Closed:How to Design Methylation Primer for LINE-1 to Indicate Genome-wide DNA methylation

Question

[Shicheng Guo]

Hi All,

Usually, we will apply the methylation level of Line-1 to indicate the globe DNA methylation level, however, since Line-1 is kind of repeat sequence, How to design a universal primer to duplicate all the Line-1 sequence in human genome?

Line-1 Methylation Primer Set-2019

BSP primer for LINE-1 in Cell Death & Disease, 2019, PMID: 30578410

   F, 5′-AGTAGGGYGAGGTATTGTTTTATTTG-3′
   R, 5′-AAACTACTATACTAACAATCAACARAATTCC-3′

Line-1 Methylation Primer Set-1

5′-GGACGTATTTGGAAAATCGGG-3′ 
5′-AATCTCGCGATACGCCGTT-3′ 
5′-TCGAATATTGCGTTTTCGGATCGGTTT-3′ 

Line-1 Methylation Primer Set-2

5′-TTGAGTTGTGGTGGGTTTTATTTAG-3′ 
5′-TCATCTCACTAAAAAATACCAAACA-3′.

Line-1 Methylation Primer Set-3

5’-TTGGTTAGGTGTGGGATATAGTT-3’
5’-CAAAAAATCAAAAAATTCCCTTTCC-3’

Line-1 Methylation Primer Set-4

Line-1 F     5′TTATTAGGGAGTGTTAGATAGTGGG3′
Line-1 R     5′CCTCTAAACCAAATATAAAAT ATAATCTC3′;
ALU-C4 F     5’GGTTAGGTATAGTGGTTTATATTTGTAATTTTAGTA3’
ALU-C4 R     5’ATTAACTAAACTAATCTTAAACTCCTAACCTCA3’
----------------------------------------------
Line-1 met      VIC–TACTTCGACTCGCGCACGATA-MBG3'
Line-1 unmet    6FAM–CCTACTTCAACTCACACA-MBG3'
ALU-C4          6FAM-CCTACCTTAACCTCCC-MGB3'
----------------------------------------------

Line-1 Methylation Primer Set-5

F, 5′-GCGAGGTATTGTTTTATTTGGGA-3′
R, 5′-CGCCGTTTCTTAAACC-3′

Thanks.