Navigating Single-Cell Datasets
Diverse complementary omics, imaging metadata and quantitative data types are provided for interactive exploration in LungMAP.net. In addition to these LungMAP hosts LungMAP consortium and community single-cell RNA-Seq datasets for humans, non-human primate and mice via a series interactive portals, spanning different time-points and disease. These websites include simple navigation as well as advanced query functions which we will walk through in the below tutorials. Advanced features include: 1) annotations of your own or community single-cell datasets with LungMAP reference cell-populations (CellCards and Azimuth), 2) identification of novel cell populations present in your dataset (healthy or diseased) (ToppGene and ToppFun) and 3) identification and visualization of differentially expressed genes at different developmental time-points or age in different lung cell populations. Website features are growing, so expect new features to be added overtime, including tutorials focusing on re-analysis of raw single-cell RNA-Seq and imaging datasets using advanced new tools (Terra.bio and OMERO, respectively).
Step-by-Step Tutorials
Tutorial 1: Supervised annotation of scRNA-Seq datasets (Azimuth)
Tutorial 2: Navigation of CellCards and Reference scRNA-Seq
Tutorial 3: Exploration of Diverse Lung scRNA-Seq Compendiums at LungMAP.net
Tutorial 4: Advanced Analysis of Lung Single-Cell Genomics Data in LGEA and ToppCell
Tutorial 5: Cloud-based omics data analysis with Terra
Tutorial 6: Data Submission and Metadata Curation Guide for the LungMAP Ingest Broker
Video Tutorials
Video 1: LungMAP Portal Ecosystem - Understanding the Lung at the Systems Level
Video 2: Exploring and Analyzing LungMAP Data in Terra
Video 3: Data Submission and Metadata Curation in the LungMAP Ingest Broker
Video 4: LungMAP-Search