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BrowserGenome: [144] web-based RNA-seq data analysis and visualization. Degust An interactive web tool for visualising Differential Gene Expression data. DensityMap is a perl tool for the visualization of features density along chromosomes. EagleView EagleView is an information-rich genome assembler viewer with data integration capability ...
Among the products of the program is the Azimuth reference datasets for single-cell RNA seq data [2] [3] and the ASCT+B Reporter, a visualization tool for anatomical structures, cell types and biomarkers. [4] [5] Millitomes are used to create uniformly sized tissue blocks that match the shape and size of organs from HuBMAP's 3D Reference Object ...
Name Description Knots [Note 1]Links References trRosettaRNA: trRosettaRNA is an algorithm for automated prediction of RNA 3D structure. It builds the RNA structure by Rosetta energy minimization, with deep learning restraints from a transformer network (RNAformer). trRosettaRNA has been validated in blind tests, including CASP15 and RNA-Puzzles, which suggests that the automated predictions ...
RNA-Seq can also be used to determine exon/intron boundaries and verify or amend previously annotated 5' and 3' gene boundaries. Recent advances in RNA-Seq include single cell sequencing, bulk RNA sequencing, [6] 3' mRNA-sequencing, in situ sequencing of fixed tissue, and native RNA molecule sequencing with single-molecule real-time sequencing. [7]
Additionally, gene expression data collection, search and visualization is provided. Gene search - Search genes by name, symbol or synonym directly from the landing page; Gene nomenclature guidelines - Echinobase is the official body responsible for echinoderm gene naming; Genome browser with tracks for RNA-seq and ATAC-seq data - Echinobase ...
It is the first step in sequence analysis to limit wrong conclusions due to poor quality data. The tools used at this stage depend on the sequencing platform. For instance, FastQC checks the quality of short reads (including RNA sequences), Nanoplot or PycoQC are used for long read sequences (e.g. Nanopore sequence reads), and MultiQC ...
RNA-Seq viewers - Graphs of temporal expression profiles and spatial (anatomy) expression heatmaps for both laevis and tropicalis; Gene Expression - Xenbase supports search and visualization of Gene Expression Omnibus (GEO) data sets, mapped to the latest Xenopus genomes. BLAST - Users can BLAST against Xenopus genomes, RNA, and protein sequences
provides the service for microarray data storage, retrieval, analysis, and visualization ~31: 2093: April 1, 2007 MUSC database: The database is a repository for DNA microarray data generated by MUSC investigators as well as researchers in the global research community. ~45: 555: April 1, 2007 caArray at NCI: Cancer data, prepared for analysis ...