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The yield of sorted nuclei in sort buffer (PBS) was determined with a hemacytometer, and 50 200 K nuclei were used for each ChIP.
Trypsinisation was stopped by the addition of medium, cells were spun down, washed in PBS and resuspended in 500 µl of sort buffer (1×PBS, 1mM EDTA, 25mM Hepes pH 7.0, 1% FCS).
For MNase fragmentation, nuclei in sort buffer were supplemented with PBS containing 0.1% Triton-X100 (PBS-Tx) to a volume of 400 µl, and CaCl2 to 1 mM.
For bath sonication, the nuclear suspension in sort buffer was adjusted to ChIP buffer conditions (10 mM Tris pH8, 100 mM NaCl, 0.1% sodium deoxycholate, 0.5% sarkosyl, 1% Triton-X100) in a volume of 500 µl.
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Following 30 min on ice, the cells were washed in cold sorting buffer (phosphate-buffered saline supplemented with 2% FCS and 1% bovine serum albumin) and resuspended in sorting buffer containing 0.5 μg/ml of streptavidin PE-Cy5.
We consider the offline sorting buffer problem.
We are given a random-access sorting buffer with a limited capacity.
Cells were resuspended in sorting buffer (1 mM EDTA: 25 mM HEPES: 1% FCS: 10 µg/ml PI: PBS).
Cells were collected in the sorting buffer, pelleted by centrifugation and flash-frozen to −80°C.
Adherent cells on passage 7 were resuspended in FACS (fluorescence-activated cell sorting) buffer, and the concentration adjusted to 10cells/mL.
10 cells from single cell suspensions were suspended in 100 μL fluorescence-activated cell sorting buffer, and Fc receptor was blocked with anti-mouse CD16/32 (clone 93, Biolegend).
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