boost converter for ultra low power application
I will have problem with inductor design because low input current
  (about 500 uA) will cause extremely high inductor.


No, this is not the case in burst mode operation. For example the LTC3525 specifies that the burst mode quiescent current is typically 7 uA and if you look at the picture below you can see this.



I'm not saying this device is perfect for your needs but it does tick several boxes such as reasonable efficiency on light loads (maybe as low as 100 uA), low start-up voltage and an inductor value of 10 uH or thereabouts.

The formula you used to determine inductance is not when operating in burst mode. The capacitor at the input soaks up the energy delivered by the power source and this means your quiescent average current from the power cell can be very low providing your output current (boosted output) average load current is also very low.