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This network is expanded by predicted interactions (Red edges), and several experimentally determined interactions were also predicted (Green edges).
Experimentally determined interactions appear to embed proteins that are part of the rich club (inset), mostly carrying parasite specific functions.
In addition, each available PPI database uses its own extraction, curation and storage protocols, they do not necessarily explore the same scientific papers and are composed of different compositions of experimentally and computationally determined interactions.
Changing our focus on a core set of 2, 811 experimentally determined interactions among 1, 308 proteins in P. falciparum [1], we observe that this network shows a slightly mixed rich-club signal encountering a minimum at k = 19 and reaching a maximum at k = 45 (Fig. 1b).
In Fig. 2b, we focus on the sub-network that is spanned by proteins that have at least 19 neighbors, a degree cut-off that corresponds to the minimum of the rich-club coefficient in the network of experimentally determined interactions.
Our results confirmed a number of the previously determined interactions.
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Therefore, the experimentally determined interaction set might carry erroneous signals.
Relative juxtapositioning of Ets interaction partners demonstrates that structurally determined interaction interfaces are limited to two areas.
For each remodeling-modification interaction identified above, we determined interaction state between chromatin remodeler and histone-modifying enzymes of the histone modification using a general repository of experimentally determined protein-protein interactions [ 31].
Structure determining interactions between polymer sites and counterions are indicated.
This is different from more conventional play with dolls, where children create play-worlds born of their imagination, moving dolls and determining interactions with other people and other dolls.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com