Skip to main content

Table 1 Genes that change differently on each side of the brain

From: Bilateral gene interaction hierarchy analysis of the cell death gene response emphasizes the significance of cell cycle genes following unilateral traumatic brain injury

Gene symbol

Entrez gene name

TBI-I fold change

TBI-C fold change

TBI-I/TBI-C ratio

Molecular type

Extracellular Space

    

 SPP1

secreted phosphoprotein 1

37.905

2.370

15.994

cytokine

 TIMP1

TIMP metallopeptidase inhibitor 1

38.486

2.101

18.318

cytokine

 CP

ceruloplasmin (ferroxidase)

27.838

8.477

3.284

enzyme

 FGL2

fibrinogen-like 2

16.793

4.017

4.180

peptidase

 LCN2

lipocalin 2

71.824

3.895

18.440

transporter

SERPINA3

serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 3

58.488

2.509

23.311

other

Plasma Membrane

    

 CD44

CD44 molecule (Indian blood group)

15.558

2.399

6.485

enzyme

 EHD4

EH-domain containing 4

2.361

−2.056

4.854

enzyme

 SDC1

syndecan 1

13.681

2.566

5.332

enzyme

 KCND2

potassium voltage-gated channel, Shal-related subfamily, member 2

−2.792

−7.585

2.717

ion channel

 KCNN4

potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4

3.088

−9.429

29.117

ion channel

CAMK2N1

calcium/calmodulin-dependent protein kinase II inhibitor 1

−11.813

−23.824

2.017

kinase

 EGFR

epidermal growth factor receptor

6.773

2.374

2.853

kinase

 PTPRF

protein tyrosine phosphatase, receptor type, F

−6.365

−20.492

3.219

phosphatase

 IL6ST

interleukin 6 signal transducer

2.307

−3.283

7.574

transmembrane receptor

 CD68

CD68 molecule

4.365

2.007

2.175

other

 HLA-A

major histocompatibility complex, class I, A

9.296

3.657

2.542

other

PMEPA1

prostate transmembrane protein, androgen induced 1

2.682

−2.937

7.877

other

Cytoplasm

     

 CYP1B1

cytochrome P450, family 1, subfamily B, polypeptide 1

10.998

4.808

2.287

enzyme

 KIF3A

kinesin family member 3A

−5.083

−11.754

2.312

enzyme

 MX1

MX dynamin-like GTPase 1

28.177

7.326

3.846

enzyme

 PDE4B

phosphodiesterase 4B, cAMP-specific

5.602

2.359

2.375

enzyme

 RND3

Rho family GTPase 3

2.864

−2.971

8.509

enzyme

 SRXN1

sulfiredoxin 1

6.306

2.402

2.625

enzyme

 CARD11

caspase recruitment domain family, member 11

7.343

2.892

2.539

kinase

CSNK2A1

casein kinase 2, alpha 1 polypeptide

2.992

−2.750

8.228

kinase

 EIF5B

eukaryotic translation initiation factor 5B

−3.044

−8.766

2.880

translation regulator

 RASA1

RAS p21 protein activator (GTPase activating protein) 1

2.392

−2.105

5.035

transporter

 AHI1

Abelson helper integration site 1

2.243

−2.897

6.498

other

 CISD2

CDGSH iron sulfur domain 2

−7.833

−19.012

2.427

other

 CMIP

c-Maf inducing protein

−3.778

−13.763

3.643

other

 Ctdspl

CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like

−7.271

−36.886

5.073

other

 HSPB1

heat shock 27 kDa protein 1

46.922

2.639

17.780

other

 KIFAP3

kinesin-associated protein 3

−2.281

−7.831

3.433

other

 LCP1

lymphocyte cytosolic protein 1 (L-plastin)

6.082

2.799

2.173

other

 LSP1

lymphocyte-specific protein 1

11.716

2.140

5.475

other

PHLDA1

pleckstrin homology-like domain, family A, member 1

5.129

2.160

2.375

other

 RDX

radixin

4.828

−5.274

25.463

other

 Slpi

secretory leukocyte peptidase inhibitor

82.908

3.119

26.582

other

 Tpm3

tropomyosin 3

2.592

−2.715

7.037

other

 TRIM54

tripartite motif containing 54

−4.426

−2.032

−2.178

other

Nucleus

     

 SETD8

SET domain containing (lysine methyltransferase) 8

2.029

−3.930

7.974

enzyme

 TOP2A

topoisomerase (DNA) II alpha 170 kDa

2.260

−2.406

5.438

enzyme

 CDK11A

cyclin-dependent kinase 11A

−4.290

−14.872

3.467

kinase

 GSK3B

glycogen synthase kinase 3 beta

−2.733

−6.635

2.428

kinase

 SRPK2

SRSF protein kinase 2

−5.614

−23.589

4.202

kinase

 THRA

thyroid hormone receptor, alpha

−2.799

−11.518

4.115

ligand-dependent nuclear receptor

 ATRX

alpha thalassemia/mental retardation syndrome X-linked

2.091

−5.964

12.471

transcription regulator

 BTG2

BTG family, member 2

−2.220

−5.803

2.614

transcription regulator

 CCAR1

cell division cycle and apoptosis regulator 1

−2.943

−11.648

3.958

transcription regulator

 CCND1

cyclin D1

2.152

−2.027

4.362

transcription regulator

 CEBPD

CCAAT/enhancer binding protein (C/EBP), delta

11.271

2.037

5.533

transcription regulator

 DEK

DEK proto-oncogene

−3.006

−7.352

2.446

transcription regulator

 DNAJB6

DnaJ (Hsp40) homolog, subfamily B, member 6

−4.383

5.614

−24.606

transcription regulator

 KLF13

Kruppel-like factor 13

−2.006

−4.582

2.284

transcription regulator

 KLF6

Kruppel-like factor 6

6.003

2.865

2.095

transcription regulator

 NAA15

N(alpha)-acetyltransferase 15, NatA auxiliary subunit

3.605

−3.751

13.522

transcription regulator

 NFIX

nuclear factor I/X (CCAAT-binding transcription factor)

−2.548

−8.112

3.184

transcription regulator

 PA2G4

proliferation-associated 2G4, 38 kDa

−2.702

−5.783

2.140

transcription regulator

SMARCA4

SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4

2.521

−7.712

19.442

transcription regulator

 STAT3

signal transducer and activator of transcription 3 (acute-phase response factor)

4.219

−3.771

15.910

transcription regulator

 TBL1XR1

transducin (beta)-like 1 X-linked receptor 1

2.587

−2.134

5.521

transcription regulator

 TCF4

transcription factor 4

−2.216

−4.625

2.087

transcription regulator

 TPR

translocated promoter region, nuclear basket protein

2.212

−2.728

6.034

transporter

 Brd4

bromodomain containing 4

−3.528

−15.202

4.309

other

 CDT1

chromatin licensing and DNA replication factor 1

3.098

−2.295

7.110

other

GADD45G

growth arrest and DNA-damage-inducible, gamma

3.191

−2.384

7.607

other

 PSIP1

PC4 and SFRS1 interacting protein 1

−2.663

2.113

−5.627

other

 Rbm25

RNA binding motif protein 25

−5.547

−16.213

2.923

other

 THOC2

THO complex 2

2.119

−4.886

10.353

other

Unknown

     

 EIF3C

eukaryotic translation initiation factor 3, subunit C

−4.369

−9.072

2.076

translation regulator

 Nos1ap

nitric oxide synthase 1 (neuronal) adaptor protein

−2.698

−5.717

2.119

other

 RASSF4

Ras association (RalGDS/AF-6) domain family member 4

4.289

2.106

2.037

other

  1. TBI-I/TBI-C Ratio: Gene increased on both sides (TBI-I > TBI-C): ratio = (TBI-I)/(TBI-C); Gene decreased on both sides (TBI-I > TBI-C): ratio = 1/[(TBI-I)/(TBI-C)]; Gene decreased on both sides (TBI-I < TBI-C): ratio = −1/[(TBI-C)/(TBI-I)]; Gene increased ipsilaterally and decreased contralaterally: ratio = (TBI-I)/-[1/(TBI-C)]; Gene decreased ipsilaterally and increased contralaterally: ratio = (TBI-C)/[1/(TBI-I)]