from AB1 files. Source: /mnt/users/fabig/DigiSal/crispr_RNAseq/sanger/data/fq

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