Ancylostoma ceylanicum

Genome Assembly & Annotation

Assembly

The genome assembly was produced by the Mitreva laboratory at the Genome Institute of Washington University, and submitted in late 2013 as part of the 50 Helminth Genomes project. The assembly was then improved as described in Magrini et al (2018).

Annotation

The gene predictions were made by the Mitreva laboratory at the Genome Institute of Washington University, and submitted in late 2013 as part of the 50 Helminth Genomes project. The annotation was then updated by GIWU, as described in Magrini et al (2018), by incorporating PacBio cDNA data (available from release 12), and later by WormBase ParaSite (release 15) to incorporate missing gene models: here we present a version retrieved in January 2020 from http://nematode.net.

Downloads

• Genomic Sequence (FASTA)
• Hard-masked Genomic Sequence (FASTA)
• Soft-masked Genomic Sequence (FASTA)
• Annotations (GFF3)
• Proteins (FASTA)
• Full-length transcripts (FASTA)
• CDS transcripts (FASTA)

Tools

• Search for sequences in the genome and proteome using BLAST
• Work with lists of data using the WormBase ParaSite BioMart data-mining tool
• Programatically access WormBase ParaSite data using the REST API
• Predict the effects of variants using the Variant Effect Predictor

Key Publications

• International Helminth Genomes Consortium. Comparative genomics of the major parasitic worms. Nat Genet, 2019;51(1):163-174
• Magrini V, Gao X, Rosa BA, McGrath S, Zhang X, Hallsworth-Pepin K, Martin J, Hawdon J, Wilson RK, Mitreva M. Improving eukaryotic genome annotation using single molecule mRNA sequencing. BMC Genomics, 2018;19(1):172

Navigation

Genome Browser (JBrowse)

Genome Browser (Ensembl)

Example gene page

Example gene tree

Gene Expression