ArrayExpress Uploaderarrayexpress_sidhuman0356ERneg20N039core needle biopsyNN0356ERneg20N039fine needle aspirationNN2334ERneg20N038core needle biopsyNN2334ERneg20N038fine needle aspirationNN2349ERneg40N037core needle biopsyNP2349ERneg40N037fine needle aspirationNP1252ERpos480P8036core needle biopsyPP1252ERpos480P8036fine needle aspirationPP0149ERpos360P9535core needle biopsyPN0149ERpos360P9535fine needle aspirationPN1345ERpos330P3034core needle biopsyPN1345ERpos330P3034fine needle aspirationPN1346ERneg40N033core needle biopsyNN1346ERneg40N033fine needle aspirationNN1350ERneg20N032core needle biopsyNP1350ERneg20N032fine needle aspirationNP0347ERneg21N531core needle biopsyNN0347ERneg21N531fine needle aspirationNN1361ERneg40N030core needle biopsyNN1361ERneg40N030fine needle aspirationNN1160ERpos230P10028core needle biopsyPN1160ERpos230P10028fine needle aspirationPNNANANAERposNANANANA27core needle biopsyNANANANANAERposNANANANA27fine needle aspirationNANANANANAERposNANANANA26core needle biopsyNANANANANAERposNANANANA26fine needle aspirationNANANANANAERposNANANANA25core needle biopsyNANANANANAERposNANANANA25fine needle aspirationNANANANANAERposNANANANA24core needle biopsyNANANANANAERposNANANANA24fine needle aspirationNANANANANAERnegNANANANA23core needle biopsyNANANANANAERnegNANANANA23fine needle aspirationNANANANANAERposNANANANA22core needle biopsyNANANANANAERposNANANANA22fine needle aspirationNANANANANAERposNANANANA21core needle biopsyNANANANANAERposNANANANA21fine needle aspirationNANANANANAERnegNANANANA20core needle biopsyNANANANANAERnegNANANANA20fine needle aspirationNANA1351ERpos10N9019core needle biopsyPN1351ERpos10N9019fine needle aspirationPNNANANANANANANANA18core needle biopsyNANA1245ERpos20N9118fine needle aspirationPN1237ERneg30N017core needle biopsyNN1237ERneg30N017fine needle aspirationNNNANANANANANANANA16core needle biopsyNANA1363ERpos20N016fine needle aspirationNN0344ERneg20N015core needle biopsyNN0344ERneg20N015fine needle aspirationNN3346ERpos410P3014core needle biopsyPN3346ERpos410P3014fine needle aspirationPN2245ERneg30N013core needle biopsyNP2245ERneg30N013fine needle aspirationNP0355ERneg20N012core needle biopsyNP0355ERneg20N012fine needle aspirationNPNANANANANANANANA10core needle biopsyNANA0353ERneg30N010fine needle aspirationNN0347ERpos260P809core needle biopsyPN0347ERpos260P809fine needle aspirationPN0246ERpos1100P1008core needle biopsyPN0246ERpos1100P1008fine needle aspirationPN0341ERpos35N807core needle biopsyPN0341ERpos35N807fine needle aspirationPN0257ERpos280P906core needle biopsyPN0257ERpos280P906fine needle aspirationPN1330ERneg30N05core needle biopsyNP1330ERneg30N05fine needle aspirationNP1345ERpos380P804core needle biopsyPP1345ERpos380P804fine needle aspirationPP0337ERneg190P03core needle biopsyNN0337ERneg190P03fine needle aspirationNN0350ERpos30N952core needle biopsyPP0350ERpos30N952fine needle aspirationPP1151ERpos35N951core needle biopsyPN1151ERpos35N951fine needle aspirationPN127303Paired FNA and CBX specimens were prospectively collected from 37 breast cancers before any systemic therapy during a biomarker discovery...20805453E-GEOD-32518/profile/8773/arrayexpressuploader1274breastcancerstromaDec.12, 2014FalseE-GEOD-32518_A-AFFY-33expression-data-from-paired-matched-breast-cancerExpression data from paired matched breast cancer Fine needle aspiration (FNA) or Core needle biopsies (CBX)Jun.18, 2014Paired FNA and CBX specimens were prospectively collected from 37 breast cancers before any systemic therapy during a biomarker discovery study at The University of Texas M. D. Anderson Cancer Center. We identified 293 probe sets overexpressed in core biopsies; these included five highly coexpressed gene clusters (metagenes) corresponding to immune functions and extracellular matrix components. We compared gene expression profiles of pairs of fine-needle (stroma-poor) and core-needle (stroma-rich) biopsies from 37 cancers to identify stroma-associated genes Pre-treatment paird matched FNA and CBX from primary tumors were obtained and RNA extracted and hybridized to afymetrix microarrays according to manufacturer protocol.http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-32518http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-32518/samples/