Manual
How to use DiiPS software.
Table of Contents
Introduction
DiiPS (Digital Information of iPS Cells) is a software developed to support researchers in selecting the most suitable disease-specific iPS cells (iPSCs) for their studies by comprehensively presenting their pluripotency through omics data, including micropatterned culture analysis. It can compile multiple experimental results that verify the differentiation potential of iPS cells and visualizes the differences in characteristics based on these experimental results. Additionally, it provides information on the originating diseases and the number of related publications, while also linking to the cell catalog of the RIKEN BioResource Research Center (BRC).
How to use DiiPS-R1
The top page
Menu
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"Home" switches the screen to the top page.
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"About" provides detailed information about this software.
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"Menu" switches the screen to the user manual (this document) for this software.
Analysis List
The visualization of multipotency of iPSC in DiiPS software is based on the results of each validated experiment. In the "Analysis List", you can select one of the experiments used for evaluation and jump to the multipotency visualization screen (heatmap screen).
Heatmap Screen
The Heatmap Screen consists of information on each iPS cell (table part) and a heatmap of omics analysis, allowing you to view the characteristics of each cell and differences in multipotency at a glance. Additionally, various filtering operations are available.
How to Operate the Heatmap Screen
- Opening the Detail Screen
Click on the ID string in the Cell ID column to open the Detail of a Cell Screen.
For detailed instructions, see the "Detail of a Cell Screen" section below.
- Accessing the BRC Cell Catalog
Click the blue arrowhead next to the Cell ID to open the BRC cell catalog in a new window and view detailed information.
- Filtering by Column
Clicking the funnnel icon in each column opens a text input screen, allowing for filtering search.
In the heatmap, you can specify the expression intensity using the slider.
- Switching Between AND / OR Search Conditions
Use the AND / OR icon in the upper-right corner of the heatmap header to toggle between AND search and OR search when applying multiple filtering conditions.
- Settings (Gear Icon)
Click the gear icon at the far right of the heatmap header to toggle column visibility and change the color scheme (color set).
Details of a Cell Screen
Clicking on the ID string in the Cell ID column opens the Detail Screen. This screen allows you to view detailed information about each cell.
Operations on the Detail Screen
- Switching Cells with Arrow Keys (Use ArrowUp / ArrowDown keys to navigate)
While the Detail Screen is open, you can switch between cells by pressing the Up or Down arrow keys on your keyboard.
- Similarity Filtering
Adjusting the Similarity slider allows you to display only cells with similar differentiation characteristics on the heatmap. A lower Similarity value filters for cells with more similar differentiation properties. Press the Clear button to reset the filtering.
Link to RIKEN BRC Cell Catalog
The cells listed in this system are available from RIKEN BRC. You can jump to the catalog page and view detailed information by clicking the icon next to the Cell ID or the Cell Catalogue button at the bottom of the Detail Screen.
