Upgrade R3 from 4.6 to ECC5.0 and BW from 3.3 to 3.5 (Netweaver 04)

We are looking at upgrading R3 to ECC5.0 and upgrading BW from 3.3 to 3.5 using NetWeaver 04.
We would like to know if there are any dependencies here and if we do each upgrade in isolation what the likely impacts are.
So, if we upgrade the R3 side first what will we need to do to ensure that BW remains operational and vice versa if we upgrade BW first what will happen on the R/3 side?
Which route would be prove to be more cost effective - in terms of time and resource usage?  Will work need to be repeated, etc ....
Any/all advice very gratefully received.  Many thanks.
Sally

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