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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 ...
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 ...
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 ...
Superfast and accurate read aligners. Subread can be used to map both gDNA-seq and RNA-seq reads. Subjunc detects exon-exon junctions and maps RNA-seq reads. They employ a novel mapping paradigm named seed-and-vote. Yes Yes Yes Yes Free, GPL 3 Taipan De-novo assembler for Illumina reads Proprietary, freeware for academic and noncommercial use UGENE
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 ...
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
RNA-Seq (named as an abbreviation of RNA sequencing) is a technique that uses next-generation sequencing to reveal the presence and quantity of RNA molecules in a biological sample, providing a snapshot of gene expression in the sample, also known as transcriptome.
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