Batch correction of microarray data substantially improves the identification of genes differentially expressed in Rheumatoid Arthritis and Osteoarthritis

Table 4 Genes of the top-ranked GO category (time point 0 hours) identified with b) or without BC a)

GC ID	P-value	SYMBOL	ENTREZ ID	Gene name
GC01M103055_at	3.90E-05	COL11A1	1301	collagen, type XI, alpha 1
GC09P115957_at	3.73E-03	COL27A1	85301	collagen, type XXVII, alpha 1
GC0XP152413_at	3.59E-02	BGN	633	biglycan
GC01M103055_at	5.31E-25	COL11A1	1301	collagen, type XI, alpha 1
GC0XP152413_at	5.07E-12	BGN	633	biglycan
GC02P189547_at	1.39E-08	COL3A1	1281	collagen,type III, alpha 1
GC09P115957_at	2.98E-06	COL27A1	85301	collagen, type XXVII, alpha 1
GC01P031814_at	6.96E-05	TINAGL1	64129	tubulointerstitial nephritis antigen-like 1
GC07P093861_at	4.37E-04	COL1A2	1278	collagen, type I, alpha 2
GC02M189604_at	1.13E-03	COL5A2	1290	collagen, type V, alpha 2
GC17M045617_at	1.28E-02	COL1A1	1277	collagen, type I, alpha 1

Genes of the GO category (GO:0005201 extracellular matrix structural constituent) top-ranked with or without BC (see Table 3), including their p-value for differential expression between RA and OA. Genes represented in both data sets are highlighted in bold. Please note that both the number of genes and the p-value for differential expression considerably improve.

ISSN: 1755-8794