Chemical Screening

Axolotls can be used to efficiently screen chemicals for toxicity and effects on tissue regeneration. This database reports chemicals that were screened using an axolotl embryo tail regeneration model. Chemical outcomes on tail regeneration were classified as either inhibitory, non-inhibitory, or toxic, and chemicals that were validated in a second screen are noted. The database can be searched using a chemical's name, structure (SMILES), molecular weight (ML), or bioactivity.

For more details about the chemical screening project, click here.

To learn how to perform the axolotl embryo tail regeneration assay, click here. 

 

Search for Chemical Name/SMILES/MW/Bioactivity                                                                                                                                                                                                                                                                           

     
 

Example Query:

Chemical Name = Romidepsin 

SMILES = C\C=C1\NC(=O)[C@H]2CSSCC\C=C\[C@H](CC(=O)N[C@@H](C(C)C)C(=O)N2)OC(=O)[C@@H](NC1=O)C(C)C     

MW = 540.69

Bioactivity = Histone deacetylase inhibitor (HDAC)

Outcome = Inhibits tail regeneration at 10 uM

Validated = Yes


We provide three assemblies for BLAST search of the A. mexicanum genome. To get search results faster, limit the number of sequences in your query.

1. The Amex_PQ.v4 database was built from a chromosomal scale assembly reported by Smith et al 2019. For small chromosomes, the results of BLAST searches are reported for the entire chromosome. For large chromosomes, the results of BLAST searches are reported for P or Q chromosome arms, or regions within P or Q chromosome arms.

For example, Chr1P is split into Chr1P:0-1,000,000,000 and Chr1P:1,000,000,000-1,477,091,900. In this case, alignments are reported relative to the position 0 or 1,000,000,000. A Chr1P alignment spanning 4,500 - 5,300 will be reported as either Chr1P:4500-5300 or Chr1P:1,000,004,500-1,000,005,300.

 
2. The ambMex3 database was built from an assembly published by Nowoshilow et al 2018.
 

3. The Amex_female.v1 database was built from an assembly used by Keinath et al 2018 to identify the sex-determining region in the axolotl genome.