In general, sequencing a complete transcript nowadays is easy using next generation sequencing (NGS) techniques. Just retro transcribe, make the cDNA library, add the adaptors (depending on which sequencing technique are you using) and sequence. On the other hand, if you want to know full protein expression, that’s kind of hard. The most used thechnique to determine different protein levels are based on the use of antibodies. So for that you should have a support whith thousands of different antibodies detecting each one a different protein to determine translational levels from RNA. This is way more expensive than transcriptics. A lot of people tend to suppose that more RNA means more protein. That’s one approach, but studies have revealed that translational control may be even more important than transcriptional control over the final amount of protein you got. So yes, making a proteomics full study would be a much better idea, but way more expensive as well. Ideally, you should also study Interactome, but as I know, there is no a “massive interactome” protocol.