Page History

...

1. Open an Assay Details page.
   

   

2. In the Visualize and Select area, click one of the entities. Note that the width of some visualizations require you to scroll by clicking the arrows at the bottom of the page.

   Info
   title Assay Hierarchy
   The hierarchy of entities for assays according to the ISA-TAB standard is as follows, from less granular to more granular: Sample > Protocol > Data File

   For example, click the sample. Metadata for the sample appears.

   Info
   Follow this same procedure if you want to filter on protocol instead of sample.

   
   
   
   

3. From the Sample Name list, click the arrow to open the list of values. Each value is a Sample Name from the assay file, which in this case is a_mrna_transcription_profiling_nucleotide_sequencing.txt.
   

4. Click one or more values in the list to select them. To select multiple values, click one, wait for it to appear on the Metadata for Sample page, and then click the arrow again to select another value. To clear a selection, click that value again.
   Image Modified

   Info
   Some entities do not have associated metadata fields on which you can filter the study or assay. In that case, when you click the icon for that entity, you see a message letting you know that no metadata fields are available. Image Added

5. Click Filter Results.
   The Sample Count reduces from the 39 original values in the unfiltered assay file, a_mrna_transcription_profiling_nucleotide_sequencing.txt, to the 5 selected in this procedure.
   
6. Options you have at this point include continuing to explore this data set, downloading the metadata of the 3 values you selected, downloading the selected data of the 3 values you selected (which includes the metadata), or clicking Clear Filters to filter a different entity.

...

1. Open the investigation you want to download.
   The Investigation Details page appears.
   

2. Click the Download Full Data button.
   Your browser prompts you to open or save the file.
   Image Removedfull_archive.zip. If you save it, you may want to rename it to include the name of the investigation.
   Image Added

   Warning
   While it is compressed as a .zip file, this file may still be very large. Consider its size before downloading.

1. Enter your email address and click OK.
   The Success window appears.
   Image Removed
2. Click OK.
3. Look for an email in your inbox with the subject line File Download.
4. Save or open the file.

Downloading Full Data

The full data associated with an investigation combines the assay, investigation, and study files with the metadata and data files. Data files often include images. While it is compressed as a .zip file, it can still have a large file size. Before you choose to download an investigation's full data, note the file size listed on the Download Full Data button.

...

1. Follow your browser's instructions to open or save the file.

To download selected metadata

1. Filter a study or an assay until you reach a selection of investigation data you are interested in downloading. You may be interested in only the metadata so that you can see how that selection of entities was structured.
2. Click Download Selected Metadata.
   Your browser prompts you to open or save the .zip file.
   Image Added

3. Follow your browser's instructions to open or save the file

Downloading Selected Data

Downloading Selected Metadata

The metadata includes only the assay, investigation, and study text files, which are the file columns, field definitions, and placeholders that describe the structure of the data collected in this study. They are in Investigation-Study-Assay tab-delimited format (ISA-TAB), which is based on the ISA-TAB specification Image Removed .

To download metadata

Select an investigation and view its details.
The study details page appears.

1. Click .
   Your browser opens a download dialog box with your download file in it.
   Image Removed

2. Open the file or save it for later analysis.

   Info
   title Metadata File Contents
   The metadata file is in compressed format. It contains one folder called metadata and a text file for each of the following: assay, investigation, and study. The contents of the archive folder look similar to the following (10290 is just an example of the file identifier): metadata/    a_10290.txt    i_10290.txt    s_10290.txt

...