Background | The different HPA data formats | HPAanalyze overview | Visualize protein expression data | Search HPA for genes of interest | Acquiring individual sample data from the Human Protein Atlas | Copyright

Summary | Background | The different HPA data formats | HPAanalyze overview | Obtaining HPAanalyze | Full dataset import, subsetting and export | Download and import data with hpaDownload() | The "histology" datasets | Other datasets | List available parameter for subsetting with hpaListParam() | Subset data with hpaSubset() | Export data with hpaExport() | Visualization | Unbrella function hpaVis() | Visualize tissue data with hpaVisTissue() | Visualize expression in cancer with hpaVisPatho() | Visualize subcellular location data with hpaVisSubcell() | Individual xml import and image downloading | The umbrella function hpaXml | Import xml file with hpaXmlGet() | View protein classes with hpaXmlProtClass() | Get summary and images of tissue expression with hpaXmlTissueExprSum() | Get details of individual IHC samples with hpaXmlAntibody() and hpaXmlTissueExpr() | Parse everything with hpaXmlParse() | Searching HPA data | Compatibility with hpar Bioconductor package | Acknowledgements | Copyright

The case | The solution | A simple gene search | Exact matches | Choosing result columns | Advanced field queries | Feeding results straight into the rest of HPAanalyze | Copyright

The case | The solution | Download and keep a local version of the xml files for yourself | Business as usual with hpaXml functions | Save your parsed objects | Copyright

The case | The solution | Import an xml file as usual | Parse everything with hpaXmlParse() | How the tables relate to each other | Worked example: joining tables together | Why this shape, and what to expect across genes | Save your parsed objects | Copyright

The case | The solution | Create your query | Visualization | XML extraction | Copyright

The case | The solution | Download and subset data | Convert dataframes to JSON | Write JSON file | In one function | Copyright

The case | The solution | Get the download links | Download the images | Notes | Copyright

Figure 2 | Figure 3 | Figure 4 | Figure 5 | Copyright