Molecular characterization of subcutaneous panniculitis-like T-cell lymphoma reveals upregulation of immunosuppression- and autoimmunity-associated genes

Maliniemi, Pilvi; Hahtola, Sonja; Ovaska, Kristian; Jeskanen, Leila; Väkevä, Liisa; Jäntti, Kirsi; Stadler, Rudolf; Michonneau, David; Fraitag, Sylvie; Hautaniemi, Sampsa; Ranki, Annamari

doi:10.1186/s13023-014-0160-2

Orphanet Journal of Rare Diseases

Table 2 SPTL patients show differences in the expression of selected genes compared to controls

From: Molecular characterization of subcutaneous panniculitis-like T-cell lymphoma reveals upregulation of immunosuppression- and autoimmunity-associated genes

Gene	Normal fat ¹		Combined controls ²		Inflammatory EN ³		DNA band	Gene function
Gene	FC	p-value	FC	p-value	FC	p-value	DNA band	Gene function
CXCL10	170.1	<0.01	32.93	0.05	ns	ns	4q21.1	chemokine, T-cell trafficking, ligand for CXCR3
GBP5	78.08	<0.01	28.00	0.02	ns	ns	1p22.2	GTPase activity, cellular response to interferon-G
IDO1	70.57	<0.01	35.52	<0.01	17.91	0.01	8p12-11	catabolism of tryptophan, suppressor of immune response
IKZF3	63.27	0.05	24.48	0.01	10.98	0.05	17q12	B-cell activation, regulation of lymphocyte differentiation
IGJ	55.37	0.01	36.09	0.01	19.40	0.03	4q13.3	IgA and antigen binding, adaptive immune response,
CXCL9	ns	ns	20.25	0.04	ns	ns	4q21.1	chemokine, T-cell trafficking, ligand for CXCR3
IL2RB	45.71	<0.01	25.76	<0.01	12.49	0.01	22q12.3	cytokine receptor
CXCL11	41.41	<0.01	17.31	0.01	7.33	0.02	4q21.1	chemokine, T-cell trafficking, ligand for CXCR3
KLRD1	36.53	0.01	28.68	0.01	19.44	0.01	12p13.2	transmembrane receptor activity, innate immune response
CCL5	34.83	<0.01	18.37	0.01	ns	ns	17q12	chemokine, T-cell polarization
PRF1	32.69	<0.01	26.15	<0.01	19.86	<0.01	10q22.1	calcium ion binding, cellular defense response,
SLAMF7	28,67	0.01	16.60	<0.01	9.89	0.01	1q23.3	lymphocyte activation
GZMB	22.58	<0.01	22.58	<0.01	18.57	<0.01	14q12	T-cell cytotoxicity
CCR5	25.72	<0.01	10.21	0.01	4.75	<0.01	3p21.31	chemokine receptor
NKG7	23.55	<0.01	17.73	<0.01	13.82	<0.01	19q13.41	integral component of plasma membrane
RASGRP1	20.76	0.03	8.09	0.01	4.10	<0.01	15q14	lymphocyte regulation
APOBEC3G	19.47	<0.01	9.65	<0.01	5.42	<0.01	22q13.1	innate immune response, defense response to virus
KIR2DS4	ns	ns	ns	ns	19,01	0.05	19q13.42	innate immune response
IFNG	17.24	0.01	15.46	0.01	10.45	0.01	12q15	cytokine, immunoregulator
TNFRSF9	15.54	0.02	14.45	0.02	11.57	0.02	1p36.23	receptor, survival and development of T cells
CCL4	12.64	<0.01	8.97	0.01	ns	ns	17q12	chemokine, T-cell polarization
TRIM59	9.93	0.01	5.38	0.03	ns	ns	3q25.33	negative regulation of I-kappaB kinase/NF-kappaB signaling
CXCR3	9.83	0.04	6.68	<0.01	4.68	0.04	Xq13.1	chemokine receptor, recruitment of inflammatory cells
FASLG	5.00	0.01	5.38	<0.01	6.12	0.01	1q24.3	cytokine activity, T cell apoptotic process
TBX18	0.22	0.05	ns	ns	ns	ns	6q14.3	transcription factor
TBX15	0.13	<0.01	0.19	<0.01	ns	ns	1p12	transcription factor

¹SPTL vs. normal subcutaneous fat, ²SPTL vs. combined controls, ³SPTL vs. inflammatory EN, ns = non-significant. FC = Fold Change. See ArrayExpress for all data.

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