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Table 1 Differentially accessible regions in the dorsal root ganglion following either CCI or CFA

From: Global gene expression and chromatin accessibility of the peripheral nervous system in animal models of persistent pain

Locationa

Chromatin accessibility

Distance to nearest gene (bp)

Gene

Full gene name

Gene expression

CCI versus Naïve

CFA versus Naïve

CCI versus Naïve

CFA versus Naïve

Log2FC

p-value

Log2FC

p-value

Log2FC

FDR

Log2FC

FDR

chr17:11683581-11684211

− 1.06

6.34E-05

− 0.99

1.64E-04

34

Msx2

Msh homeobox 2

–

n.s.

–

n.s.

chr1:92513274-92513499

− 1.00

2.72E-04

-1.01

8.90E-05

261576

Tshz3

Teashirt zinc finger homeobox 3

–

n.s.

–

n.s.

chr8:47237180-47237538

− 0.99

2.34E-05

− 0.97

8.26E-04

− 129442

Grik4

Glutamate ionotropic receptor kainate type subunit 4

0.669

3.30E-06

0.672

7.20E-06

chr6:144123384-144123972

− 0.95

4.70E-04

− 0.71

8.53E-05

− 82

Wdr60

WD repeat domain 60

− 0.415

3.08E-02

− 0.499

1.33E-02

chrX:70596272-70597179

− 0.95

1.45E-04

− 0.80

1.87E-04

149

Dlg3

Discs large MAGUK scaffold protein 3

− 0.599

1.19E− 03

− 0.674

6.12E− 04

chr19:34760039-34760205

− 0.94

7.18E-04

-0.64

3.23E-04

881

Nr3c2

Nuclear receptor subfamily 3, group C, member 2

–

n.s.

–

n.s.

chr2:88365560-88366693

− 0.77

8.32E-04

-0.61

4.17E-04

21600

Rbis

Ribosomal biogenesis factor

–

n.s.

− 0.501

2.48E-03

chr17:5634167-5634689

− 0.77

6.58E-04

-0.88

8.48E-04

123043

Agtpbp1

ATP/GTP binding protein 1

0.669

5.58E-13

0.572

1.23E-09

chr2:239413846-239414572

− 0.75

3.34E-04

-0.68

6.17E-04

− 673

Cxxc4

CXXC finger protein 4

–

n.s.

–

n.s.

chr3:97720973-97722482

− 0.71

8.27E-04

-0.70

8.61E-04

− 2173

Mpped2

Metallophosphoesterase domain containing 2

–

n.s.

–

n.s.

chr16:23432936-23433376

0.71

3.99E-04

0.71

4.94E-04

− 276331

Sh2d4a

SH2 domain containing 4A

–

n.s.

–

n.s.

chr14:93768297-93768703

0.75

8.15E-04

1.00

1.86E-04

− 1272606

Cobl

Cordon-bleu WH2 repeat protein

–

n.s.

–

n.s.

chr3:117326358-117326776

0.86

1.07E-04

0.87

1.87E-04

− 8645

Slc24a5

Solute carrier family 24 member 5

–

n.s.

–

n.s.

chr7:72282656-72283204

0.87

5.84E-04

1.00

2.38E-05

− 489510

Mtdh

Metadherin

–

n.s.

–

n.s.

chr7:76825894-76826308

0.95

4.39E-04

0.75

4.20E-04

-45284

Rrm2b

Ribonucleotide reductase regulatory TP53 inducible subunit M2B

0.318

2.54E-02

0.534

1.15E-04

chr8:68261923-68262408

1.07

2.15E-05

0.81

8.92E-04

20424

Map2k5

Mitogen activated protein kinase kinase 5

–

n.s.

–

n.s.

chr14:48665324-48665682

1.10

9.99E-04

0.96

6.22E-04

− 60542

Arap2

ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2

0.401

1.31E-03

0.800

2.69E-11

chr2:104740823-104741617

1.11

9.13E-05

0.67

7.82E-05

− 3223

Cp

Ceruloplasmin

–

n.s.

–

n.s.

chr7:69057806-69058124

1.20

2.80E-04

1.14

8.43E-04

46985

LOC500846

Hypothetical protein LOC500846

–

n.s.

–

n.s.

chr15:48090366-48090685

1.20

2.14E-04

1.10

1.15E-04

59452

Kif13b

Kinesin family member 13B

− 1.372

6.53E-35

− 0.864

8.10E-14

chr5:75716406-75716663

1.22

1.09E-04

0.88

2.39E-04

− 39951

Lpar1

Lysophosphatidic acid receptor 1

− 0.759

1.35E-16

− 0.759

5.95E-16

chr11:1269991-1270529

1.26

3.86E-05

0.69

8.21E-04

− 487306

Epha3

Eph receptor A3

–

n.s.

–

n.s.

chr12:17820620-17821049

1.41

4.21E-05

0.81

9.32E-04

55600

LOC498155

LRRGT00167

–

n.s.

–

n.s.

chr12:3340812-3341234

1.49

1.11E-04

0.83

4.64E-04

− 514790

Clec4m

C-type lectin domain family 4 member M

–

n.s.

–

n.s.

chr13:10820032-10820423

1.58

1.21E-05

0.86

6.03E-04

1340233

Olr1065

Olfactory receptor 1065

–

–

–

–

chr12:8713579-8713997

1.58

2.56E-04

1.31

2.98E-05

− 11748

Slc46a3

Solute carrier family 46, member 3

–

n.s.

0.777

1.20E-02

chr15:75876479-75876957

1.79

2.13E-05

0.83

8.63E-04

1860057

Pcdh9

Protocadherin 9

0.778

1.29E-10

0.871

1.50E-12

chr8:4288257-4288665

3.64

5.15E-08

2.03

1.25E-04

− 31769

Vom2r18

Vomeronasal 2 receptor, 18

–

n.s.

–

n.s.

chr8:4322772-4323450

3.88

7.77E-09

2.35

5.51E-05

2729

Vom2r17

Vomeronasal 2 receptor, 17

–

–

–

–

chr8:4337259-4338234

5.59

2.35E-09

3.45

5.54E-04

17365

Vom2r17

Vomeronasal 2 receptor, 17

–

–

–

–

chr8:4292048-4292933

5.64

2.72E-08

4.01

1.42E-04

− 27739

Vom2r18

Vomeronasal 2 receptor, 18

–

n.s.

–

n.s.

  1. CCI chronic constriction injury, CFA complete Freund's adjuvant, n.s. not significant, FDR false discovery rate, FC fold change
  2. aGenome coordinates provided are for the rat genome assembly, rn6