Hello Yogi,

I guess you mean by gel extraction, is when you run a gel and you know the size of the fragment that you are interested in, you cute this band from the gel, then extract or purify the DNA or RNA using a kit or any cleaning protocol. 

PCR clean up, is a process where you take a PCR product, clean or purify it to get rid of inhibitors, short amplicons, extra primers. 

Gel extraction advantage: cleaning short fragments and excessive primers plus size selection (roughly).

Gel extraction disadvantage: time consuming, requires good handling, high chance of contamination 

PCR clean up advantage: fast, user friendly, hard to contaminate 

PCR clean up disadvantage: no size selection

I hope this answers your question, 

Please let me know if you need more information.

Good luck,

Ahmed

Gel extraction is the process whereby you recover DNA or RNA from the gel for further use (e.g. cloning) 

Clean up is used immediately after PCR and before gel extraction to remove impurities and to get a clearer gel image following pcr. 

please explain question.

a/c what i have understood in gel extraction you run your product on Agarose gel and than you go for excision of your preferable band.

and in PCR clean up you use a kit and use your PCR product directly (without using gel ) .

Hello Yogi,

I guess you mean by gel extraction, is when you run a gel and you know the size of the fragment that you are interested in, you cute this band from the gel, then extract or purify the DNA or RNA using a kit or any cleaning protocol. 

PCR clean up, is a process where you take a PCR product, clean or purify it to get rid of inhibitors, short amplicons, extra primers. 

Gel extraction advantage: cleaning short fragments and excessive primers plus size selection (roughly).

Gel extraction disadvantage: time consuming, requires good handling, high chance of contamination 

PCR clean up advantage: fast, user friendly, hard to contaminate 

PCR clean up disadvantage: no size selection

I hope this answers your question, 

Please let me know if you need more information.

Good luck,

Ahmed