Hey psk,
There are two approaches here. If you know enough about the noise, you can write a program to filter it out. For instance, LabVIEW 7.0 has filter express VIs. Secondly, you could look into shielding your equipment. Are you using a shielded terminal block, cable, and a DAQ board with an electronic shield?
Let us know some of the details if you want any help figuring out what we can do.
Best regards,
Justin T.
National Instruments