Hi-C of Plasmodium falciparum var2csa knockout
Infected RBCs were collected at 24 h.p.i. and chromatin crosslinked using 1.25% methanol-free formaldehyde. DNA digested using MboI restriction enzyme (NEB) before filling 5' overhangs using biotinylated dCTP then ligating ends and decrosslinking. Chromatin was fragmented using the Covaris S220 sonicator and collected using Dynabeads MyOne Streptavidin T1 beads. After end repair and a-tailing samples were PCR amplified using the KAPA HiFi HotStart ready mix (KAPA Biosystems) with NEBNext multiplex oligos (NEB).