Transcripomic analysis of leaf gene expression in S and N-deficient winter wheat during grain development. Tissue was harvested at anthesis and 7, 14 and 21 days post anthesis from experimental field plots.
Co-ordinated expression of amino acid metabolism in response to N and S deficiency during wheat grain filling.
None
Specimen part, Disease, Disease stage, Subject, Time
View SamplesMutations mapping to the RNA-binding interface of EXOSC3 have been linked to the rare neurological disorder known as Pontocerebellar Hypoplasia type1B (PCH1B). EXOSC3 is part of three putative RNA-binding structural cap proteinsthat guideRNA intothe RNA exosome, thecellular machinery that2degrades RNA. Here, using RNAcompete, we identifieda G-rich RNA motifthat requirestheK homology and ribosomal protein S1domains of EXOSC3. Interestingly, several PCH1B-causing mutations in EXOSC3do not engage this RNA motif. To test the hypothesis thatmodificationof the RNA-protein interface in EXOSC3 mutants may be phenocopied by small molecules, we performedan in silicoscreen of 50,000 small molecules and used enzyme-linked immunosorbant assays(ELISAs)to assess the ability ofthe molecules to inhibit RNA-bindingbyEXOSC3. We identified asmall molecule, EXOSC3-RNA disrupting (ERD) compound 3 (ERD03), which: (i) bound specifically to EXOSC3in saturation transfer difference nuclear magnetic resonance (STD NMR); (ii)disruptedthe EXOSC3-RNAinteraction in a concentration-dependent manner; (iii) induced an abnormal curved spine PCH1B-like phenotype in zebrafish embryos.This compound induced a comparable modification of RNA expression levels coupled with an atrophy of the cerebellum in the zebrafish. To our knowledge, this is the first example of a small molecule obtained by rational design thatmodelsthe abnormal developmental effectsof a neurodegenerative diseasein a whole organism.
No associated publication
None
Sex, Age, Specimen part, Disease, Treatment
View SamplesPseudomonas aeruginosa transcriptomic profile exposed to Cr(VI)
No associated publication
None
Specimen part, Disease
View SamplesTo study the splicing factor role of ZmGRP1
No associated publication
None
Sex, Specimen part, Disease, Disease stage, Cell line, Treatment
View SamplesWild type and transgenic msi1-tap1 plants were grown and gene expression was compared at two time points at the age of 8 days.
Regulation of flowering time by Arabidopsis MSI1.
None
Age, Time
View SamplesThe main objective of this study was to decipher the gene expression profile associated with the onset and early development of Wooden Breast Disease in commercial broiler chickens. To achieve this, pectoralis major muscle biopsy samples were harvested from high-breast-muscle-yield, purebred broiler line. The pectoral biopsy samples were collected from the cranial (week 2 and 3) and caudal (week 4) aspects of the muscle belly in birds which were allowed to grow up to 7 weeks of age. Three subsets of biopsy samples comprising 6 unaffected (U) and 10 affected (A) from week 2 and 4 and 4U and 12A from week 3 were processed for RNA-sequencing analysis. All selected samples were processed using Truseq stranded mRNA LT sample kit for paired-end 2x75-nucleotide sequencing with Illumina Hiseq 2500 sequencer.
No associated publication
None
Sex, Age, Specimen part, Disease
View SamplesNo description.
No associated publication
None
Sex, Age, Specimen part, Cell line, Treatment
View SamplesNo description.
No associated publication
None
Sex, Age, Specimen part, Cell line
View SamplesEffect of ethanol or nicotine exposure on gene expression compared to control. Duplicate arrays from ethanol or nicotine treated animals compared with triplicate arrays from paired control animals. In total 4 treatment arrays (2 ethanol, 2 nicotine) and 3 control arrays (from control animals treated in parallel with ethanol-treated fish and nicotine-treated fish.)
Gene expression changes in a zebrafish model of drug dependency suggest conservation of neuro-adaptation pathways.
None
Specimen part, Compound
View SamplesRNA-seq and ATAC-seq data to understand how gene regulation and chromatin accessibility correlates with function enrichment in CRISPR screen for melanoma drug resistance
Genome-scale activation screen identifies a lncRNA locus regulating a gene neighbourhood.
None
No sample metadata fields
View Samples