TABLE 4.

GO terms and pathways involved with some of the top differentially expressed genes between the LL-like lymphomas and normal control group of nonmalignant bursa tissues

Domaina	GO term	Gene(s)	Upb	Genes	Downc
Oncogenes
BP	Signaling	BCL9L, RHOH, CNKSR2, RASA3	4	RAB7B, RASGEF1C, RASSF6, ROS1, MET	5
BP	Biological regulation	BCL9L, RHOH, CNKSR2, RASA3, TIAM2	5	RAB7B, RASGEF1C, RASSF6, ROS1, MET, RAB11FIP3	6
BP	Regulation of biological process	BCL9L, RHOH, CNKSR2, RASA3, TIAM2	5	RAB7B, RASGEF1C, RASSF6, ROS1, MET, RAB11FIP3	6
BP	Regulation of cellular process	BCL9L, RHOH, CNKSR2, RASA3, TIAM2	5	RAB7B, RASGEF1C, RASSF6, ROS1, MET, RAB11FIP3	6
BP	Signal transduction	BCL9L, RHOH, CNKSR2, RASA3	4	RAB7B, RASGEF1C, RASSF6, ROS1, MET	5
Tumor suppressor genes
BP	Intracellular estrogen receptor signaling pathway		0	SRC, TP63	2
BP	Apoptotic signaling pathway	HSPH1	1	SRC, TP63	2
BP	Regulation of apoptotic signaling pathway	HSPH1	1	SRC, TP63	2
Virus-associated genes
BP	Regulation of gene expression		0	MAFB, YES1, ETS2, ERBB2, YAP1	5
BP	Nucleic acid-templated transcription		0	MAFB, YES1, ETS2, ERBB2, YAP1	5
BP	Transcription, DNA templated		0	MAFB, YES1, ETS2, ERBB2, YAP1	5
BP	Regulation of RNA biosynthetic process		0	MAFB, YES1, ETS2, ERBB2, YAP1	5
BP	Regulation of nucleic acid-templated transcription		0	MAFB, YES1, ETS2, ERBB2, YAP1	5
BP	Regulation of transcription, DNA templated		0	MAFB, YES1, ETS2, ERBB2, YAP1	5
BP	Positive regulation of transcription, DNA templated		0	YES1, ETS2, ERBB2, YAP1	4
BP	Positive regulation of gene expression		0	YES1, ETS2, ERBB2, YAP1	4
BP	Positive regulation of RNA biosynthetic process		0	YES1, ETS2, ERBB2, YAP1	4
BP	Positive regulation of nucleic acid-templated transcription		0	YES1, ETS2, ERBB2, YAP1	4
Immune response and cytokine genes
BP	Regulation of signaling receptor activity	IL18	1	TNFSF15, TGFB2, IL8L1, IL8L2, IL34, IL-1BETA	6
BP	Cytokine-mediated signaling pathway	IL18	1	LIFR, ACKR2, IL17REL, CCR6, IL8L1, IL1RL1, IL8L2, IL1R1	8
BP	Cell activation	IL18, BANK1	2	CCR6, IL8L1, IL1RL1, IL8L2, IL-1BETA	5
BP	Leukocyte activation	IL18, BANK1	2	CCR6, IL8L1, IL1RL1, IL8L2, IL-1BETA	5
BP	Regulation of signaling	IL18, BANK1	2	CXXC5, TNFSF15, TLR5, TGFB2, SOCS2, IL8L1, IL1RL1, IL8L2, IL34, IL-1BETA	10
BP	Regulation of signal transduction	IL18, BANK1	2	CXXC5, TNFSF15, TLR5, TGFB2, SOCS2, IL8L1, IL1RL1, IL8L2, IL34, IL-1BETA	10
BP	Immune system process	IL18, BANK1, CD247	3	CXCL14, TNFSF15, TLR5, TGFB2, CCR6, IL8L1, ALCAM, IL1RL1, IL8L2, CX3CL1, IL34, IL-1BETA	12
BP	Regulation of immune system process	IL18, BANK1, CD247	3	CXCL14, TLR5, TGFB2, CCR6, IL8L1, IL1RL1, IL8L2, IL34, IL-1BETA	9
MF	Signaling receptor binding	IL18, BANK1, CD247	3	LIFR, CXCL14, TNFSF15, TLR5, TGFB2, SOCS2, IL8L1, IL8L2, CX3CL1, IL34, IL-1BETA	11
BP	Signaling	IL18, BANK1, CD247, CD3D	4	CXXC5, LIFR, ACKR2, CXCL14, TNFSF15, IL17REL, TLR5, TGFB2, SOCS2, CCR6, IL8L1, IL1RL1, IL8L2, IL34, IL-1BETA, IL1R1	16
BP	Signal transduction	IL18, BANK1, CD247, CD3D	4	CXXC5, LIFR, ACKR2, TNFSF15, IL17REL, TLR5, TGFB2, SOCS2, CCR6, IL8L1, IL1RL1, IL8L2, IL34, IL-1BETA, IL1R1	15
BP	Immune response	IL18, CD247	2	CXCL14, TNFSF15, TLR5, TGFB2, CCR6, IL8L1, ALCAM, IL1RL1, IL8L2, CX3CL1, IL-1BETA	11
BP	Positive regulation of immune system process	IL18, CD247	2	CXCL14, TLR5, IL8L1, IL1RL1, IL8L2, IL34, IL-1BETA	7
BP	Cell surface receptor signaling pathway	IL18, CD247, CD3D	3	LIFR, ACKR2, IL17REL, TGFB2, SOCS2, CCR6, IL8L1, IL1RL1, IL8L2, IL1R1	10
keg	KEGG pathways	IL18, CD1C, TNFRSF13C	3	LIFR, CXCL14, TNFSF15, TLR5, TGFB2, CCR6, IL8L1, ALCAM, IL8L2, CX3CL1, IL-1BETA, IL7, CX3CR1, IL1R1	14
keg	Cytokine-cytokine receptor interaction	IL18, TNFRSF13C	2	LIFR, CXCL14, TNFSF15, TGFB2, CCR6, IL8L1, IL8L2, CX3CL1, IL-1BETA, IL7, CX3CR1, IL1R1	12
BP	Chemokine-mediated signaling pathway		0	ACKR2, CCR6, IL8L1, IL8L2	4
BP	Leukocyte migration		0	CXCL14, CCR6, IL8L1, IL8L2, IL-1BETA	5
BP	Regulation of leukocyte migration		0	CXCL14, CCR6, IL8L1, IL8L2	4
keg	Toll-like receptor signaling pathway		0	TLR5, IL8L1, IL8L2, IL-1BETA	4

^aMF, molecular function; BP, biological process; keg, KEGG pathways.

^bUp, upregulated.

^cDown, downregulated.