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Table 2 Top five genes based on gene-based association statistics for resistance to clinical mastitis

From: Prioritizing candidate genes post-GWAS using multiple sources of data for mastitis resistance in dairy cattle

Lead SNP

Top 5 Genes*

Gene P value

3:92927352

PLPP3, TXNDC12, RAB3B, NRDC, ENSBTAG00000046915

1.46e-08

4:10928348

ASB4, ANKIB, COL28A1, DYNC1I1, PON1

1.83e-06

4:58490979

TBX20, IMMP2L, ST7, LAMB4, ELMO1

9.77e-09

5:30211323

SLC2A13, SLC38A1, RPAP3, TMEM117, LIMA1

6.80e-10

5:106360448

CCDC77, LOC100336690,ABCC9,KDM5A, FGF6

1.56e-08

6:23469606

TBCK, TSPAN5, PPA2, PPP3CA, NFKB1

1.33e-09

6:87299659

NPFFR2, SULT1E1, SLC4A4, DCK, LOC100140490

2.50e-26

6: 93131207

PARM1, SHROOM3, MTHFD2L, SEPT11, EPGN

2.16e-14

7:31253987

C3, PCDHB11, PCDHB6, FBN3, LOC786512

1.27e-08

8:25684799

ADAMTSL1, MLLT3, PLPPR1, MTAP, FOCAD

3.15e-08

9:80007099

ESR1, RAET1G, PPP1R14C, SYNE1, SHPRH

4.16e-07

10:51191670

RORA, MYO1E, RNF111, DUOX1,SLC28A2

2.93e-08

11:88742878

PDIA6, ATP6V1C2, CAPG, TBC1D8, MGAT4A

4.43e-08

13:62017506

BMP7, TFAP2C, NSFL1C, NDRG3, REM1

2.01e-14

14:61344981

DPYS, KCNQ3, TPD52, RSPO2, PARP10

1.44e-07

16:47836093

SMYD3, ACOT7, MEGF6, ENSBTAG00000019339, CHD5

8.28e-13

18:43909571

HPN, GPI, WTIP, PDCD2L, TGFB1

7.08e-09

19:43038655

SP2, TBCD, OSBPL7, SRCIN1, CBX1

2.22e-13

20:38471456

PLCXD3, WDR70, RICTOR, MROH2B, NUP155

2.99e-14

23:11477905

ZFAND3, CPNE5, DNAH8, KCTD20, PPARD

1.05e-11

25:35354412

TMEM130, CORO7, VASN, CDIP1, DNAJA3

2.09e-08

26:20463679

PDE6C, BTRC, SEMA4G, CNNM2, SLK

7.43e-09

  1. *Top five genes selected based on the ranking of P value, if the –log10 (P) > 5.60, the genes are listed in the table
  2. # The P value listed in the table is for the gene with highest P value among the top five genes showing association. The model to calculate the gene P value in MAGMA [17] was snp-wise = mean