Editing Interactome (section)

==Molecular interaction networks==
Molecular interactions can occur between molecules belonging to different biochemical families (proteins, nucleic acids, lipids, carbohydrates, etc.) and also within a given family. Whenever such molecules are connected by physical interactions, they form molecular interaction networks that are generally classified by the nature of the compounds involved. Most commonly, ''interactome'' refers to ''[[protein–protein interaction]]'' (PPI) network (PIN) or subsets thereof. For instance, the Sirt-1 protein interactome and Sirt family second order interactome<ref>{{cite journal|last=Sharma|first=Ankush |author2=Gautam VK |author3=Costantini S |author4=Paladino A |author5=Colonna G|title=Interactomic and pharmacological insights on human Sirt-1|journal=Front. Pharmacol.|date=Feb 2012|doi=10.3389/fphar.2012.00040|pmid=22470339|pmc=3311038|volume=3|pages=40|doi-access=free }}</ref><ref>{{cite journal|last=Sharma|first=Ankush|author2=Costantini S |author3=Colonna G |title=The protein–protein interaction network of human Sirtuin family|journal=Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics|volume=1834|issue=10|pages=1998–2009|date=March 2013|arxiv=1302.6423|pmid=23811471|doi=10.1016/j.bbapap.2013.06.012|bibcode=2013arXiv1302.6423S|s2cid=15003130}}</ref> is the network involving Sirt-1 and its directly interacting proteins where as second order interactome illustrates interactions up to second order of neighbors (Neighbors of neighbors). Another extensively studied type of interactome is the protein–DNA interactome, also called a ''gene-regulatory network'', a network formed by transcription factors, [[chromatin]] regulatory proteins, and their target genes. Even ''[[metabolic network]]s'' can be considered as molecular interaction networks: metabolites, i.e. chemical compounds in a cell, are converted into each other by [[enzymes]], which have to bind their substrates physically.

In fact, all interactome types are interconnected. For instance, protein interactomes contain many enzymes which in turn form biochemical networks. Similarly, gene regulatory networks overlap substantially with protein interaction networks and signaling networks.