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cBio Cancer Genomics Portal: Network View
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Transcript of cBio Cancer Genomics Portal: Network View
![Page 1: cBio Cancer Genomics Portal: Network View](https://reader030.fdocuments.in/reader030/viewer/2022012913/5498babab47959ae2a8b456a/html5/thumbnails/1.jpg)
cBio Cancer Genomics PortalTutorial: The Network View
- Genes in context of biological interactions- Genomic profiles overlaid on interaction network- Filtering by genes of interest, interaction type & source, and genomic profile- Automatic network layout- Exporting as an image
![Page 2: cBio Cancer Genomics Portal: Network View](https://reader030.fdocuments.in/reader030/viewer/2022012913/5498babab47959ae2a8b456a/html5/thumbnails/2.jpg)
Genes in context of biological interactions
Others link seeds throughinteractions complied inPathway Commons
Interactions
Seed (specified) genes
![Page 3: cBio Cancer Genomics Portal: Network View](https://reader030.fdocuments.in/reader030/viewer/2022012913/5498babab47959ae2a8b456a/html5/thumbnails/3.jpg)
Genomic profiles overlaid on interaction network
Genomic profile data (mutation, copy number and mRNA expression profiles)
White to red color gradient for frequency of total alteration
![Page 4: cBio Cancer Genomics Portal: Network View](https://reader030.fdocuments.in/reader030/viewer/2022012913/5498babab47959ae2a8b456a/html5/thumbnails/4.jpg)
Filtering by genes of interest
Hide selected genes from the network
Search genes by name
Select genes from canvas or gene list under Genes tab
![Page 5: cBio Cancer Genomics Portal: Network View](https://reader030.fdocuments.in/reader030/viewer/2022012913/5498babab47959ae2a8b456a/html5/thumbnails/5.jpg)
Filtering by interaction type & source
Interactionsmerged by default
Shown individually
Type (color-coded) & source shown in interaction details
![Page 6: cBio Cancer Genomics Portal: Network View](https://reader030.fdocuments.in/reader030/viewer/2022012913/5498babab47959ae2a8b456a/html5/thumbnails/6.jpg)
Filtering by interaction type & source
Partial RB pathway with GBM genomic profile data.
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Filtering by interaction type & source
Uncheck
Click
Same pathway after filtering applied for edge types and sources
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Slide to threshold value
Filtering by genomic profile
Same pathway after genes with total alteration frequency 12% or less filtered out
TP53pathway
Or type threshold value
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Automatic network layout
Recalculate layout
Recalculate layout upon filtering operations
Open Layout Options Dialog
Hover over option to get quick help
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Exporting as an image
Save current network view as PNG image