A method of separating ions includes providing a FAIMS analyzer region for separating ions, the FAIMS analyzer region in fluid communication with an ionization source and with an ion detecting device. The method further includes affecting a gas composition within a first portion of the FAIMS analyzer region to be different from a gas composition within a second portion of the FAIMS analyzer region. The establishment of a gas composition gradient within the FAIMS analyzer region enhances ion focusing and ion transport efficiency.

 
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