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Explore ESC Self-Renewal with StemSight Scout

Use our dynamic data visualization tool to discover novel genes associated with human and mouse ESC self-renewal.
Let StemSight Scout Be Your Guide

About These Networks

StemSight networks are probabalistic functional relevance networks specific to a single stem cell type in the context of a well-defined biological process. We currently have predictive networks available in the context of self-renewal for: human embryonic stem cells (hESCs), mouse embryonic stem cells (mESCs), and in a new comparative side-by-side hESC and mESC network view.

Tips for Using StemSight Scout to Explore Networks

Retrieving Gene-Centered Networks
Scout launches with a default network centered around the transcription factor Pou5f1. To retrieve a new network, enter your gene of interest in the "Search for" box. Scout recognizes official gene symbols (e.g. "Pou5f1"), synonyms (e.g. "Oct4"), and wildcards (e.g. "Pou5*"). If there are multiple genes associated with the search term you entered, Scout will present a list of possible matches, so you can select the gene you want. You can also recenter a network by clicking on any gene node in the displayed network. Enter multiple gene names (e.g. "Pou5f1, Sox2, Nanog") to draw a multi-centered network — or right click on a gene node and select "add node to query" to add a new gene to your current query. A complete log of your network queries for each session is displayed in the history pane. You can click on any query in this history to redraw that network.
Understanding the Keys to Scout Visualization
Edge color indicates the strength of the inferred functional relationship between genes. Node color indicates how correlated the gene is to genes in the mESC self-renewal gold standard. Orange indicates a known relationship documented in the literature. Triangle nodes mean not all edges at the specified edge weight are displayed, circle nodes means all edges at the designated edge weight are shown. Mouse over items in the curated sets pane to view which genes in the displayed network are involved in key developmental signaling pathways or have been identified as self-renewal genes in computational studies.
Customizing Your Network View
Click on white space around the network and drag to reposition it. Depending on your mouse settings, swipe downward to make the network larger, or upward to make it smaller. Right-click to view options to change network highlighting options, freeze one or more nodes in the network, hide nodes, and retrieve gene detail pages in external resources.
Accessing Edge Details and Underlying Data
Click on any edge to retrieve an edge detail page that shows information about the genes and the data that supports that edge. Use this information to characterize the edge and determine the nature of the relationship at the molecular level. Here you can link out to PubMed journal articles on studies that created supporting data and other resources.
Drilling Down to the Gene Expression Level
Use StemSight Spell to access mESC expression data that support edges.