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The human protein interaction network was retrieved from http://www.hprd.org/; MAWD- and MAWBP- interacting proteins were then searched for candidate protein-interaction sequence motifs (trimers and tetramers).
Candidate interacting proteins were then identified based on experimentally validated interaction annotations in the Human Protein Reference Database HPRDD, [48]) (http://www.hprd.org).org
To examine Rab7 interactors, FLAG Rab7 complexes were immunopurified from HEK293T cell lysates, separated by SDS PAGE and interacting proteins were then identified by mass spectrometry.
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Genes encoding a pair of interacting proteins are then subcloned into each of these libraries using blunt ligation, and the two vector ensembles are cotransformed into cells and screened or selected for pairs of complementing fragments.
Proteins were then blotted.
Using the Fisher's exact test, we then checked whether the transcripts for the interacting proteins were overrepresented among the top 10% in the ranked gene lists.
RBFOXi, PTBP1i, and SF2i interacting proteins were subjected to on-bead digestion.
Three pairs of interacting proteins were selected and characterized.
In Arabidopsis, three additional NIM1/NPR1 interacting proteins were identified.
The interacting proteins were eluted and analysed by western blots.
A number of additional JAK/STAT interacting proteins were identified.
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