ExpressAnalyst

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Download Databases for Local RNAseq Processing

For species "With a Reference Transcriptome", databases are Kallisto transcriptome index files for different species.
For species "Without a Reference Transcriptome", databases are ortholog databases from EcoOmicsDB, organized into different taxonomic groups. For more details, please visit Seq2Fun project page.

Species	Accession ID	Source
Homo sapiens (human)	GCF_000001405	NCBI
Mus musculus (mouse)	GCF_000001635	NCBI
Rattus norvegicus (rat)	GCF_000001895	NCBI
Danio rerio (zebrafish)	GCF_000002035	NCBI
Arabdopsis thaliana (thale cress)	Araport11_genes	Tair
Bos taurus (cow)	GCF_002263795	NCBI
Caenorhabditis elegans (roundworm)	GCA_000002985	NCBI
Coturnix japonica (Japanese quail)	GCF_001577835	NCBI
Daphnia magna (water flea)	GCA_001632505	NCBI
Drosophila melanogaster (fruit fly)	GCA_000001215	Ensembl
Folsomia candida (springtail species)	GCF_002217175	NCBI
Gallus gallus (chicken)	GCF_000002315	NCBI
Homarus americanus (American lobster)	GCA_018991925	NCBI
Hyalella azteca (freshwater shrimp)	GCA_000764305	NCBI
Oncorhynchus mykiss (rainbow trout)	GCF_013265735	NCBI
Pimephales promelas (fathead minnow)	GCF_016745375	NCBI
Raphidocelis subcapitata (type of microalga)	BDRX00000000	GenBank
Saccharomyces cerevisiae (yeast)	GCF_000146045	NCBI
Schistosoma mansoni (type of blood fluke)	GCA_000237925	NCBI
Creontiades dilutus (green mirid)	De novo assembly	NA
Lithobates pipiens (northern leopard frog)	De novo assembly	NA
Phalacrocorax auritus (double-crested cormorant)	De novo assembly	NA

Source Code

ExpressAnalystR GitHub repository (see installation instructions here)
Seq2Fun GitHub repository (see installation instructions here)
Web Framework: DropBox link (the source code is provided for transparency. It is not intended to run as production server which requires advanced system admin expertise to set up and to maintain).