Table 6 Tissue types, experimental conditions and species considered in the different RNA-seq studies

1

Lung

H5N3 AIV

Fayoumi and leghorn

2

DF-1

IRF 7 overexpression and knockdown assays/poly I:C

East Lansing Line (ELL-0)

White Leghorn

3

DF-1

Cell-adapted Infectious Bursal Disease Virus (ca-IBDV) infection

East Lansing Line (ELL-0)

White Leghorn

4

Trachea

Infectious laryngotracheitis virus vaccine

15-day-old SPF white leghorn chickens

5

DT40 CL18 chicken B lymphoma cells

Basal

Bursal lymphoma cell line derived from a Hyline SC chicken

6

Caecal tissue

C.jejuni strain NCTC11168v1

Barred Rock chickens

7

Breast muscle

Basal

White rock/Xinghua chickens

8

Abdominal adipose tissue

Body weight

7 week old broiler chickens

9

Primary hepatocellular carcinoma epithelial cell line

Heat stress response

Chicken male white-leghorn hepat ocellular (LMH) cell line.

10

Spleen

J Subgroup Avian Leukosis Virus (ALV-J) Infection

White Recessive Rock

11

Facial

Talpid2 heterozygous carriers

HH25 chickens

12

DT40 cells

Splicing factor SRSF10

Bursal lymphoma cell line derived from a Hyline SC chicken

13

MSB1 cell line

Marek’s disease virus 1

Chicken lymphoblastoid cell line

14

Liver

Heat stress response

Broiler chickens

15

Endocardial cells

Endocardial EMT

HH18 chicken/embryo

16

Brain (cerebral cortex/whole brain without cerebellum), cerebellum, heart, kidney, liver and testis

Basal

Red jungle fowl

17

Liver/muscle

Basal

7 day red jungle fowl and broiler

18

CEF/HD11

Lipopolysaccharide

11-day white leghorn

19

Mid shaft tibial bone

Basal

White leghorn

20

Ileum/lung

H5N2/H5N1

White leghorn/Domestic Gray Mallards

21

Adrenal gland, adipose, cerebellum, testis, ovary, heart, hypothalamus, kidney, liver, lung, breast muscle, sciatic nerve, proventriculus, spleen

Basal

Red Jungle Fowl

22

Whole embryo

Basal

UE1295 PEAT/F-37380 cross

23

Testis

New Hampshire

24

Spleen

IBDV

Gallus gallus

25

CEF

chIFNα

CEF

26

Chicken embryo

Basal

Gallus Gallus