Changing the product status to Discontinued will remove it from the online store. You can do this from the drop down field on the Product list page. For more information on product status, see the Tool Tip (question mark) next to the Product Status field in any product.
We strongly recommend that you navigate to the Products Section in the Training Center in your OMS, and download the document called "Best Practices for Product Catalog Management" for more very valuable information on this topic and others.