Dataset: Expression data from breast cancer FNA biopsies from patients (US samples)

This is Phase II Trial of 4courses of 5-fluorouracil, doxorubicin and cyclophosphamide follwed by 4 additional courses of weekly...

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This is Phase II Trial of 4courses of 5-fluorouracil, doxorubicin and cyclophosphamide follwed by 4 additional courses of weekly docetaxel and capecitabine administered as Preoperative Therapy for Patients with Locally Advanced Breast Cancer, Stages II and III by US oncology (PROTOCOL 02-103) We performed gene set analysis (GSA) using functionally annotated gene sets corresponding to almost all known biological processes in ER-positive/HER2negative and ER-negative/HER2-negative breast cancer, respectively. Pre-treatment FNA from primary tumors were obtained and RNA extracted and hybridized to afymetrix microarrays according to manufacturer protocol.

Species:: human
Samples:: 61
Source:: E-GEOD-23988
PubMed:: 21191116
Updated:: Dec.12, 2014
Registered:: Jun.19, 2014

Factors: (via ArrayExpress)

Sample	PCR.V.RD	ER POSITIVE VS NEGATIVE	GRADE	AGE	PRECHEMO NODAL STATUS	PRECHEMO T STAGE	PRECHEMO TUMOR SIZE
GSM590900	RD	ERpos	3	44.225	1	2	4
GSM590899	RD	ERpos	2	58.130	2	3	6
GSM590898	RD	ERneg	3	61.073	0	2	3.4
GSM590897	RD	ERpos	2	57.654	1	2	3
GSM590896	pCR	ERneg	NA	52.808	0	2	4
GSM590895	RD	ERpos	2	46.004	1	2	3.5
GSM590894	pCR	ERneg	3	45.963	3	3	6
GSM590893	RD	ERpos	3	45.232	0	3	6
GSM590892	RD	ERpos	3	54.549	0	2	5
GSM59089	RD	ERpos	2	42.565	1	3	5.5
GSM590890	pCR	ERneg	3	48.433	0	3	8
GSM590889	pCR	ERneg	3	46.782	1	2	4
GSM590888	RD	ERpos	2	34.075	0	3	6
GSM590887	RD	ERpos	2	47.899	1	3	10
GSM590886	RD	ERneg	3	32.578	1	1	2
GSM590885	pCR	ERneg	NA	49.607	0	3	6.5
GSM590884	RD	ERneg	2	38.593	0	3	13
GSM590883	RD	ERpos	2	52.485	0	3	7
GSM590882	pCR	ERpos	3	40.337	2	2	2.3
GSM59088	pCR	ERpos	3	47.392	0	3	7
GSM590880	RD	ERneg	3	55.658	1	3	6
GSM590879	RD	ERneg	3	66.710	1	3	5.5
GSM590878	pCR	ERpos	2	50.056	1	2	4
GSM590877	RD	ERneg	3	33.539	2	3	11.8
GSM590876	RD	ERpos	3	44.402	1	3	6
GSM590875	pCR	ERpos	3	52.745	1	3	10
GSM590874	pCR	ERneg	3	40.687	3	2	3.5
GSM590873	RD	ERneg	3	62.341	1	2	2.5
GSM590872	RD	ERpos	2	59.472	1	3	10
GSM59087	RD	ERneg	3	43.893	2	3	5.5
GSM590870	pCR	ERneg	2	49.246	0	3	7.5
GSM590869	pCR	ERneg	3	50.300	1	2	3.5
GSM590868	RD	ERpos	NA	26.086	1	3	14
GSM590867	RD	ERneg	3	66.820	1	3	11.5
GSM590866	RD	ERpos	3	45.109	1	3	11
GSM590865	RD	ERpos	2	55.934	1	3	8
GSM590864	RD	ERneg	2	60.860	1	2	4
GSM590863	RD	ERpos	3	41.273	1	3	5.3
GSM590862	RD	ERneg	3	65.314	2	3	17.5
GSM59086	RD	ERpos	3	60.099	0	3	6
GSM590860	pCR	ERneg	3	51.132	1	3	6
GSM590859	RD	ERpos	1	45.363	0	2	4
GSM590858	RD	ERneg	3	59.231	0	3	15
GSM590857	RD	ERpos	2	51.461	0	3	6.5
GSM590856	RD	ERpos	3	46.943	1	3	6
GSM590855	pCR	ERneg	3	50.064	1	3	7.5
GSM590854	RD	ERpos	3	53.988	0	3	6
GSM590853	RD	ERneg	2	65.054	1	3	11
GSM590852	RD	ERneg	3	49.010	0	3	6
GSM59085	RD	ERneg	3	40.337	1	2	5
GSM590850	pCR	ERneg	3	43.028	1	3	8
GSM590849	RD	ERpos	3	57.536	1	2	5
GSM590848	pCR	ERneg	3	34.059	0	3	7
GSM590847	RD	ERpos	2	47.118	1	3	7
GSM590846	pCR	ERpos	3	50.771	1	3	10
GSM590845	pCR	ERpos	3	43.775	3	3	8
GSM590844	pCR	ERpos	2	47.099	0	2	3.5
GSM590843	RD	ERpos	2	36.739	1	2	4
GSM590842	pCR	ERneg	3	41.914	1	2	3
GSM59084	RD	ERpos	2	32.197	0	2	4.5
GSM590840	RD	ERneg	NA	46.209	0	3	6