Superfund Research Program
Duke University Superfund Research Center - Developmental Co-Exposures: Mechanisms, Outcomes, and Remediation
Center Director: Heather M. Stapleton
Grant Number: P42ES010356
Funding Period: 2000-2027
Program Links
Title: An Adapted Killifish Genome Variant Browser
Accession Number: Not Available
Repository: SuperFunBase
Data Type(s): Genome Maps, Genome Sequences
Experiment Type(s): RAD-seq, RNA-seq, Whole-genome re-sequencing (WGS)
Organism(s): Fundulus heteroclitus
Summary: These data include Restriction site Associated DNA sequencing (RAD-seq), whole-genome sequencing (WGS), and RNAsequencing (RNA-seq) data obtained from multiple populations of PAH- or PCB- sensitive and resistant fish. We established harmonized, best-practice pipelines using standard genomics data formats and remapped all of the data to a new killifish reference genome assembly. We then loaded the data and associated metadata to an instance of the open source genome browser software JBrowse, which allows the data to be visualized and queried. To facilitate comparison of killifish and human genetic variation, we mapped orthologous human genes onto the killifish genome with the ultimate goal of overlaying human variants onto killifish genes.