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Clinical

Primary breast cancer

Purpose

The purpose of this study was to identify genes that marks and mediates breast cancer metastasis to the lungs.

Hypothesis

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Experimental Design

A cohort of 82 breast cancer patients treated at the Memorial Sloan-Kettering Cancer Center, New York was used in a univariate Cox proportional hazards model to relate the expression level of each lung metastasis signature gene with clinical outcome.

Experimental Variables

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Controls

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Methods

Subpopulations of MDA-MB-231 that exhibit different metastatic tropisms when injected into immuno-deficient mice. Also, a cohort of primary breast cancers surgically resected at the Memorial Sloan-Kettering Cancer Center (MSKCC).

For the primary breast tumour data, tissues from primary breast cancers were obtained from therapeutic procedures performed as part of routine clinical management. Samples were snap-frozen in liquid nitrogen and stored at ?80 °C. Each sample was examined histologically in cryostat sections stained with hematoxylin and eosin. Regions were dissected manually from the frozen block to provide a consistent tumour cell content of greater than 70% in tissues used for analysis.

Additional Information

Minn, Andy J., Gaorav P. Gupta, Peter M. Siegel, Paula D. Bos, Weiping Shu, Dilip D. Giri, Agnes Viale, Adam B. Olshen, William L. Gerald, and Joan Massagué. “Genes That Mediate Breast Cancer Metastasis to Lung.” Nature 436, no. 7050 (July 28, 2005): 518–24. doi:10.1038/nature03799.

Microarray
Affymetrix HG-U133A
22 Samples Loaded: 22
Human (Homo sapiens)
Breast Cancer Tissue , Nagalla 2013 , MDA-MB-231
Mixed Breast Cancer Types
Sample Set Spreadsheet
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Samples Preview
Sample ID series IMS IBS IDS ICR
GSM49953 NA NA NA NA NA
GSM49954 NA NA NA NA NA
GSM49955 NA NA NA NA NA
GSM49956 NA NA NA NA NA
GSM49957 NA NA NA NA NA
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File
GSE2603_appended.meta.data_Cell_Lines_v1.csv
Sample Set Spreadsheet
Raw Signal
Raw Signal
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Clinical Datasource
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Samples Viewer / Editor

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Sample ID Series IMS IBS IDS ICR Array Sample ID Sample Title DMFS 10Y EVENT DMFS 10Y TIME Disease Free Survival Event Disease Free Survival Distant Met Free Survival Event Distant Met Free Survival Age At Initial Pathologic Diagnosis Lymph Node Status ER Status PR Status Histology Differentiation Grade Tumor Size Cm Pathology T Stage Tissue Type
GSM49953
NA
NA
NA
NA
NA
400003067
Parental_A
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
MDA-MB-231 breast cancer cell line
GSM49954
NA
NA
NA
NA
NA
400003068
Parental MDA-MB-231 Replicate B
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line MDA-MB-231
GSM49955
NA
NA
NA
NA
NA
400003069
4180
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
in vivo selected subpopulation of MDA-MB-231
GSM49956
NA
NA
NA
NA
NA
400003070
4175
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Subpopulation of MDA-MB-231
GSM49957
NA
NA
NA
NA
NA
400003071
4173
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Subpopulation of MDA-MB-231
GSM50017
NA
NA
NA
NA
NA
400003072
MDA-MB-231 #4142
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50018
NA
NA
NA
NA
NA
400003073
MDA-MB-231 #3481
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50019
NA
NA
NA
NA
NA
400003074
MDA-MB-231 #2295
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50020
NA
NA
NA
NA
NA
400003075
MDA-MB-231 #2293
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50021
NA
NA
NA
NA
NA
400003076
MDA-MB-231 #1834
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50022
NA
NA
NA
NA
NA
400003077
MDA-MB-231 #1833
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50023
NA
NA
NA
NA
NA
400003078
MDA-MB-231 SCP#6
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50024
NA
NA
NA
NA
NA
400003079
MDA-MB-231 SCP#46
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50025
NA
NA
NA
NA
NA
400003080
MDA-MB-231 SCP#43
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50026
NA
NA
NA
NA
NA
400003081
MDA-MB-231 SCP#32
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50027
NA
NA
NA
NA
NA
400003082
MDA-MB-231 SCP#3
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50028
NA
NA
NA
NA
NA
400003083
MDA-MB-231 SCP#28
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50029
NA
NA
NA
NA
NA
400003084
MDA-MB-231 SCP#26
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50030
NA
NA
NA
NA
NA
400003085
MDA-MB-231 SCP#25
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50031
NA
NA
NA
NA
NA
400003086
MDA-MB-231 SCP#21
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50032
NA
NA
NA
NA
NA
400003087
MDA-MB-231 SCP#2
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line
GSM50033
NA
NA
NA
NA
NA
400003088
MCF10A
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
NA
Breast cancer cell line

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