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Duke University: Dataset Details, ID=Not Available

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
View this project in the NIH Research Portfolio Online Reporting Tools (RePORT)

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Title: An Adapted Killifish Genome Variant Browser

Accession Number: Not Available

Link to Dataset:

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.

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