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Table 1 Analysis of Pan, A1, and A2 astrocyte signature gene expression by RNA-seq comparing RML prion-infected mice to uninfected mice

From: RNA-seq and network analysis reveal unique glial gene expression signatures during prion infection

Gene

Description

80 dpia

100 dpi

~ 157c dpi

FCb

P value

FC

P value

FC

P value

Pan

Aspg

Asparaginase

1.1

4.7 × 10− 2

1.4

7.2 × 10− 4

3.1

3.8 × 10− 10

Cd44

CD44 antigen

1.1

4.7 × 10− 2

1.2

8.9 × 10− 3

3.0

6.3 × 10− 11

Cxcl10

Chemokine (C-X-C motif) ligand 10

2.4

2.1 × 10− 3

4.0

1.0 × 10− 5

4.4

4.1 × 10− 6

Gfap

Glial fibrillary acidic protein

1.4

3.6 × 10− 2

3.3

5.5 × 10− 6

12.0

6.1 × 10− 11

Gfap

Splice variant id MSTRG.4106

1.2

8.5 × 10− 3

1.5

3.6 × 10− 3

4.3

1.7 × 10− 8

Gfap

Splice variant id MSTRG.4107

1.0

6.1 × 10− 1

1.1

1.4 × 10− 1

1.9

5.0 × 10− 6

Hspb1

Heat shock protein 1

0.9

2.4 × 10− 1

1.1

6.6 × 10− 1

3.3

4.1 × 10− 7

Lcn2

Lipocalin 2

1.0

7.1 × 10− 1

1.2

1.8 × 10− 1

4.9

6.9 × 10− 9

Osmr

Oncostatin M receptor

1.1

2.2 × 10− 1

1.2

5.4 × 10− 2

3.6

6.1 × 10− 7

Serpina3n/3f/3 m

Serine (or cysteine) peptidase inhibitor, clade A, member 3 N /3F/ 3 M

1.3

6.2 × 10− 2

2.9

5.1 × 10− 6

12.3

8.3 × 10− 11

Timp1

Tissue inhibitor of metalloproteinase 1

1.2

2.6 × 10− 1

1.2

2.7 × 10− 2

2.4

9.8 × 10− 7

Vim

Vimentin

0.8

1.1 × 10− 1

1.2

2.0 × 10− 1

4.3

2.8 × 10− 7

A1

A2m

Alpha-2-macroglobulin

1.2

3.5 × 10− 2

1.4

1.6 × 10− 2

4.8

1.1 × 10− 9

B2m

Beta-2 microglobulin

1.2

4.6 × 10− 1

2.2

9.7 × 10− 4

3.7

1.9 × 10− 6

C3

Complement component 3

0.9

4.2 × 10− 1

1.2

3.3 × 10− 2

4.2

2.2 × 10− 9

C4b

Complement component 4B (Chido blood group)

1.5

4.9 × 10− 4

2.8

4.2 × 10− 7

7.4

1.3 × 10− 13

Chil1 (Chi3l1)

Chitinase-Like 1 (Chitinase 3-Like 1)

1.2

5.2 × 10− 2

1.6

4.3 × 10− 4

2.5

3.1 × 10− 8

Fbln5

Fibulin 5

0.9

3.6 × 10− 3

1.0

8.3 × 10− 1

1.6

1.9 × 10− 5

Gbp2

Guanylate binding protein 2

1.0

6.8 × 10− 1

1.4

8.0 × 10− 3

2.1

2.0 × 10− 5

Gbp3

Guanylate binding protein 3

1.2

2.4 × 10− 1

1.5

1.5 × 10− 2

2.0

2.5 × 10− 4

Gbp6/10

Guanylate binding protein 6/10

1.1

4.4 × 10− 1

1.4

9.8 × 10− 4

1.6

6.2 × 10− 5

Ggta1

Glycoprotein galactosyltransferase alpha 1, 3

0.9

2.1 × 10− 1

0.9

3.3 × 10− 1

1.7

4.1 × 10− 3

H2-D1

Histocompatibility 2, D region locus 1

1.3

2.5 × 10− 2

2.3

8.3 × 10− 5

3.5

9.8 × 10− 8

H2-T23

Histocompatibility 2, T region locus 23

1.0

9.8 × 10− 1

1.6

3.1 × 10− 4

2.0

5.3 × 10− 6

Ifitm3/6

Interferon induced transmembrane protein 3/6

2.0

7.1 × 10− 2

2.5

7.5 × 10− 3

2.7

1.9 × 10− 2

Igtp

Interferon gamma induced GTPase

1.1

1.6 × 10− 1

1.5

1.3 × 10− 4

1.8

2.4 × 10− 6

Iigp1

Interferon inducible GTPase 1

1.1

7.0 × 10− 1

1.3

3.7 × 10− 2

1.6

8.7 × 10− 4

Irgm1

Immunity-related GTPase family M member 1

1.2

1.7 × 10− 1

1.6

2.6 × 10− 3

2.2

5.2 × 10− 6

Psmb8

Proteasome (prosome, macropain) subunit, beta type 8

1.1

6.3 × 10− 1

1.6

1.3 × 10− 2

2.6

2.9 × 10− 5

Serping1

Serine (or cysteine) peptidase inhibitor, clade G, member 1

0.8

9.5 × 10–2

1.3

2.7 × 10−2

2.1

1.0 × 10− 6

Slc22a4

Solute carrier family 22 (organic cation transporter), member 4

1.0

9.3 × 10–1

1.1

1.3 × 10−2

1.5

6.9 × 10−5

A2

Anxa2

Annexin A2

0.8

8.1 × 10−2

1.0

9.7 × 10−1

1.6

1.3 × 10− 4

Anxa3

Annexin A3

1.0

9.0 × 10−1

1.2

6.3 × 10− 2

2.5

2.1 × 10−6

Cd14

CD14 antigen

1.1

4.5 × 10−1

1.4

1.3 × 10−2

2.8

9.4 × 10−8

Cd109

CD109 antigen

1.0

7.5 × 10−1

1.0

5.4 × 10− 1

2.1

3.5 × 10− 9

Emp1

Epithelial membrane protein 1

0.9

2.6 × 10−1

1.1

1.2 × 10− 1

1.7

6.7 × 10−7

Flnc

Filamin C, gamma

1.1

2.9 × 10−1

1.2

1.2 × 10−3

2.4

4.3 × 10−10

Hmox1

Heme oxygenase 1

1.1

4.9 × 10−1

1.5

6.8 × 10−4

2.7

1.3 × 10−7

Icam1/4

Intercellular adhesion molecule 1/4

1.0

6.1 × 10−1

1.2

3.2 × 10−4

1.7

1.6 × 10−8

Lgals3

Lectin, galactose binding, soluble 3

1.0

8.6 × 10−1

1.3

9.7 × 10−3

4.0

8.4 × 10−7

Sbno2

Strawberry notch homolog 2

1.2

5.1 × 10−2

1.2

2.6 × 10− 2

2.0

4.4 × 10−7

S1pr3

Sphingosine-1-phosphate receptor 3

1.3

2.0 × 10−1

1.5

1.5 × 10−2

4.1

8.4 × 10−7

Tgm1

Transglutaminase 1, K polypeptide

1.1

4.5 × 10−3

1.1

1.2 × 10−2

3.2

4.2 × 10−8

Tnfrsf12a

Tumor necrosis factor receptor superfamily, member 12a

1.2

1.6 × 10−1

1.3

3.2 × 10− 1

2.1

1.5 × 10−5

  1. Bolded values denote genes increased ≥2.0-fold with p values ≤0.05 (5.0 × 10− 2) in RML-infected mice
  2. Values in italics are increased between 1.5-fold and 1.9-fold with p values ≤0.05 (5.0 × 10− 2) in RML-infected mice
  3. adpi days post inoculation
  4. bFC fold change
  5. c ~ 157 is the average dpi to clinical endpoint for RML-infected mice