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Table 3 ChISGs identified by RNA-seq using Baggerly’s test but not Kal’s test using standard criteria (FC > 3 or FDR < 0.01)

From: Chicken interferome: avian interferon-stimulated genes identified by microarray and RNA-seq of primary chick embryo fibroblasts treated with a chicken type I interferon (IFN-α)

Feature ID

Baggerley’s weighted proportions FC

Baggerley’s FDR p value correction

Kal’s relaxed FDR < 0.05a

FAM26F

148

0.0000

Yes

THEMIS2

118

0.0004

 

ENSGALG00000026152

55

0.0000

 

ENSGALG00000005148

54

0.0043

 

ENSGALG00000003110

52

0.0050

 

IL4I1

26

0.0040

 

C1orf168

24

0.0001

 

SPIRE2

18

0.0041

 

HRH1

17

0.0001

 

AZIN2

14

0.0000

 

ENSGALG00000029181

14

0.0000

 

ENSGALG00000001629

12

0.0001

 

B3GNT4

9

0.0000

 

GDPD4

8

0.0000

 

ATP6V1G3

7

0.0002

 

DUSP15

7

0.0002

 

IKBKE

7

0.0001

 

ANGPTL7

6

0.0000

 

ARHGEF28

6

0.0004

 

KCNJ5

6

0.0000

 

CHRD

5

0.0000

Yes

ENSGALG00000002823

5

0.0005

 

ENSGALG00000004772

5

0.0000

 

ENSGALG00000006325

5

0.0000

 

ENSGALG00000027955

5

0.0000

 

FUT10

5

0.0000

 

TOR4A

5

0.0001

 

C1QTNF1

4

0.0000

 

CYBRD1

4

0.0000

 

ENSGALG00000000819

4

0.0028

 

ENSGALG00000020899

4

0.0000

 

ISLR

4

0.0000

 

JAM2

4

0.0000

 

KIAA0226

4

0.0028

 

MALL

4

0.0002

 

MAOA

4

0.0000

 

RBM43

4

0.0015

 
  1. aChISGs significant by Kal’s Z test under relaxed criteria (FDR < 0.05).
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Veterinary Research

ISSN: 1297-9716