Table 1.

Top upregulated and downregulated genes

Top upregulated genes				Top downregulated genes
Probe ID	Gene	Gene description	log₂ ratio	Probe ID	Gene	Gene description	log₂ ratio
TGF-β1+LPS+IFNγ				TGF-β1+LPS+IFNγ
2763245	Cxcl1	Chemokine (C-X-C motif) ligand 1	7.77	2602581	Gmpr	Guanosine monophosphate reductase	−3.49
1215862	Cxcl9	Chemokine (C-X-C motif) ligand 9	7.77	2958067		RIKEN cDNA 6030405A18 gene	−3.44
3142803	Cxcl10	Chemokine (C-X-C motif) ligand 10	7.34	2741063	Aif1l	Allograft inflammatory factor 1-like	−3.42
2835117	Ccl7	Chemokine (C-C motif) ligand 7	7.26	2736471	Ccno	Cyclin O	−3.21
1231814	Ccl5	Chemokine (C-C motif) ligand 5	7.25	2768972	Fam107a	Family with sequence similarity 107, member A	−2.93
3160750		Expressed sequence AA467197	6.67	2678366	Psd2	Pleckstrin and Sec7 domain containing 2	−2.90
1225204	Rsad2	Radical S-adenosyl methionine domain containing 2	6.55	2967750	Fam123a	Family with sequence similarity 123, member A	−2.74
2733733	Tlr2	Toll-like receptor 2	6.50	2628174	Acas2l	Acyl-CoA synthetase short-chain family member 1	−2.73
1245710	Ccl2	Chemokine (C-C motif) ligand 2	6.48	2954824	Ppp1r1b	Protein phosphatase 1, regulatory (inhibitor) subunit 1B	−2.62
2662802	Ptx3	Pentraxin related gene	6.47	3062267	Acot1	Acyl-CoA thioesterase 1	−2.61
LPS+IFNγ				LPS+IFNγ
1215862	Cxcl9	Chemokine (C-X-C motif) ligand 9	7.84	2741063	Aif1l	Allograft inflammatory factor 1-like	−3.00
2763245	Cxcl1	Chemokine (C-X-C motif) ligand 1	7.77	2768972	Fam107a	Family with sequence similarity 107, member A	−2.98
1231814	Ccl5	Chemokine (C-C motif) ligand 5	7.40	2958067		RIKEN cDNA 6030405A18 gene	−2.80
3142803	Cxcl10	Chemokine (C-X-C motif) ligand 10	7.39	2602581	Gmpr	Guanosine monophosphate reductase	−2.56
2835117	Ccl7	Chemokine (C-C motif) ligand 7	6.89	1242170	Adra2a	Adrenergic receptor, α 2a	−2.49
2733733	Tlr2	Toll-like receptor 2	6.50	2652414	Ncald	Neurocalcin delta	−2.49
2662802	Ptx3	Pentraxin related gene	6.48	1214880	Dmn	Desmuslin (Dmn), transcript variant 2	−2.48
1225204	Rsad2	Radical S-adenosyl methionine domain containing 2	6.47	2736471	Ccno	Cyclin O	−2.41
2652857	Ifi47	IFNγ inducible protein 47	6.37	1246821		RIKEN cDNA E130203B14 gene	−2.39
2426853	Ubd	Ubiquitin D	6.35	2954824	Ppp1r1b	Protein phosphatase 1, regulatory (inhibitor) subunit 1B	−2.35
TGF-β1				TGF-β1
2633350	Mfap4	Microfibrillar-associated protein 4	3.51	2958067		RIKEN cDNA 6030405A18 gene	−2.13
3160638	Ripply1	ripply1	3.08	1230586	Traf1	Tnf receptor-associated factor 1	−1.54
2742042	Nupr1	Nuclear protein 1	2.90	2862026		RIKEN cDNA 1700084C01 gene	−1.48
2793062	Rasl11b	RAS-like, family 11, member B	2.62	1231274	Cklfsf5	CKLF-like MARVEL Transmembrane domain containing 5	−1.48
2706269	Hspb1	Heat shock protein 1	2.20	2702266	Crygs	Crystallin, gamma S	−1.42
2966104	Htra1	HtrA serine peptidase 1	2.14	2742426	Selenbp1	Selenium binding protein 1	−1.33
1255871	Loxl1	Lysyl oxidase-like 1	2.11	2700408	Mgll	Monoglyceride lipase	−1.31
2675697	Kdelr3	KDEL Endoplasmic reticulum protein retention receptor 3	2.04	1249886	Rln1	relaxin 1	−1.26
2636424	Itgbl1	Integrin, β-like 1	1.99	1226356	Vat1l	Vesicle amine transport protein 1 homolog-like (T. californica)	−1.23
3160292	Akr1c19	Aldo-keto reductase family 1, member C19	1.99	2798402	Lcat	Lecithin cholesterol acetyltransferase	−1.23

All probes start with ILMN. FDR ≤ 0.05, 0.20 absolute log₂ ratio cutoff.