Research article
An array CGH based genomic instability index (G2I) is predictive of clinical outcome in breast cancer and reveals a subset of tumors without lymph node involvement but with poor prognosis
1 Inserm U 916 Institut Bergonié, Université de Bordeaux, Bordeaux, France
2 Cancer Genetics Unit, Institut Bergonié, Bordeaux, France
3 «Cartes d’Identité des Tumeurs »(CIT) program, Ligue Nationale Contre le Cancer, Paris, France
4 Clinical and Epidemiological Research Unit, Institut Bergonié, Bordeaux, France
5 Inserm U 896, IRCM – Centre Val d’Aurelle – Paul Lamarque, Montpellier, France
6 Surgery Department, Institut Bergonié, Bordeaux, France
7 Medical Oncology Department, Institut Bergonié, Bordeaux, France
8 Pathology Department, Institut Bergonié, Bordeaux, France
9 Inserm U916, Institut Bergonié, 229 Cours de l’Argonne, Bordeaux cedex, 33076, France
BMC Medical Genomics 2012, 5:54 doi:10.1186/1755-8794-5-54
Published: 27 November 2012Additional files
Additional file 1:
Supplementary tables. File containing six supplementary tables; samples annotations for the 135 studied tumors; incidence of the most frequent genomic gains and losses with respect to array-CGH clusters of tumors; description of genomic regions of amplification; description of recurrently gained and lost genomic regions in G2I-3 tumors; list of probe sets defining the transcriptomic signature of the G2I-3 tumors; Gene Ontology enrichment for the G2I-3 expression signature.
Format: PDF Size: 448KB Download file
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Additional file 2:
Supplementary methods. File containing methodological details.
Format: DOC Size: 199KB Download file
This file can be viewed with: Microsoft Word Viewer
Additional file 3:
G2I_R tool. File containing the R script used to generate the G2I with the tables of data and the instructions useful to reproduce the results.
Format: ZIP Size: 478KB Download file
Additional file 4:
Supplementary figures. File containing three supplementary figures; scatter plot of the 135 tumors according to the G2I and axillary lymph node involvement; frequency plot of genomic copy number variation in tumors belonging to the 3 classes of G2I; Hierarchical clustering showing the differential expression of 300 probe sets between G2I-3 and G2I-2 tumors. (PDF 279 kb)
Format: PDF Size: 280KB Download file
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