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Calculations of mitochondrial transport parameters were as described before (20) except that overall transport of mitochondria in Figures 1 and 5 was analyzed from kymographs using the SlopeToVelocity plugin described previously (58).
Isolations of hydrogenosomes were performed exactly as described before in Zimorski et al. (2013) except for an additional isopycnic centrifugation in 45% (v/v) Percoll density gradient with two intermediary washing steps to remove contaminating fractions.
Supernatants were collected as described before [10].
QPCR conditions were as described before [ 20].
Cell-culture conditions were as described before.
Try using hair spray as described before.
HLA-DR1 transgenic mice were primed as described before, except that the recombinant protein was used instead of peptide antigens.
4C data analysis and Array design were performed as described before except that hybridization with differentially labeled genomic DNA was omitted.
Image acquisition was done as described before, except that a magnification of 150x was used (Leica MZ16 FA).
These enrichment analyses were performed the same way as described before, except the background gene set used, which in this case is the set of all genes contained in the entire B cell network of Lefebvre et al. [ 36] which are also present on the microarray platforms investigated (n = 5,548).
Faire was performed as described before [36] except that selected genomic sites were analyzed by real-time Q-PCR.
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