what is the difference between single end and paired end in sequencing

Question

[M K]

What is the main difference between single end and paired end in sequencing other than the first one used when we have a reference genome , and the second one in denovo case?

Answer 1

[Sam]

There are a lot of information regarding the topic on single end and paired end data. Generally, you can use paired end data even when you have reference data and you can also use single end reads for denovo assembly (as long as the read length is long with high coverage).

A quick google search returns the following:

http://en.wikipedia.org/wiki/Paired-end_tag

Answer 2

[morteza.mahmoudisaber]

This is short answer:

Answer 3

[ancient_learner]

This thread from seq answers might be useful http://seqanswers.com/forums/showthread.php?t=503