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Table 1 MSP primers

From: Human mammary cancer progression model recapitulates methylation events associated with breast premalignancy

Gene Name

Forward Primer (5'-3')

Reverse Primer (5'-3')

Product size (bp)

Primer location relative to TSS (bp)

Ref

p16INK4A-U

TTA TTA GAG GGT GGG GTG GAT TGT

CAA CCC CAA ACC ACA ACC ATA A

151

+132 to 283

[22]

p16INK4A-M

TTA TTA GAG GGT GGG GCG GAT CGC

GAC CCC GAA CCG CGA CCG TAA

150

+132 to 282

 

HOXA9-U

TTG GGG TTA GAT AGG GAG TTG GGA

AAA AAT AAA AAC AAA AAA CAA ACA AA

167

-4453 to -4286

[16]

HOXA9-M

TCG GGG TTA GAT AGG GAG TCG GGA

AAA ATA AAA ACG AAA AAC AAA CGA A

166

-4453 to -4287

 

CCND2-U

AGA GTA TGT GTT AGG GTT GAT T

ACA TCC TCA CCA ACC CTC CA

108

-1167 to -1059

[12]

CCND2-M

CGG CGA TTT TAT CGT AGT CG

CTC CAC GCT CGA TCC TTC G

101

-1138 to -1037

 

RASSF1A-U

TTT GGT TGG AGT GTG TTA ATG TG

CAA ACC CCA CAA ACT AAA AAC AA

108

+201 to +309

[23]

RASSF1A-M

GTG TTA ACG CGT TGC GTA TC

AAC CCC GCG AAC TAA AAA CGA

94

+213 to +307

 

SFRP1-U*

GTT TTG TAG TTT TTG GAG TTA GTG TTG TGT

CTC AAC CTA CAA TCA AAA ACA ACA CAA ACA

135

-2 to +133

[24]

SFRP1-M

TGT AGT TTT CGG AGT TAG TGT CGC GC

CCT ACG ATC GAA AAC GAC GCG AAC G

126

+2 to +128

 

SFRP1-U**

TTT TAG TAA ATT GAA TTT GTT TGT GA

TAA AAT ACA CAA AAC TGG TAG AAC

149

-151 to -2

[40]

SFRP1-M

TTT AGT AAA TCG AAT TCG AAT TCG TTC GC

TAA AAT ACG CGA AAC TCC TAC G

148

-150 to -2

 

p57-U

GTT GTT TGT GTT TGT GTA GTT TT

AAA AAT CCC ACA AAC AAC AAA ACA

91

+248 to +339

 

p57-M

TTG TTC GCG TTT GCG TAG TTT C

AAA TCC CAC GAA CGA CAA AAC G

88

+249 to +337

 

MGMT-U

TTT GTG TTT TGA TGT TTG TAG GTT TTT GT

AAC TCC ACA CTC TTC CAA AAA CAA AAC A

93

+30 to +123

[25]

MGMT-M

TTT CGA CGT TCG TAG GTT TTC GC

GCA CTC TTC CGA AAA CGA AAC G

81

+36 to +117

 

THBS1-U

TTG AGT TTG TGT GGT GTA AGA GTA T

CCC CAC TAC CTA ACA CAC AAC T

156

-280 to -124

[26]

THBS1-M

GTT CGC GTG GCG TAA GAG TAC

CGC TAC CTA ACG CGC AAC T

149

-276 to -127

 
  1. *exon 1
  2. **promoter