TABLE I.

Most Profoundly Up- and Down-Regulated JAE (Cell Junction Adhesion and Extracellular Matrix) Genes in EAE

Name	Symbol	Fold change
Up-regulated JAE transcripts
Histocompatibility 2, class II antigen A, alpha	H2-Aa	26.37
Cathepsin S	Ctss	14.23
Complement component 1, q subcomponent, alpha polypeptide	C1qa	10.03
Complement component 1, q subcomponent, beta polypeptide	C1qb	8.45
Histocompatibility 2, class II antigen A, beta 1	H2-Ab1	6.67
Histocompatibility 2, L region	H2-L	6.50
Histocompatibility 2, K region	H2-K	6.33
Serine (or cysteine) proteinase inhibitor, clade A, member 3G	Serpina3g	6.17
Cathepsin Z	Ctsz	5.93
Beta-2 microglobulin	B2m	5.59
Fc receptor, IgG, low affinity III	Fcgr3	5.52
Histocompatibility 2, D region locus 1	H2-D1	5.30
Pinin	Pnn	5.16
Fragilis	Fgls-pend.	4.46
Complement component 3	C3	4.33
Histocompatibility 2, class II, locus DMa	H2-DMa	4.22
Cathepsin C	Ctsc	4.14
Down-regulated JAE transcripts
Hemoglobin, beta adult major chain	Hbb-b1	−5.14
Serine (or cysteine) proteinase inhibitor, clade B, member 1a	Serpinb1a	−4.82
Ependymin 2	Epdm2-pend.	−4.13
Hemoglobin alpha, adult chain 1	Hba-a1	−3.97
SPARC-like 1 (mast9, hevin)	Sparcl1	−3.09
Gap junction membrane channel protein alpha 1 (Cx43)	Gja1	−2.90
Sperm-associated antigen 9	Spag9	−2.88
Secreted (semaphorin) 3C	Sema3c	−2.85
Cathepsin 8	Cts8	−2.68
Integrin beta 1 (fibronectin receptor beta)	Itgb1	−2.53
Embigin	Emb	−2.47
N-ethylmaleimide sensitive fusion protein	Nsf	−2.42
T-cell immunomodulatory protein	Cda08-pend.	−2.28
Calsyntenin 1	Clstn1	−2.26
Stromal Cell-derived factor receptor 1	Sdfr1	−2.25
Myelin and lymphocyte protein, T-cell differentiation protein	Mal	−2.25
Melanoma antigen, family D, 1	Maged1	−2.25