hpa.data

A data.table with 1,088,694 rows and 4 columns (Gene, Tissue, FPKM, TissueSpecificity):<ul>
<li>Gene: Ensembl gene ID</li>
<li>Tissue: Human tissue type</li>
<li>FPKM: Mean expression of that gene in units FPKM+1</li>
<li>TissueSpecificity: The fold-change in expression between mean expression in that tissue and mean in all 18 tissues.</li>
</ul>

datasets

Contains summary data on gene expression in normal human tissues from the Human Protein Atlas for use with the
Tissue-Adjusted Pathway Analysis of cancer (TPAC) method.
Frost, H. Robert (2023) "Tissue-adjusted pathway analysis of cancer (TPAC)" <doi:10.1101/2022.03.17.484779>.

H Robert Frost

TPACData

Human Protein Atlas Data for Tissue-Adjusted Pathway Analysis of
Cancer (TPAC)

H. Robert Frost

hpa.data function

A data.table with 1,088,694 rows and 4 columns (Gene, Tissue, FPKM, TissueSpecificity)

Format

Gene expression data for normal human tissues from the Human Protein Atlas (HPA). This data was specially processed by the HPA group as FPKM values (file "HPA.normal.FPKM.GDCpipeline.csv") using a pipeline similar to that employed by GDC for the TCGA RNA-seq data. — hpa.data

Gene expression data for normal human tissues from the Human Protein Atlas (HPA). This data was specially processed by the HPA group as FPKM values (file "HPA.normal.FPKM.GDCpipeline.csv") using a pipeline similar to that employed by GDC for the TCGA RNA-seq data.

hpa.data: Gene expression data for normal human tissues from the Human Protein Atlas (HPA). This data was specially processed by the HPA group as FPKM values (file "HPA.normal.FPKM.GDCpipeline.csv") using a pipeline similar to that employed by GDC for the TCGA RNA-seq data.

Description

Usage

Arguments

Format

References