STANDARD_NAME	ZHAN_V1_LATE_DIFFERENTIATION_GENES_UP
SYSTEMATIC_NAME	M13608
COLLECTION	C2:CGP
MSIGDB_URL	https://www.gsea-msigdb.org/gsea/msigdb/human/geneset/ZHAN_V1_LATE_DIFFERENTIATION_GENES_UP
NAMESPACE	AFFY_HuGene
DESCRIPTION_BRIEF	The v1LDG up-regulated set: most variable late differentiation genes (LDG) with similar expression patterns in tonsil plasma cells (TPC) and multiple myeloma (MM) samples.
DESCRIPTION_FULL	To identify genes linked to normal plasma cell (PC) differentiation and to classify multiple myeloma (MM) with respect to the expression patterns of these genes, we analyzed global mRNA expression in CD19-enriched B cells (BCs) from 7 tonsils, CD138-enriched PCs from 11 tonsils, 31 normal bone marrow samples, and 74 MM bone marrow samples using microarrays interrogating 6800 genes. Hierarchical clustering analyses with 3288 genes clearly segregated the 4 cell types, and chi-square and Wilcoxin rank sum tests (P <.0005) identified 359 and 500 previously defined and novel genes that distinguish tonsil BCs from tonsil PCs (early differentiation genes [EDGs]), and tonsil PCs from bone marrow PCs (late differentiation genes [LDGs]), respectively. MM as a whole was found to have dramatically variable expression of EDGs and LDGs, and one-way analysis of variance (ANOVA) was used to identify the most variable EDGs (vEDGs) and LDGs (v1LDG and v2LDG). Hierarchical cluster analysis with these genes revealed that previously defined MM gene expression subgroups (MM1-MM4) could be linked to one of the 3 normal cell types. Clustering with 30 vEDGs revealed that 13 of 18 MM4 cases clustered with tonsil BCs (P =.000 05), whereas 14 of 15 MM3 cases clustered with tonsil PCs when using 50 v1LDG (P =.000 008), and 14 of 20 MM2 cases clustered with bone marrow PCs when using 50 v2LDG (P =.000 09). MM1 showed no significant linkage with normal cell types studied. Thus, genes whose expression is linked to distinct transitions in late-stage B-cell differentiation can be used to classify MM.
PMID	12393520
GEOID	
AUTHORS	Zhan F,Tian E,Bumm K,Smith R,Barlogie B,Shaughnessy J Jr
CONTRIBUTOR	Arthur Liberzon
CONTRIBUTOR_ORG	MSigDB Team
EXACT_SOURCE	Table 5: up from (TPC and MM) to BPC
FILTERED_BY_SIMILARITY	
EXTERNAL_NAMES_FOR_SIMILAR_TERMS	
EXTERNAL_DETAILS_URL	
SOURCE_MEMBERS	D10522_at,D12775_s_at,D29805_at,D50663_at,D82061_at,L02648_at,L06797_s_at,L09209_s_at,L13977_at,L35249_s_at,L36033_at,L38696_at,L41870_at,M25897_at,M26602_at,M27891_at,M29877_at,M32304_s_at,M54995_at,M59465_at,M80563_at,U05875_at,U12255_at,U19495_s_at,U37546_s_at,U40846_s_at,U78095_at,U79288_at,U90902_at,X04085_rna1_at,X53586_rna1_at,X76732_at,Y00433_at,Z11793_at
GENE_SYMBOLS	MARCKS,AMPD3,B4GALT1,DYNLT1,HSD17B8,TCN2,CXCR4,APLP2,PRCP,ATP6V1B2,CXCL12,RALY,RB1,PF4,DEFA1,CST3,FUCA1,TIMP2,PPBP,TNFAIP3,S100A4,IFNGR2,FCGRT,CXCL12,BIRC3,NAGLU,SPINT2,KIAA0513,TIAM1,CAT,ITGA6,NUCB2,RHOA,SELENOP
FOUNDER_NAMES