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Interactive visualizations for protein complexes from hu.MAP 1.0 and hu.MAP 2.0 with RL

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RL_humap_prediction

Interactive visualizations of results on hu.MAP 1.0:

To investigate the complexes identified by the RL algorithm interactively, visualizations are available for the 1157 learned complexes here for:

All Learned Complexes

All Learned Complexes, sortable by protein annotation scores

All Learned Complexes, sorted by number of SARS-CoV-2 interacting hu.MAP 1.0 proteins

SARS-CoV-2 interacting hu.MAP 1.0 protein complexes, sortable by protein annotation scores

hu.MAP 1.0 proteins and their corresponding learned protein complexes

We also sorted hu.MAP 1.0 proteins by their annotation scores, and indicate the learned complexes each protein is a member of, here: hu.MAP 1.0 proteins and their corresponding protein complexes, sorted in ascending annotation score order

We also make available a list of protein complexes that contain proteins interacting with SARS-CoV-2 proteins here: SARS-CoV-2 interacting hu.MAP 1.0 proteins and their corresponding protein complexes

Similarly, sorted in ascending order of annotation score here: SARS-CoV-2 interacting hu.MAP 1.0 proteins and their corresponding protein complexes, sorted in ascending annotation score order

Complexes interacting with SARS-CoV-2 proteins can be visualized by exploring different complexes from Complex 1 to Complex 1157 by changing the last part of the URL in: https://marcottelab.github.io/RL_humap_prediction/humap/Predicted_Cov/Complex1.html

SARS-COV2 Map with predicted complexes from hu.MAP 1.0

Interactive visualizations of results on hu.MAP 2.0:

To investigate the complexes identified by the RL algorithm interactively, visualizations are available for the 3614 learned complexes here for:

All Learned Complexes

All Learned Complexes, sortable by protein annotation scores

All Learned Complexes, sorted by number of SARS-CoV-2 interacting hu.MAP 2.0 proteins

SARS-CoV-2 interacting hu.MAP 2.0 protein complexes, sortable by protein annotation scores

hu.MAP 2.0 proteins and their corresponding learned protein complexes

We also sorted hu.MAP 2.0 proteins by their annotation scores, and indicate the learned complexes each protein is a member of, here: hu.MAP 2.0 proteins and their corresponding protein complexes, sorted in ascending annotation score order

We also make available a list of protein complexes that contain proteins interacting with SARS-CoV-2 proteins here: SARS-CoV-2 interacting hu.MAP 2.0 proteins and their corresponding protein complexes

Similarly, sorted in ascending order of annotation score here: SARS-CoV-2 interacting hu.MAP 2.0 proteins and their corresponding protein complexes, sorted in ascending annotation score order

Complexes interacting with SARS-CoV-2 proteins can be visualized by exploring different complexes from Complex 1 to Complex 3614 by changing the last part of the URL in: https://marcottelab.github.io/RL_humap_prediction/humap2/Predicted_Cov/Complex1.html

SARS-COV2 Map with predicted complexes from hu.MAP 2.0

References:

M. V. Palukuri, R. S. Patil, and E. M. Marcotte, “Molecular complex detection in protein interaction networks through reinforcement learning.” bioRxiv, p. 2022.06.20.496772. doi: 10.1101/2022.06.20.496772.

Complexes from CORUM and Super.Complex on hu.MAP 1.0 and hu.MAP 2.0 are available here: https://marcottelab.github.io/super.complex_website_humap/

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