RNA-seq data from Arabidopsis thaliana to be used to generate synthetic simulationsinitialDataset
In this work, we employed the Illumina high throughput sequencing technology to perform an integrated analysis of the poly-A + enriched and the small RNA fractions of theArabidopsis thalianaroot transcriptome in response to nitrate treatments. Our sequencing strategy identified new nitrate-regulated ...
The RNA-seq data have been deposited in the NCBI GEO and are accessible through GEO series accession number GSE77169. Source data are provided with this paper. References Aichinger, E., Kornet, N., Friedrich, T. & Laux, T. Plant stem cell niches. Annu. Rev. Plant Biol. 63, 615–63...
RNA was isolated using TRIZOL reagent (Invitrogen). DNA was removed using DNase TURBO (Ambion) and then cleaned up using RNAeasy Mini Kit (Qiagen). RNA-Seq libraries were prepared using the TruSeq RNA sample preparation kit (Illumina) following the manufacturer’s protocol. All six samples wer...
bioinformaticsrna-seqdatabasedata-visualizationwebappalternative-splicingbamarabidopsisefprna-seq-mappingarabidopsis-thaliana UpdatedAug 8, 2024 HTML Gregor-Mendel-Institute/SNPmatch Star9 Code Issues Pull requests A simple python library to identify the most likely strain from the population ...
转录调控测序 转录组 链特异性转录组 small RNA LncRNA 环状RNA测序 表观基因组测序 全基因组甲基化测序 简化甲基化测序 MeDIP测序 ChIP-Seq RIP-Seq 微生物基因组测序 16S/18S/ITS等扩增子测序 宏基因组测序 病毒全基因组测序 线粒体基因组测序 全质粒基因组测序基础...
(FDR) of 0.05, and a fold change was greater than 2. The input from Bisulfite-Seq was fine-tuned and quality control was carried out. Reads were compared with the reference genome ofA. thaliana(Col-0) using BSmap50. The differential methylation region (DMR) was identified using the ...
Does Recombination Shape the Distribution and Evolution of Tandemly Arrayed Genes (TAGs) in the Arabidopsis thaliana Genome? Examines the distribution of tandemly arrayed genes (TAG) in the arabidopsis thaliana genome. Analysis of TAG density in relation to recombination rates; C... Liqing,Zhang,...
thaliana, the three animals showed a strong enrichment for protein isoforms (Fig. 6b), a pattern that was particularly prominent for tissue-specific ES and ALTA/ALTD events and was also observed for AS-NR events in most cases. In line with this finding, analyses of RNA-seq data from NMD...
The RNA-seq datasets generated and analysed in the current study have been deposited in the ArrayExpress database at EMBL-EBI (www.ebi.ac.uk/arrayexpress) under accession number E-MTAB-9694. Markdowns documenting the steps in filtering, visualizing and analysing the data in all figures and tab...