Phenotype–Genotype Integrator (PheGenI): synthesizing genome-wide association study (GWAS) data with existing genomic resources

Ramos, Erin M.; Hoffman, Douglas; Junkins, Heather; Maglott, Donna; Phan, Lon; Sherry, Stephen T.; Feolo, Mike; Hindorff, Lucia A.

doi:10.1038/ejhg.2013.96

Cited by 214 publications

(185 citation statements)

References 4 publications

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“…Protein expression of the candidate genes was investigated using the Human Proteome Map (28) and the Proteomics DB (29). Genome-wide association was verified using the NCBI Phenome-Genome Integrator (PheGenI) (30) and the Genome-Wide Association Studies Catalogue, GWAS (31). Clinical variations were verified using the ClinVar database (32).…”

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confidence: 99%

Mining Exosomal Genes for Pancreatic Cancer Targets

Narayanan

2017

CGP

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confidence: 99%

Mining Exosomal Genes for Pancreatic Cancer Targets

Narayanan

2017

CGP

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“…The following genomewide association tools were used: the Genetic Association Database, GAD [28], the National Center for Biotechnology Information (NCBI) Phenotype-Genotype Integrator, PheGenI [29], the Expression Quantitative Trait (eQTL) GtEx browser [30], the Database of Genomic Variants, DGV [31], Clinical Variations and the ClinVar [32].…”

Section: Methodsmentioning

confidence: 99%

Ebola-Associated Genes in the Human Genome: Implications for Novel Targets

Narayanan¹

2014

MOJPB

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“…48 Genome-wide association was verified using the NCBI Phenome-Genome Integrator, PheGenI, 49 and the Genome-Wide Association Studies Catalogue.…”

Section: Other Bioinformatics Analysesmentioning

confidence: 99%

Zika virus Therapeutics: Drug Targets and Repurposing Medicine from the Human Genome

Narayanan¹

2016

MOJPB

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Zika viral infection is caused by an emerging mosquito-borne virus, the Zika virus (ZIKV) and threatens to become a global pandemic. While not life threatening, the Zika Virus Disease (ZVD) is suspected to be associated with severe neurological disorders including Guillain-Barré syndrome and microcephaly. Currently, no known cure or diagnostic tests for ZVD are available. The host cell molecular targets are unknown for ZIKV. The ZIKV is related to various other mosquito borne viruses including the Chikungunya, Dengue, Japanese encephalitis, Spondweni, Yellow fever and West Nile viruses. The host cell targets are known for most of these viruses. All of these viruses harbor common protein motifs and domains, raising the possibility of shared molecular targets in the host genome. To facilitate target(s) discovery for the ZIKV therapy, the disease-and protein-knowledge databases were datamined for Zika-related viruses. An initial database of 251 genes was established. Additional filtering using variants associated with the Zika-related viruses and neurological disease phenotypes, identified 55 putative candidate ZIKV targets. These encompass druggable proteins including adhesion molecules, chemokines, enzymes, interleukins, receptors and transporters. Genes linked to Guillain-Barré syndrome and microcephaly was among the Zika candidate genes. The protein expression of the candidate genes was detected in diverse body fluids. Drug bank datamining of these candidate targets identified seventy-nine FDA-approved drugs of the class antineoplastics, anti diabetic, anti-inflammatory, antivirals, antibiotics, statins and neutraceuticals. The database of genes from the study provides a framework for diagnosis and therapy of the ZVD. The FDA-approved list of drugs, if verified, may offer a repurposing use for the treatment of the ZVD.

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Phenotype–Genotype Integrator (PheGenI): synthesizing genome-wide association study (GWAS) data with existing genomic resources

Cited by 214 publications

References 4 publications

Mining Exosomal Genes for Pancreatic Cancer Targets

Mining Exosomal Genes for Pancreatic Cancer Targets

Ebola-Associated Genes in the Human Genome: Implications for Novel Targets

Zika virus Therapeutics: Drug Targets and Repurposing Medicine from the Human Genome

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