When we do Chip-seq using Flag system. We normally incubate cell lysates with anti-flag antibody overnight, then Immunoprecipitated with protein G beads. My question is can I use anti-flag m2 beads direct incubate with cell lysates for chip-seq?
Hi Jinhu, yes, you can use the beads coupled to the antibody directly for your ChIP experiment. Incubate your lysates with the beads overnight, and continue with the washes. Just note that the efficiency of you ChIP may be different with the direct method.
Hi Olga, Thank you. Is the efficiency much lower than the classific method?
Hi Jinhu, in an ideal case, these two approaches should give the same result. However, when the affinity of antibody to the beads is not ideal, using the direct method is recommended. I guess in your situation it should be fine, if the indirect method is already working for you.
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