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DTSTART:20260916T140000Z
DTEND:20260916T160000Z
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SUMMARY:From Differential Expression to Mechanism: Protein–Protein Interaction Network Analysis with STRING
DESCRIPTION:\n\nDifferential expression analysis (e.g.\, DESeq2\, limma) is 
 powerful for identifying molecules whose expression changes across 
 conditions. However\, it often yields long gene lists that can be difficult 
 to interpret biologically. Pathway analysis methods such as 
 over-representation analysis (ORA) and Gene Set Enrichment Analysis (GSEA) 
 summarize results by testing overlap between differentially expressed genes 
 and predefined signatures\, but typically do not explicitly incorporate 
 known molecular interactions among the genes. Protein–protein interaction 
 (PPI) network analysis helps translate a list into biology by placing 
 differentially expressed genes into the context of known and predicted 
 molecular interactions. This context can reveal coordinated pathways and 
 protein complexes\, highlight modules of functionally related genes\, and 
 help prioritize candidate “key” (hub) proteins that connect multiple 
 altered processes—supporting hypothesis generation and targeted 
 follow-up.\n\nIn this hands-on workshop\, participants will use Cytoscape 
 and the STRING database (via stringApp) to build and analyze a PPI network 
 from a DESeq2-derived list of differentially expressed genes from 
 Alzheimer’s disease fusiform gyrus data.\n\n\n\nIn this session\, 
 attendees will learn how to:\n\n\n	\n	Import differential expression 
 results and retrieve STRING interaction networks in Cytoscape\n	\n	\n	Apply 
 confidence thresholds to reduce noise\n	\n	\n	Overlay expression statistics 
 (e.g.\, log⁡2FC\, adjusted p-value) onto the network\n	\n	\n	Identify hub 
 proteins in the network\n	\n	\n	Analyze the network to identify and 
 annotate functional clusters/modules\n	\n\n\nPrerequisites:\n\n\n	\n	Bring 
 a laptop with the latest version of Cytoscape installed\n	\n	\n	No 
 command-line or scripting experience required\n	\n
LOCATION:SHM L 111\, Cushing/Whitney Medical Library\, 333 Cedar Street\, Medical School
ORGANIZER;CN="Rolando Garcia-Milian":MAILTO:rolando.milian@yale.edu
CATEGORIES:Bioinformatics
CONTACT;CN="Rolando Garcia-Milian":MAILTO:rolando.milian@yale.edu
STATUS:CONFIRMED
UID:LibCal-17480436
URL:https://schedule.yale.edu/event/17480436
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