Nimrod Rappoport explains MONET (#Multiomic patient module detection by omic selection) at #RECOMB #CCB. Key idea: subgroups are not always the same across omics. "Consensus clustering across omics" - I think of it as a next step after SNF. Preprint: biorxiv.org/content/10.110… Example: nodes=patients, links = weights (positive=similar, negative=dissimilar). Very interesting implementation starting from nearest neighbours and then doing iterative improvement trying various modifications of modules. Also can be applied to gene networks.

PathME unsupervised #multiomics
1) genes space → pathways space
2) for each pathway: collapse pathways from multiple omics to one per patient
3) sparse NMF biclustering

✓compared against SNF and iCluster
✓TCGA x 4
✓hyperparameters
✓source code
✓5-fold CV

#SundayMultiOmics Article: doi.org/10.1186/s12859…
GitHub: github.com/AminaLEM/PathME

Figure © by authors, reused under CC-BY 4.0:
creativecommons.org/licenses/by/4.0

#omics #NeuralNetworks

Multi-Omic inTegrative Analysis (MOTA): an application of differential network analysis to #multiomics.

✓3 non-TCGA datasets (HCC vs CIRR)
✓explanations for parameters & rgCCA choice
✓good at known cancer drivers recovery
✓consistent across cohorts

#SundayMultiOmics 1/n [[ Detailed description & comments follow ]]
Link: doi.org/10.3390/metabo…
Figures © by authors, reused under CC-BY 4.0
creativecommons.org/licenses/by/4.…
Developed @LombardiCancer @gumedcenter (sorry I could not to find authors on Twitter)

A true gem among #multiomics preprints: Integrative Network Fusion by @MarcoChierici, @nicole_bussola, @viperale, et al:

✓ 3 TCGA cancers & simulated data
✓ cross-validation described in detail
✓ flow diagram
✓ source code & data shared
✓ packages w/ version, cited

/n - [the method description & comments follows]
- link: biorxiv.org/content/10.110…
- licence the above figures/tables: CC BY-NC-ND 4.0
- an earlier version of INF was previously presented in 2018: doi.org/10.1186/s13062…
- this is the first tweet in #SundayMultiOmics series