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Table 2 List of select biological processes with an EASE score of < 0.05, and their corresponding genes

From: Hypothalamic and amygdalar cell lines differ markedly in mitochondrial rather than nuclear encoded gene expression

Category

Gene symbol

Name

AR-5/IVB

EASE score

Response to hormone stimulus

Adcy5

adenylate cyclase 5

0.394

8.50E-06

Adcy8

adenylate cyclase 8 (brain)

0.479

Adm

Adrenomedullin

0.108

Aldh3a1

aldehyde dehydrogenase 3 family, member A1

0.073

Arnt2

aryl hydrocarbon receptor nuclear translocator 2

0.223

Avpr1a

arginine vasopressin receptor 1A

0.356

Eif2b5

eukaryotic translation initiation factor 2B, subunit 5 epsilon

0.409

Ghr

growth hormone receptor

0.155

Gja1

gap junction protein, alpha 1

0.485

Gpx3

glutathione peroxidase 3

0.246

Hmgcs2

3-hydroxy-3-methylglutaryl-Coenzyme A synthase 2 (mitochondrial)

0.226

Hmox1

heme oxygenase (decycling) 1

0.413

Insig2

insulin induced gene 2

0.447

Kcnma1

potassium large conductance calcium-activated channel, subfamily M, alpha member 1

0.032

Kdm3a

lysine (K)-specific demethylase 3A

0.439

lpin1

lipin 1

0.479

Nr1h3

nuclear receptor subfamily 1, group H, member 3 (liver X receptor alpha)

0.283

Sgk1

serum/glucocorticoid regulated kinase 1

0.293

Stat5b

signal transducer and activator of transcription 5B

0.365

Stk11

serine/threonine kinase 11

0.471

Tgfb3

transforming growth factor, beta 3

0.412

Tlr4

toll-like receptor 4

0.138

Response to corticosteroid stimulus

Adm

Adrenomedullin

0.108

3.90E-02

Aldh3a1

aldehyde dehydrogenase 3 family, member A1

0.073

Avpr1a

arginine vasopressin receptor 1A

0.356

Bmp4

bone morphogenetic protein 4

0.276

Cav1

caveolin 1, caveolae protein

0.454

Ghr

growth hormone receptor

0.155

Gpx3

glutathione peroxidase 3

0.246

Kcnma1

potassium large conductance calcium-activated channel, subfamily M, alpha member 1

0.032

Ptgs1

prostaglandin-endoperoxide synthase 1

0.213

Sgk1

serum/glucocorticoid regulated kinase 1

0.293

Tlr4

toll-like receptor 4

0.138

Response to estradiol stimulus

Aldh1a1

aldehyde dehydrogenase 1 family, member A1

0.284

6.10E-03

Arnt2

aryl hydrocarbon receptor nuclear translocator 2

0.223

Bmp4

bone morphogenetic protein 4

0.276

CCND2

cyclin D2

0.013

Cst3

cystatin C

0.276

Gpx4

glutathione peroxidase 4

0.457

MAP1B

mi crotubule-associated protein 1B

0.458

Pdgfra

platelet derived growth factor receptor, alpha polypeptide

0.071

Pdgfrb

platelet derived growth factor receptor, beta polypeptide

0.23

Stat5b

signal transducer and activator of transcription 5B

0.365

Electron transport chain

Cyb561d2

cytochrome b-561 domain containing 2

3.594

1.40E-05

Cyba

cytochrome b-245, alpha polypeptide

2.186

Fads1

fatty acid desaturase 1

2.307

GLRX2

glutaredoxin 2

2.158

MT-CO1

Cytochrome c oxidase subunit 1

426.042

MT-CO2

Cytochrome c oxidase subunit 2

477.423

MT-CYB

Cytochrome b

413.38

MT-ND1

NADH-ubiquinone oxidoreductase chain 1

874.324

MT-ND2

NADH-ubiquinone oxidoreductase chain 2

885.655

MT-ND3

NADH-ubiquinone oxidoreductase chain 3

789.947

Ndufa10

NADH dehydrogenase (ubiquinone) 1 alpha subcomplex 10

2.972

Ndufa11

NADH dehydrogenase (ubiquinone) 1 alpha subcomplex 11

3.222

Ndufs1

NADH dehydrogenase (ubiquinone) Fe-S protein 1

2.876

Ndufv2

NADH dehydrogenase (ubiquinone) flavoprotein 2

3.599

Sod2

superoxide dismutase 2, mitochondrial

5.725

Uqcrh

ubiquinol-cytochrome c reductase hinge protein

2.46

Cellular response to stress

Apoe

apolipoprotein E

2.945

8.20E-04

ATM

ataxia telangiectasia mutated homolog (human)

2.803

Atrx

alpha thalassemia/mental retardation syndrome X-linked (RAD54 homolog, S. cerevisiae)

3.575

Bmpr2

bone morphogenetic protein receptor, type II (serine/threonine kinase)

3.772

Brca1

breast cancer 1

3.075

CCNH

cyclin H

2.232

Chek1

CHK1 checkpoint homolog (S. pombe)

2.156

Cib1

calcium and integrin binding 1 (calmyrin)

2.176

Cryab

crystallin, alpha B

2.567

Cxcl10

chemokine (C-X-C motif) ligand 10

3.003

Derl2

Der1-like domain family, member 2

2.218

DNA2

DNA replication helicase 2 homolog (yeast)

2.158

Eif2ak3

eukaryotic translation initiation factor 2 alpha kinase 3

2.058

Fads1

fatty acid desaturase 1

2.307

Fam175a

family with sequence similarity 175, member A

2.861

Fancd2

Fanconi anemia, complementation group D2

2.245

Fen1

flap structure-specific endonuclease 1

2.251

Fos

FBJ osteosarcoma oncogene

10.247

H2afx

H2A histone family, member X

3.259

Hdac1

histone deacetylase 1

4.309

Hdac6

histone deacetylase 6

3.035

HFE

hemochromatosis

6.684

Irak1

interleukin-1 receptor-associated kinase 1

2.25

Kat5

K(lysine) acetyltransferase 5

2.098

Kif22

kinesin family member 22

2.173

Nuak2

NUAK family, SNF1-like kinase, 2

2.981

Pdcd6ip

programmed cell death 6 interacting protein

2.537

Rad18

RAD18 homolog (S. cerevisiae)

2.862

Rad50

RAD50 homolog (S. cerevisiae)

2.745

Rad51

RAD51 homolog (S. cerevisiae) (RecA homolog, E. coli)

3.009

RGD1307983

similar to HSPC043 protein

3.009

Rpain

RPA interacting protein

2.024

SLK

STE20-like kinase (yeast)

2.698

Sod2

superoxide dismutase 2, mitochondrial

5.725

Sp100

SP100 nuclear antigen

5.382

Stradb

amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 2 (human)

2.154

Trip13

thyroid hormone receptor interactor 13

2.417

Uhrf1

ubiquitin-like with PHD and ring finger domains 1

2.804

Usp1

ubiquitin specific peptidase 1

5.541

Xbp1

X-box binding protein 1

3.932

  1. Genes expressed at ≥ 2 fold are more abundant in AR-5 and genes expressed at ≤ 0.5-fold are highly expressed in IVB cells. A complete list of genes in the above mentioned biological processes can be found in Additional file 1: Table S1 and biological processes associated with a gene can be found in Additional file 2: Table S2.