Table 3 Candidate imprinted genes expressed with significant PO bias in TSCs
GeneChrCoordsSCB.1CB.2CB.3BC.1BC.2BC.3CBpBCpBSNPsRPKM
Id1chr2152562009-152563146+43.1 (31, 41)33.5 (52, 103)35.3 (55, 101)35.2 (32, 59)35.5 (39, 71)15.4 (14, 77)2.E-029.E-04P416.0
R74862*chr7150207688-15023927365.8 (25, 13)87.7 (71, 10)82.5 (99, 21)58.3 (21, 15)72.4 (63, 24)72.0 (67, 26)1.E-071.E-02M980.27
Tsci1*chr883383307-83405773+0.0 (0, 41)0.7 (1, 148)0.7 (1, 143)0.0 (0, 40)12.5 (10, 70)9.5 (13, 124)3.E-403.E-15P820.16
Tsci2*chr1112051323-12097365+57.6 (19, 14)85.7 (48, 8)77.1 (37, 11)95.5 (21, 1)93.5 (87, 6)97.9 (93, 2)8.E-041.E-16M750.08
AK017220chr1151003334-510339153.6 (6, 159)2.2 (3, 134)0.7 (1, 137)4.8 (4, 79)56.3 (117, 91)7.2 (15, 192)3.E-444.E-03P1612.10
Tsci3chr1151033968-51061895+3.9 (5, 123)3.1 (9, 280)0.3 (1, 285)4.4 (2, 43)46.9 (207, 234)9.6 (42, 396)7.E-544.E-04P1010.32
AK010368*chr1197459824-97484207+0.7 (1, 133)1.5 (6, 407)0.7 (3, 451)1.5 (1, 64)37.0 (101, 172)47.4 (451, 500)5.E-923.E-02P1504.40
Tsci4*chr1282108796-821202455.6 (1, 17)0.0 (0, 40)0.0 (0, 45)0.0 (0, 10)15.4 (2, 11)48.3 (14, 15)3.E-175.E-02P520.04
Tsci5*chr12110730857-110753078100.0 (2, 0)100.0 (8, 0)100.0 (16, 0)100.0 (6, 0)100.0 (12, 0)100.0 (34, 0)2.E-071.E-10M350.03
Pdgfbchr1579826305-7984523841.3 (250, 356)42.2 (1999, 2737)38.6 (2126, 3380)27.9 (58, 150)48.8 (2928, 3070)44.2 (3471, 4375)6.E-034.E-02P9762.3
Tsci6*chr1596980667-969977957.8 (17, 200)19.7 (12, 49)3.5 (12, 333)0.3 (1, 386)0.9 (6, 662)0.9 (9, 1032)8.E-185.E-103P1290.75
1700010i14rikchr179181197-9201184+100.0 (18, 0)84.0 (21, 4)90.7 (39, 4)100.0 (9, 0)100.0 (33, 0)70.1 (47, 20)8.E-112.E-03M430.81
Qkchr1710399335-1051222655.2 (235, 191)56.4 (648, 501)55.2 (574, 465)70.2 (342, 145)64.3 (687, 381)63.9 (565, 319)7.E-031.E-04M17636.2
Pacrgchr1710595877-1103305775.0 (3, 1)92.9 (13, 1)86.7 (13, 2)100.0 (5, 0)90.0 (9, 1)84.6 (11, 2)1.E-049.E-04M290.21
Park2chr1711033249-12256226+86.8 (105, 16)81.3 (74, 17)85.7 (60, 10)61.1 (33, 21)76.5 (78, 24)73.6 (53, 19)9.E-183.E-03M2730.08
Mas1chr1713033870-13061009100.0 (6, 0)100.0 (63, 0)99.2 (123, 1)100.0 (2, 0)100.0 (34, 0)100.0 (12, 0)2.E-274.E-10M550.27
Dact2chr1714332236-1434083859.6 (56, 38)56.9 (357, 270)54.5 (486, 405)83.2 (84, 17)71.4 (401, 161)70.8 (685, 283)3.E-036.E-07M407.65
  • Column annotations are the same as in Table 2. Coordinates given are relative to UCSC’s mm9 genome build. PO, parent-of-origin; TSC, trophoblast stem cell; SNP, single-nucleotide polymorphism; RPKM, reads per kilobase of transcript per million aligned reads.