Table 1 Potential key differentially expressed mRNAs (DE genes), their targeted differentially expressed miRNAs (DE miRNAs)/differentially expressed lncRNAs (DE lncRNAs), and their functions related to hypoxic adaption in the Tibetan chicken

 ACTC1

−3.4644

0.0122

gga-miR-6606-5p

MSTRG.19949.13, MSTRG.128588.3, MSTRG.73129.28, MSTRG.32082.2

Blood circulation

 KCNMB4

2.3558

0.0001

gga-miR-6606-5p

MSTRG.29252.7

Vascular smooth muscle contraction

 NCS1

−1.0050

0.0197

gga-miR-6606-5p, novel_miR_815

MSTRG.33345.5, MSTRG.140060.1, MSTRG.18943.13

Calcium ion transport

 NGFR

1.5519

0.0036

novel_miR_676

MSTRG.118362.24, MSTRG.12318.1, MSTRG.25780.4, MSTRG.128839.3, MSTRG.115756.46, MSTRG.41646.22, MSTRG.80622.27, MSTRG.44286.2, MSTRG.41646.23

Blood vessel morphogenesis, blood vessel development, vasculature development, angiogenesis

 ADAM8

−1.3727

0.0470

Response to hypoxia, blood vessel development, vasculature development, angiogenesis

 CASQ2

−1.0736

0.0315

novel_miR_589, novel_miR_676

MSTRG.73129.28, MSTRG.18943.3

Blood circulation

 IRF4

−1.8880

0.0201

Hemopoiesis

 PTPRZ1

1.3653

0.0000

Hemopoiesis, hematopoietic progenitor cell differentiation

 CALML3

−1.1958

0.0015

Vascular smooth muscle contraction

 ERBB4

−1.2949

0.0102

novel_miR_676, novel_miR_587

MSTRG.147643.141, MSTRG.128534.3, MSTRG.44329.1, MSTRG.29590.15, MSTRG.79818.8, MSTRG.135465.5, MSTRG.30620.3

Calcium and MAPK signaling pathways

 ARR3

1.0513

0.0013

MAPK signaling pathway

 NTSR1

−1.5401

0.0140

novel_miR_669, novel_miR_676, novel_miR_567

MSTRG.63187.27, MSTRG.71117.21, MSTRG.133793.2, MSTRG.29590.15, MSTRG.52146.15, MSTRG.72741.32, MSTRG.148631.1

Regulation of respiratory gaseous exchange, Calcium signaling pathway

 SSTR5

−3.8881

0.0054

novel_miR_819

MSTRG.25881.3

Glucose homeostasis

 NR1H4

−1.1224

0.0179

novel_miR_676

MSTRG.99917.37, MSTRG.64717.15, MSTRG.99917.39, MSTRG.99917.35

Glucose homeostasis, response to oxygen-containing compound

 HTR2C

−1.3476

0.0000

Regulation of lipid metabolic process

 APOA1

1.1034

0.0068

Regulation of lipid metabolic process

 KCNB1

−1.1800

0.0000

Glucose homeostasis, response to oxygen-containing compound

 P3H2

−1.0044

0.0135

Carbohydrate binding

 CHST8

−1.9553

0.0013

novel_miR_693, novel_miR_775

Carbohydrate metabolic process

 LYZ

−1.0365

0.0050

Carbohydrate metabolic process

 HAO2

−1.5483

0.0085

novel_miR_669

Carbon metabolism, lactate oxidation

 ACER1

1.5111

0.0032

Regulation of lipid metabolic process

 ACSBG1

1.1154

0.0000

Fatty acid metabolism

 ELOVL2

−5.1386

0.0480

Fatty acid metabolism

 ELOVL3

2.0872

0.0146

novel_miR_867

Fatty acid metabolism

 GBE

−1.0082

0.0072

novel_miR_85

MSTRG.128588.4

Oxygen transport, oxygen binding, reactive oxygen species metabolic process

 NOX3

3.0828

0.0000

Reactive oxygen species metabolic process