EcoToxXplorer

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EcoToxXplorer accepts RNA-seq count data table as input. There is a standard format which needs to be followed. Hover your mouse to the question mark next to Data File for more details. If custom IDs are used, they should not contain any "." symbols - this will result in truncated IDs.

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Differential expression examples

EE2 RNA sequencing

Dataset Card

Gene expression of liver tissue from Japanese quail (Coturnix japonica) under 3.3 and 33.3 (µg/g) of Ethinylestradiol exposure

Ethinylestradiol (EE2) is a model endocrine disrupting chemical. This dataset was included to give an example of RNA sequencing data analysis.

WWTP field study

Dataset Card

18 Agilent-019597 FHM_Denslow_8x15K data, normalized, log 2 scale (NCBI accession: GSE96678).

Gene expression of fathead minnow liver exposed to Ely WWTP effluent. Treatment = upstream of WWTP, WWTP effluent point source, downstream of WWTP.

Dose-response examples

Bromobenzene

Dataset Card

This dataset demonstrates dose-response analysis with microarray data from rats. (DOI 10.1007/s00204-016-1886-5)

Chemical: Bromobenzene (CAS number: 108-86-1). Doses: 25, 100, 200, 300, and 400 mkd. Tissue: Liver. Organism Rattus norvegicus (F344 rats). Sex: Male. Duration: 2 weeks.

TCDD

Dataset Card

This dataset demonstrates dose-response analysis with RNA sequencing data from mice. (DOI 10.1186/s12864-015-1527-z)

Chemical: TCDD (CAS number: ). Doses: 0.01, 0.03, 0.1, 0.3, 1, 3, 10, and 30 ug/kg. Tissue: Liver. Organism Mus musculus. Sex: Female. Duration: 4 weeks.

DE analysis can be performed on unannotated RNA-seq data in cases where annotation is not supported or to perform transcript-level DE analysis. Annotation will be required for functional analysis. Please press to confirm if you wish to analyze your data unannotated.