mousemine computational platform for mouse genome informatics data access
DESCRIPTION
Slides to accompany: http://youtu.be/FtlsoM8TGGs This video and slideshow demonstrates usage of the MouseMine computational platform for flexible batch data access. Templates, list analysis tools and custom queries made straightforward.TRANSCRIPT
Module 4: MouseMine at MGI
Introduction to MouseMine
Online computational platform to access MGI data
flexible queries from templates or fully customizable
queries
iterative refinement
point-and-click visual interface
list analysis tools, including enrichment statistics
integrated and compatible with other InterMOD
platforms (cross-species analysis)
downloadable reports, saving to online accounts or
forwarding to Galaxy
Locating MouseMine
Performing a template query
Search for all GO terms
associated with Mmp9
mmp9
Search results table
sort
removevisibility
column statistics
√
Search results table
Search results table
Iterative result
Filtered to only those GO
associations with “IDA /
Inferred by direct assay”
as the evidence code
Added a column for
positional coordinates
Working with lists
MGI:87853 MGI:1352629 MGI:87874 …
Confirm list matches
List tools 1: view and manipulate
List tools 2: enrichment analysis
widgets
Human disease
(MEDIC) AnatomyMammalian
phenotype
Gene Ontology
(GO)Chromosome
distribution
List tools 3: template quick links
Summary
MouseMine allows straightforward, flexible batch-scale querying of MGI data
Multiple useful list analysis tools
contact [email protected] with any questions