Novel markers for differentiation of lobular and ductal invasive breast carcinomas by laser microdissection and microarray analysis

Gulisa Turashvili; Jan Bouchal; Karl Baumforth; Wenbin Wei; Marta Dziechciarkova; Jiri Ehrmann; Jiri Klein; Eduard Fridman; Jozef Skarda; Josef Srovnal; Marian Hajduch; Paul Murray; Zdenek Kolar

doi:10.1186/1471-2407-7-55

BMC Cancer

Table 2 Genes differentially expressed between normal lobular versus normal ductal cells by both rank products and pairwise analysis

From: Novel markers for differentiation of lobular and ductal invasive breast carcinomas by laser microdissection and microarray analysis

Probe Set¹	Gene Symbol	Gene Title	Rank products	Pairwise comparison
			Fold-change	Incr/Decr
*Regulation of transcription*
229431_at	RFXAP↓	Regulatory factor X-associated protein	-3.1	1/6
229732_at	HSZFP36↓	ZFP-36 for a zinc finger protein	-3.0	0/6
207117_at	H-plk↑	Krueppel-related zinc finger protein	2.4	6/1
*Protein biosynthesis and modification*
214130_s_at	PDE4DIP↓	Phosphodiesterase 4D interacting protein (myomegalin)	-3.2	1/6
232752_at	--- (LOXL1) ↓	CDNA FLJ10302 fis, clone NT2RM2000042 (lysyl oxidase-like 1)	-1.4	1/6
*Proteolysis and metabolism*
49452_at	ACACB↓	Acetyl-Coenzyme A carboxylase beta	-18	0/8
220419_s_at	USP25↓	Ubiquitin specific peptidase 25	-2.9	1/6
220177_s_at	TMPRSS3↓	Transmembrane protease, serine 3	-2.8	1/6
*Ion transport*
201735_s_at	CLCN3↓	Chloride channel 3	-2.8	2/6
205044_at	GABRP↓	Gamma-aminobutyric acid (GABA) A receptor, pi	-1.8	1/6
*Actin binding*
212650_at	EHBP1↑	EH domain binding protein 1	2.6	6/0
*GTPase activity*
202975_s_at	RHOBTB3↑	Rho-related BTB domain containing 3	2.5	7/1
203264_s_at	ARHGEF9↑	Cdc42 guanine nucleotide exchange factor (GEF) 9	2.6	6/0
*Regulation of cell development, activation, growth and motility*
209890_at	TSPAN5↑	Tetraspanin 5	2.6	7/0
*Small leucine-rich proteoglycan (slrp) family*
211896_s_at	DCN↑	Decorin	2.0	7/1
*Protein kinase cascade*
211081_s_at	MAP4K5↓	Mitogen-activated protein kinase kinase kinase kinase 5	-2.3	1/7
*Other*
206157_at	PTX3↓	Pentraxin-related gene, rapidly induced by IL-1 beta	-2.8	2/7
218431_at	C14orf133↓	Chromosome 14 open reading frame 133	-2.7	0/7
218514_at	FLJ10587↓	Hypothetical protein FLJ10587	-2.6	1/7
226760_at	LOC203411↑	Hypothetical protein LOC203411	3.0	6/2

↑ – upregulated in normal lobular cells; ↓ – downregulated in normal lobular cells
¹Affymetrix probe set number; If there was more than one probe set for the particular gene found among top 20 changed genes (according to the fold change), the probe set with the highest fold change is used and number of other probe set is indicated.

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