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If there are federal and state tax liens for the years that you have paid off, you can have those liens released by having the IRS and/or state tax commission file a release of the tax liens for the year's you've paid up.
However, you can't remove the tax lien notices for the years that you haven't yet paid off. For example, if you've paid all of your 2005 taxes, you should be able to get a release for that year. But, if you still owe 2006 taxes, no release will be granted UNTIL the debt is paid in full.
For the IRS, you can fill out the following application to release the tax lien: http://www.irs.gov/pub/irs-pdf/f12277.pdf
For the state of New York, you can fill out this application: http://www.tax.ny.gov/pdf/current_forms/et/et30.pdf