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. 2020 Jun 18;31:105895. doi: 10.1016/j.dib.2020.105895
Subject Immunology and Microbiology: Virology
Specific subject area Human Endogenous Retroviruses and Oncology
Type of data Tables
Figures
Additional Data- text file (FASTA) of genomic sequences
How data were acquired Bioinformatic analysis of HERV-K elements in RNA-seq data (Salmon, HISAT2, DESeq2)
Data format Raw and Analysed
Parameters for data collection 91 HERV-K proviral sequences contained in the NCBI Data Repository (GenBank ID JN675007-JN675097) were concatenated into a single FASTA file. The HERV-K FASTA file was used to analyze a publically available RNA-seq dataset of Hepatoblastoma and Normal Liver Controls.
Description of data collection HERV-K FASTA file was used to perform a standard differential gene expression analysis across conditions with ensuing gene enrichment analysis (GO & KEGG) as well as a positional alignment analysis of RNA-seq reads across individual proviruses.
Data source location University of Virginia School of Medicine Charlottesville, Virginia
United States
Data accessibility With the article
Related research article David F Grabski, Aakrosh Ratan, Laurie R Gray, Stefan Bekiranov, David Rekosh, Marie-Louise Hammarskjold, Sara K Rasmussen; Upregulation of Human Endogenous Retrovirus-K (HML-2) mRNAs in hepatoblastoma: Identification of potential new immunotherapeutic targets and biomarkers; Jounral of Pediatric Surgery; Submitted.