title: 1155

source_name: breast cancer, sample ISPY-1155

value: IIA

value: SET-Low


title: 1144

status: Public on May 11 2011

type: RNA

city: Woburn

first: Christos

last: Hatzis

state: MA

address: 400 West Cummings Park, Suite 5350

country: USA

institute: Nuvera Biosciences

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized overnight at 46C on Affymetrix U133A arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: GeneChips were scanned using the diagnostic-grade Affymetrix scanner 3000DX

data_processing: Probe intensities were quantified with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings.  CEL files were normalized using global scaling with a trimmed mean target intensity of each array arbitrarily set to 600 using the MAS5 algorithm from the simpleaffy package (http://bioconductor.org/packages/2.4/bioc/html/simpleaffy.html).

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: breast cancer, sample ISPY-1144

label_protocol: A single-round T7 amplification was used to generate biotin-labeled cRNA for hybridization.  At least 1 ug of RNA is required for cRNA synthesis.

extract_protocol: Total RNA was extracted from tissue using Qiagen Rneasy columns

treatment_protocol: Patients prospectively consented to a research biopsy by fine needle aspiration (FNA) or  core biopsy (CBX) prior to any systemic therapy, and to the future assessment of pathologic  response and/or survival endpoints

tag: sample id

tag: source

value: ISPY

value: N

tag: er_status_ihc_esr1_for indeterminate

value: IIB

tag: grade

value: pCR

value: Rx Sensitive

value: High

tag: tissue

value: breast cancer tumor


title: 1149

source_name: breast cancer, sample ISPY-1149

value: Inflammatory

value: RD

value: RCB-III

value: Rx Insensitive

value: Basal

value: RCB-II/III


title: 1140

source_name: breast cancer, sample ISPY-1140

value: P

value: IIIA

value: RCB-II

value: LumB


title: 1135

source_name: breast cancer, sample ISPY-1135

value: ISPY

value: SET-Low

value: Low

value: Normal


title: 1114

source_name: breast cancer, sample ISPY-1114

value: N

value: IIIB


title: 1136

source_name: breast cancer, sample ISPY-1136

value: High

value: pCR

value: breast cancer tumor


title: 1089

source_name: breast cancer, sample ISPY-1089

value: RD

value: SET-High

value: Rx Sensitive


title: 1134

source_name: breast cancer, sample ISPY-1134

value: IIB

value: RCB-III

value: Rx Insensitive

value: RCB-II/III


title: 1092

source_name: breast cancer, sample ISPY-1092

value: P

value: IIA


title: 1138

source_name: breast cancer, sample ISPY-1138

value: ISPY

value: IIIA

value: SET-Low

value: Basal


title: 1106

source_name: breast cancer, sample ISPY-1106

value: N

value: IIIB

value: RCB-II

value: LumB


title: 1123

source_name: breast cancer, sample ISPY-1123

value: I

value: RD

value: Low

value: LumA

value: breast cancer tumor


title: 1078

source_name: breast cancer, sample ISPY-1078

value: pCR

value: SET-Int

value: Rx Sensitive


title: 1127

source_name: breast cancer, sample ISPY-1127

value: P

value: IIA

value: RCB-III

value: Rx Insensitive

value: High

value: RCB-II/III


title: 1095

source_name: breast cancer, sample ISPY-1095

value: ISPY

value: N

value: Inflammatory

value: SET-High


title: 1113

source_name: breast cancer, sample ISPY-1113

value: IIB

value: RD

value: SET-Low

value: LumB


title: 1100

source_name: breast cancer, sample ISPY-1100

value: RCB-II

value: LumA

value: breast cancer tumor


title: 1074

source_name: breast cancer, sample ISPY-1074

value: P

value: IIIA


title: 1067

source_name: breast cancer, sample ISPY-1067

value: Low

value: Basal


title: 1068

source_name: breast cancer, sample ISPY-1068

value: Rx Sensitive


title: 1064

source_name: breast cancer, sample ISPY-1064

value: Rx Insensitive

value: High

value: pCR

value: RCB-II/III


title: 1062

source_name: breast cancer, sample ISPY-1062

value: ISPY

value: N


title: 1132

source_name: breast cancer, sample ISPY-1132

value: IIA

value: RD

value: RCB-III

value: SET-High


title: 1088

source_name: breast cancer, sample ISPY-1088

value: SET-Low

value: LumB


title: 1061

source_name: breast cancer, sample ISPY-1061

value: P

value: RCB-II

value: breast cancer tumor


title: 1050

source_name: breast cancer, sample ISPY-1050

value: IIIA

value: Basal


title: 1057

source_name: breast cancer, sample ISPY-1057

value: Inflammatory

value: Rx Insensitive


title: 1054

source_name: breast cancer, sample ISPY-1054

value: IIB

value: High

value: pCR


title: 1049

source_name: breast cancer, sample ISPY-1049

value: ISPY

value: N

value: RCB-II/III


title: 1044

source_name: breast cancer, sample ISPY-1044

value: RD

value: RCB-III


title: 1055

source_name: breast cancer, sample ISPY-1055

value: IIA

value: SET-High

value: Rx Sensitive

value: Low

value: LumA


title: 1038

source_name: breast cancer, sample ISPY-1038

value: IIIA

value: SET-Low

value: breast cancer tumor


title: 1031

source_name: breast cancer, sample ISPY-1031

value: I

value: P

value: SET-Int


title: 1035

source_name: breast cancer, sample ISPY-1035

value: IIIC

value: Rx Insensitive

value: High


title: 1041

source_name: breast cancer, sample ISPY-1041

value: ISPY

value: N

value: LumB

value: RCB-II/III


title: 1019

source_name: breast cancer, sample ISPY-1019

value: IIIB

value: RD

value: RCB-II

value: Basal

value: pCR


title: 1005

source_name: breast cancer, sample ISPY-1005

value: IIIA

value: Rx Sensitive

value: Low

value: Normal


title: 1002

source_name: breast cancer, sample ISPY-1002

value: P

value: IIB

value: RCB-III

value: SET-High

value: LumA

value: breast cancer tumor


title: 1016

source_name: breast cancer, sample ISPY-1016

value: ISPY

value: N

value: SET-Low

value: Rx Insensitive

value: High


title: 1034

source_name: breast cancer, sample ISPY-1034

value: IIIC

value: RD

value: Basal

value: RCB-II/III


title: 1045

source_name: breast cancer, sample ISPY-1045

value: I

value: IIIA

value: pCR


title: 1037

source_name: breast cancer, sample ISPY-1037

value: RCB-II


title: 1009

source_name: breast cancer, sample ISPY-1009

value: IIB


title: 1011

source_name: breast cancer, sample ISPY-1011


title: 1027

source_name: breast cancer, sample ISPY-1027

value: IIA


title: BRC324

status: Public on Apr 24 2011

city: Taipei

last: Kao

state: Taiwan

address: 125 Lih-Der Road, Peitou District

department: Research

country: Taiwan

institute: Koo Foundation SYS Cancer Center

hyb_protocol: A cocktail was prepared by combining the specific amounts of fragmented cRNA, probe array controls, bovine serum albumin, and herring sperm DNA according to the protocol of the manufacturer. The cRNA cocktail was hybridized to oligonucleotide probes on the U133 Plus 2.0 array for 16 hours at 45˚C according to the Affymetrix protocol. Immediately following hybridization, the hybridized probe array underwent an automated washing and staining in an Affymetrix GeneChip Fluidics Station 450 using the protocol EukGE-WS2v5.

scan_protocol: U133 Plus 2.0 arrays were scanned using an Affymetrix GeneChip Scanner 3000.

data_processing: The expression intensity of each gene was determined by scaling to a trimmed-mean of 500 using the Affymetrix Microarray Analysis Suite (MAS) 5.0 software. The scaled expression intensities of all human genes on a U133 P2.0 array were logarithmically transformed to the base 2, and normalized using quantile normalization.

source_name: primary breast cancer tissue, type VI

label_protocol: Biotin-labeled complementary RNA (cRNA) hybridization targets were prepared from 5 ug total RNA by in vitro transcription from cDNA templates according to the Affymetrix protocol. The cRNA was purified and chemically fragmented before hybridization.

growth_protocol: Not applicable.

extract_protocol: Total RNA was isolated using Trizol reagent (Invitrogen, Carlsbad, CA) and purified with RNeasy Mini Kit (Qiagen, Valencia, CA).

treatment_protocol: Not applicable.

value: primary breast cancer

tag: gender

value: female

tag: age at diagnosis

tag: follow_up_duration (years)

tag: subtype

value: type VI

value: yes

tag: regimen (caf vs cmf)

value: CAF


title: BRC327


title: BRC313

tag: time_to_metastasis (years)

value: others


title: BRC322


title: BRC323

source_name: primary breast cancer tissue, type III

value: type III


title: BRC325


title: BRC320

value: no


title: BRC326


title: BRC315

tag: time_to_relapse (years)


title: BRC318

value: CMF


title: BRC316

source_name: primary breast cancer tissue, type IV

value: type IV


title: BRC317


title: BRC319


title: BRC314


title: BRC312


title: BRC321


title: BRC311

source_name: primary breast cancer tissue, type V

value: type V


title: BRC307


title: BRC310


title: BRC308


title: BRC301

source_name: primary breast cancer tissue, type II

value: type II

tag: neoadjuvant chemotherapy


title: BRC303


title: BRC309

value: unknown


title: BRC305


title: BRC304


title: BRC306


title: BRC299


title: BRC295


title: BRC297


title: BRC302


title: BRC293


title: BRC296


title: BRC286


title: BRC300


title: BRC298


title: BRC292


title: BRC294


title: BRC284


title: BRC291


title: BRC289


title: BRC285


title: BRC282


title: BRC280


title: BRC288


title: BRC278


title: BRC283


title: BRC287


title: BRC276


title: BRC274


title: BRC281


title: BRC290


title: BRC275


title: BRC277


title: BRC273

source_name: primary breast cancer tissue, type I

value: type I


title: BRC279


title: BRC250


title: BRC264


title: BRC271


title: BRC268


title: BRC254


title: BRC269


title: BRC262


title: BRC251


title: BRC253


title: BRC256


title: BRC270


title: BRC255


title: BRC272


title: BRC266


title: BRC265


title: BRC252


title: BRC258


title: BRC257


title: BRC259


title: BRC267


title: BRC261


title: BRC249


title: BRC263


title: BRC246


title: BRC260


title: BRC248


title: BRC244


title: BRC245


title: BRC247


title: BRC243


title: BRC230


title: BRC232


title: BRC222


title: BRC235


title: BRC238


title: BRC240


title: BRC239


title: BRC241


title: BRC234


title: BRC226


title: BRC228


title: BRC218


title: BRC233


title: BRC236


title: BRC220


title: BRC224


title: BRC237


title: BRC225


title: BRC227


title: BRC223


title: BRC216


title: BRC217


title: BRC229


title: BRC213


title: BRC219


title: BRC221


title: BRC215


title: BRC214


title: BRC231


title: BRC200


title: BRC196


title: BRC198


title: BRC199


title: BRC211


title: BRC212


title: BRC204


title: BRC197


title: BRC210


title: BRC202


title: BRC209


title: BRC208


title: BRC201


title: BRC191


title: BRC193


title: BRC192


title: BRC194


title: BRC189


title: BRC190


title: BRC205


title: BRC206


title: BRC188


title: BRC185


title: BRC207


title: BRC186


title: BRC195


title: BRC203


title: BRC184


title: BRC187


title: BRC242


title: BRC181


title: BRC182


title: BRC178


title: BRC171


title: BRC180


title: BRC177


title: BRC175


title: BRC174


title: BRC183


title: BRC173


title: BRC170


title: BRC166


title: BRC172


title: BRC179


title: BRC168


title: BRC162


title: BRC160


title: BRC158


title: BRC167


title: BRC169


title: BRC165


title: BRC161


title: BRC156


title: BRC159


title: BRC164


title: BRC154


title: BRC155


title: BRC157


title: BRC153


title: BRC152


title: BRC150


title: BRC148


title: BRC151


title: BRC146


title: BRC149


title: BRC142


title: BRC163


title: BRC145


title: BRC147


title: BRC140


title: BRC144


title: BRC143


title: BRC141


title: BRC176


title: BRC139


title: BRC137


title: BRC131


title: BRC135


title: BRC129


title: BRC134


title: BRC132


title: BRC130


title: BRC136


title: BRC128


title: BRC124


title: BRC133


title: BRC127


title: BRC126


title: BRC138


title: BRC125


title: BRC123


title: BRC122


title: BRC121


title: BRC120


title: BRC118


title: BRC119


title: BRC116


title: BRC115


title: BRC114


title: BRC117


title: BRC110


title: BRC113


title: BRC111


title: BRC112


title: BRC109


title: BRC107


title: BRC108


title: BRC103


title: BRC106


title: BRC105


title: BRC101


title: BRC102


title: BRC095


title: BRC097


title: BRC093


title: BRC104


title: BRC094


title: BRC089


title: BRC098


title: BRC092


title: BRC087


title: BRC096


title: BRC100


title: BRC088


title: BRC090


title: BRC085


title: BRC086


title: BRC091


title: BRC083


title: BRC084


title: BRC080


title: BRC079


title: BRC081


title: BRC078


title: BRC076


title: BRC077


title: BRC082


title: BRC075


title: BRC073


title: BRC072


title: BRC074


title: BRC069


title: BRC070


title: BRC068


title: BRC066


title: BRC067


title: BRC063


title: BRC071


title: BRC065


title: BRC058


title: BRC061


title: BRC049


title: BRC064


title: BRC059


title: BRC057


title: BRC062


title: BRC056


title: BRC060


title: BRC050


title: BRC045


title: BRC051


title: BRC055


title: BRC054


title: BRC052


title: BRC047


title: BRC053


title: BRC048


title: BRC042


title: BRC040


title: BRC044


title: BRC043


title: BRC041


title: BRC046


title: BRC038


title: BRC027


title: BRC039


title: BRC037


title: BRC099


title: BRC030


title: BRC033


title: BRC031


title: BRC020


title: BRC026


title: BRC035


title: BRC029


title: BRC018


title: BRC022


title: BRC032


title: BRC017


title: BRC028


title: BRC025


title: BRC021


title: BRC023


title: BRC024


title: BRC036


title: BRC034


title: BRC019


title: BRC016


title: BRC014


title: BRC012


title: BRC008


title: BRC011


title: BRC010


title: BRC015


title: BRC013


title: BRC006


title: BRC004


title: BRC002


title: BRC007


title: L444938 weak

status: Public on Mar 18 2011

city: Chapel Hill

first: Charles

middle: M.

last: Perou

state: NC

address: 12-044 Lineberger Comprehensive Cancer Center CB# 7295

department: Professor of Genetics, and Pathology & Laboratory Medicine; Lineberger Comprehensive Cancer Center

institute: University of North Carolina at Chapel Hill

description: L444938 weak

hyb_protocol: described in Hu et al., 2005, BioTechniques, 38:121-124

scan_protocol: Fluorescent array images were collected for both Cy3 and Cy5 with a GenePix 4000B fluorescent scanner and image intensity data were extracted and analyzed with GenePix Pro 5.1 analysis software.

data_processing: Data for both channels were Lowess-normalized and then log(2) ratio was taken

source_name: Human Reference B

extract_protocol: Total RNA isolated by stratagene

tag: reference

value: Stratagene Human Universal Reference that contained 1/10 added MCF7 and ME16C RNAs

extract_protocol: Qiagen Rneasy Kit

tag: slidename

tag: sample

tag: study

value: Xena

tag: intrinsic subtypes by pam50

value: LumA

tag: p53 status by amplichip

tag: p53 measured by ihc

value: UNDETERMINED

tag: tumor size (cm)

tag: er (0 = negative; 1 = positive)

tag: pgr (0 = negative; 1 = positive)

tag: her2 (0 = negative; 1 = positive)

tag: response

value: docetaxel-Capecitabine


title: BRC005

tag: tissue

value: primary breast cancer

tag: gender

value: female

tag: age at diagnosis

tag: follow_up_duration (years)

tag: subtype


title: L737586

label_protocol: described in Hu et al., 2005, BioTechniques, 38:121-124

tag: reference

value: WILDTYPE

value: NEGATIVE

tag: grade

value: PARTIAL RESPONSE

tag: neoadjuvant chemotherapy


title: L737587

tag: slidename

tag: sample

tag: study

value: MUTANT

value: NEAR COMPLETE RESPONSE

value: (docetaxel-Capecitabine)+ Trastuzumab


title: BRC009

value: type III

value: yes

tag: regimen (caf vs cmf)

value: others


title: BRC001

value: type IV


title: BRC003

value: type VI

value: CAF


title: N852648

value: Stratagene Human Universal Reference that contained 1/10 added MCF7 and ME16C RNAs

value: Xena

tag: intrinsic subtypes by pam50

value: Basal

tag: p53 status by amplichip

tag: p53 measured by ihc

tag: tumor size (cm)


title: I831437

value: LumB

value: POSITIVE

tag: er (0 = negative; 1 = positive)

tag: pgr (0 = negative; 1 = positive)

tag: her2 (0 = negative; 1 = positive)

tag: response


title: I130529

value: LumA

value: UNDETERMINED

value: docetaxel-Capecitabine


title: G963156

value: Normal

value: MUTANT

value: PARTIAL RESPONSE


title: H718159

value: WILDTYPE


title: I612038

value: NEGATIVE

value: (docetaxel-Capecitabine)+ Trastuzumab


title: I130528


title: I824998


title: I695766


title: I383207

value: COMPLETE RESPONSE


title: K121818


title: K282378


title: L737588


title: J460617


title: K826616


title: N302589


title: N843157


title: P332305


title: K826617


title: M200498


title: N843158


title: J470138


title: N844748


title: I258318


title: N302595


title: M906756-weak


title: M200489


title: H957386


title: M308596


title: P553318


title: N178818


title: P553317


title: N399199


title: K282376


title: L831388


title: M200496


title: J168937


title: L525226


title: K900448


title: H516397


title: O393719


title: H349186


title: N435237

value: NO RESPONSE


title: L799207 weak

description: L799207 weak


title: M228987


title: M308595


title: H516396

value: NEAR COMPLETE RESPONSE


title: O219017 weak

description: O219017 weak

value: Stratagene Human Universal Reference that contained 1/10 added MCF7 and ME16C RNAs


title: K900446

value: Xena


title: L831387


title: N820416

value: Basal


title: K320417


title: G1604


title: J168938


title: H629717


title: N123517


title: I258319

value: LumB


title: H516949

value: POSITIVE


title: L768267


title: H957549


title: H672896


title: L444939


title: O219016


title: J168308


title: J560829


title: L432757

value: LumA


title: L775237


title: K280817

value: UNDETERMINED


title: I824997

value: docetaxel-Capecitabine


title: L831386


title: J472758


title: I258325


title: M256106


title: K205585


title: J915509

value: Normal


title: J168899


title: L432758


title: H718165


title: J762328


title: I130607


title: N820418

value: MUTANT


title: I962245


title: K282379


title: J472756


title: N852649


title: L768268


title: I962249


title: J472757


title: H516956


title: M256098


title: L525227


title: I130598

value: PARTIAL RESPONSE


title: M256097

value: WILDTYPE


title: N178817


title: M308598


title: M692279


title: N995039


title: H629718

value: NEGATIVE


title: N399197

value: (docetaxel-Capecitabine)+ Trastuzumab


title: O219015

value: COMPLETE RESPONSE


title: H672898


title: H021108


title: K282377


title: I962239


title: I612036


title: I383208


title: I130568


title: H957387


title: I962247


title: I962246


title: I491938


title: I491937


title: G719749


title: L027366


title: J018787


title: M228988


title: H957556


title: J168936


title: I383209


title: G719755


title: K205578


title: H021105


title: I130567


title: J547636

value: NO RESPONSE


title: I633488


title: H516398


title: L444946


title: K280818


title: H021107


title: I825007


title: G963149


title: H672906

value: NEAR COMPLETE RESPONSE


title: L432759

value: Stratagene Human Universal Reference that contained 1/10 added MCF7 and ME16C RNAs


title: J762326

value: Xena


title: J460619


title: K826609

value: Basal


title: M228995


title: K440086


title: J560837

value: LumB


title: H629719


title: I825006

value: POSITIVE


title: M228989

value: LumA


title: H957385


title: K892968


title: J018788


title: I491936


title: J560835


title: K282369


title: J018786


title: breast cancer US168

status: Public on Feb 07 2011

city: Houston

first: TAKAYUKI

last: IWAMOTO

state: TX

address: 1515 Holcombe Blvd

department: Breast medical Oncology

institute: UT MD Anderson

description: Gene expression data from breast cancer FNA biopsy, pre-treatment

hyb_protocol: Following fragmentation, 20 ug of cRNA were hybridized to affymetrix U133A arrays overnight at 42C. Microarrays were washed and stained in Microarray Suite 5.0.

scan_protocol: GeneChips were scanned using the Affymetrix GeneChip Scanner 3000DX. This system is manufactured by Affymetrix Inc in Santa Clara, CA.

data_processing: The data were normalized using dChip version 1.3 followed by logrithm-base-2 sc600 transformation. The dChip version 1.3 was used to calculate Model Based Expression Index (MBEI) values of the arrays using the digital standard microarray MDA-BCNorm.CEL and the probe sensitivity index file UTMDACC-BreastCancerNormalizer.psi as described in Hess, et. al, Pharmacogenomic Predictor of Sensitivity to Preoperative Chemotherapy With Paclitaxel and 5-Fluorouracil, Doxorubicin, and Cyclophosphamide in Breast Cancer, Journal of Clinical Oncology, 24 (26), 2006.

source_name: breast cancer FNA biopsy, pre-treatment

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from at least 1 ug total RNA using the BioArray High Yield RNA transcript labeling kit (Enzo Laboratories).

extract_protocol: total RNA was extracted from the FNA specimens using Qiagen RNeasy kit following the manufacturer’s instructions (http://www.qiagen.com).

treatment_protocol: Patients received neoadjuvant chemotherapy regimen with 4courses of 5-fluorouracil, doxorubicin and cyclophosphamide follwed by 4 additional courses of weekly docetaxel and capecitabine

value: RD

value: Pass

tag: er positive vs negative

value: ERpos

tag: age

tag: prechemo tumor size

tag: prechemo t stage

tag: prechemo nodal status


title: breast cancer US158

tag: grade


title: breast cancer US165


title: breast cancer US166

value: ERneg


title: breast cancer US143


title: breast cancer US154

value: pCR


title: breast cancer US132


title: breast cancer US135


title: breast cancer US144


title: breast cancer US122


title: M255438

tag: reference

tag: slidename

tag: sample

value: WILDTYPE

value: PARTIAL RESPONSE

tag: neoadjuvant chemotherapy

value: docetaxel-Capecitabine


title: H349179

tag: study

tag: intrinsic subtypes by pam50

value: Normal

tag: p53 status by amplichip

value: NEGATIVE


title: breast cancer US141


title: breast cancer US131


title: breast cancer US112


title: breast cancer US111


title: breast cancer US186


title: breast cancer US160


title: breast cancer US108


title: breast cancer US118


title: breast cancer US117


title: breast cancer US151


title: breast cancer US100


title: breast cancer US128


title: breast cancer US116


title: breast cancer US104


title: breast cancer US096


title: breast cancer US099


title: breast cancer US110


title: breast cancer US107


title: breast cancer US087


title: breast cancer US090


title: breast cancer US088


title: breast cancer US080


title: breast cancer US074


title: breast cancer US084


title: breast cancer US082


title: breast cancer US072


title: breast cancer US049


title: breast cancer US051


title: breast cancer US055


title: breast cancer US071


title: breast cancer US047


title: breast cancer US037


title: breast cancer US032


title: breast cancer US026


title: breast cancer US023


title: breast cancer US038


title: breast cancer US033


title: breast cancer US067


title: breast cancer US024


title: breast cancer US057


title: breast cancer US054


title: breast cancer US034


title: breast cancer US019


title: breast cancer US022


title: breast cancer US001


title: breast cancer US005


title: breast cancer US097-r1


title: breast cancer US014


title: breast cancer PERU22

status: Public on Dec 31 2010

description:
Gene expression data from breast cancer FNA biopsy, pre-treatment
Characteristics legend:
pCR: pathologic complete response was defined as no residual invasive cancer in the breast and lymph nodes after preoperative chemotherapy.
RD: residual disease was defined as any degree of invasive cancer that survived preoperative chemotherapy.
Prechemo T and Prechemo N: were modified by TNM staging system in the American Joint Committee on Cancer
Prechemo Tumor size: Clinical tumor size
BMN.grade: were modified by Black's Nuclear Grade

hyb_protocol: Following fragmentation, 20 ug of cRNA were hybridized to affymetrix U133A arrays overnight at 42C. Microarrays were washed and stained in the Affymetrix Fluidics Station.

treatment_protocol: Patients received neoadjuvant chemotherapy regimen with 5-Fluorouracil, Doxorubicin (Epirubicin) and Cyclophosphamide

tag: tissue

value: breast cancer FNA biopsy

tag: p53 status

value: MUT

tag: er positive vs negative by esr1 mrna gene expression (probe 205225_at)

tag: er positive vs negative by immunohistochemistry

tag: prechemo t

tag: prechemo n


title: breast cancer US011

tag: er positive vs negative

tag: age

tag: prechemo tumor size


title: breast cancer PERU25


title: breast cancer PERU44


title: breast cancer PERU41

value: WT


title: breast cancer PERU36


title: breast cancer PERU53


title: breast cancer PERU27


title: breast cancer PERU21


title: breast cancer X702


title: breast cancer X703


title: breast cancer PERU49


title: breast cancer X694


title: breast cancer MEXICO2


title: breast cancer MEXICO18


title: breast cancer PERU38


title: breast cancer X631


title: breast cancer X604


title: breast cancer X644


title: breast cancer X680


title: breast cancer MEXICO15


title: breast cancer X571


title: breast cancer X570


title: breast cancer X572


title: breast cancer US103

tag: grade

tag: prechemo t stage

tag: prechemo nodal status


title: breast cancer X473


title: breast cancer X400


title: breast cancer X458


title: breast cancer X414


title: breast cancer X521


title: breast cancer X466


title: breast cancer X380


title: breast cancer X536


title: breast cancer X369


title: breast cancer X112


title: breast cancer X338


title: breast cancer X349


title: breast cancer X323


title: breast cancer X318


title: breast cancer X142


title: breast cancer X208


title: breast cancer X313


title: breast cancer X461


title: breast cancer X248


title: breast cancer FA50


title: breast cancer X312


title: breast cancer X207


title: breast cancer FA47


title: breast cancer FA49


title: breast cancer X172


title: breast cancer X314


title: breast cancer FA45


title: breast cancer X378


title: breast cancer FA44


title: breast cancer FA43


title: breast cancer US089


title: breast cancer FA42


title: breast cancer FA40


title: breast cancer FA37


title: breast cancer FA35


title: breast cancer FA41


title: breast cancer FA25


title: breast cancer FA28


title: breast cancer FA19


title: breast cancer FA29


title: breast cancer FA38


title: breast cancer FA31


title: breast cancer FA18


title: breast cancer FA21


title: breast cancer FA24


title: breast cancer FA32


title: breast cancer FA23


title: breast cancer FA36


title: breast cancer FA17


title: breast cancer FA13


title: breast cancer FA07


title: breast cancer FA14


title: breast cancer FA33


title: breast cancer FA16


title: breast cancer FA03


title: breast cancer FA15


title: breast cancer FA04


title: breast cancer FA11


title: breast cancer FA06


title: breast cancer FA01


title: breast cancer 690

status: Public on Sep 15 2010

first: Yuan

last: Qi

address: 1400 Pressler St

department: Bioinformatics & Computational Biology

institute: University of Texas M.D. Anderson Cancer Center

data_processing: The data were normalized using dChip version 1.3 followed by logrithm-base-10 transformation. The dChip version 1.3 was used to calculate Model Based Expression Index (MBEI) values of the arrays using the digital standard microarray MDA-BCNorm.CEL and the probe sensitivity index file UTMDACC-BreastCancerNormalizer.psi as described in Hess, et. al, Pharmacogenomic Predictor of Sensitivity to Preoperative Chemotherapy With Paclitaxel and 5-Fluorouracil, Doxorubicin, and Cyclophosphamide in Breast Cancer, Journal of Clinical Oncology, 24 (26), 2006.

tag: pcr or rd

tag: array qc

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: race

value: W

tag: histology

value: IDC

tag: bmn grade

tag: er% positive

tag: er status

value: P

tag: pr% positive

tag: pr status

tag: her 2 status

value: N

tag: her 2 ihc

tag: her 2 fish

tag: preoperative treatment

value: Taxol x 12 FEC x4

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: SM/LNB

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer LBJ082

tag: pcr or rd

tag: array qc

value: Pass

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

value: B

tag: prechemo t

tag: prechemo n

value: Taxol  x  12  FAC x  4


title: breast cancer LBJ054

value: RD

value: H

tag: histology

tag: bmn grade

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: Taxol x 12 FAC x 4

value: SM/ALND


title: breast cancer 319

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 718

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 12 FEC x 4


title: breast cancer 502

tag: pcr or rd

tag: array qc

value: IDC/ILC

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FEC x 3 (N.C) Taxol x 12

value: TM/ALND


title: breast cancer 746

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: ILC

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 710

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

value: W

tag: histology

value: ILC/IDC

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer 447

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: IDC

tag: er% positive

tag: er status

value: P

tag: pr% positive

tag: pr status

value: N

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: SM


title: breast cancer 685

tag: pcr or rd

tag: array qc

value: Pass

tag: preoperative treatment

value: Taxol x 12  FEC x4

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 340

value: RD

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC x 6 Taxol x 12


title: breast cancer 545

tag: pcr or rd

tag: array qc

value: B

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: Taxol x 12 FAC x 4


title: breast cancer 753

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: TM/LNB

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 321

tag: pcr or rd

value: pCR

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 12 FEC x 4


title: breast cancer 657

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: H

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: SM/LNB


title: breast cancer 513

tag: pcr or rd

tag: array qc

tag: preoperative treatment

value: FAC x 4(d/t N.C) Taxol x 6 (d/t severe Fatigue) (FAC resistance & pCR at the end)

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: SM/ALND

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU76

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

value: IDC

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 12 FAC x  4


title: breast cancer 382

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

value: N

tag: pr% positive

tag: pr status

tag: her 2 status

value: P

tag: her 2 ihc

tag: her 2 fish


title: breast cancer LBJ070

value: Pass

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

value: Taxol   x  12  FAC  x  4

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 625

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

value: W

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer SPAIN6

value: RD

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: Infiltrating Ductal Carcinoma

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: ND

value: Paclitaxel x(12 )  + FEC x(4 )

value: Quadrantectomy


title: breast cancer SPAIN51

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer SPAIN3

value: pCR

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer SPAIN41

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: Paclitaxel x( 12)  + FEC x(4 )

value: Quadrantectomy both breasts


title: breast cancer PERU14-16

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: H

tag: preoperative treatment

value: Taxol x 12 FAC x 4  (Progressed on Neoadjuvant Chemotherapy. Moved on to XRT. No surgery)

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: ND for PD and reccurrence

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU29

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

value: IDC

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 12 FAC x 4

value: ND for PD and brain mets


title: breast cancer PERU31

value: Pass

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

value: N

tag: pr% positive

tag: pr status

tag: her 2 status

value: P

tag: her 2 ihc

tag: her 2 fish

value: Taxol x 8  (D/T progression)


title: breast cancer SPAIN12

tag: pcr or rd

value: RD

tag: array qc

value: W

value: Inflitrating Lobular Carcinoma

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer SPAIN55

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

value: Infiltrating Ductal Carcinoma

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: ND

value: Paclitaxel x(12 )  + FEC x(4 )

value: Quadrantectomy


title: breast cancer PERU60

tag: pcr or rd

tag: array qc

value: H

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: Taxol x 5   (Off protocol D/T progression)

value: ND for PD


title: breast cancer LBJ046

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: IDC/IBC

tag: preoperative treatment

value: Taxol  x 12   FAC x  3 (D/T P.D)

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer MEXICO7

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

value: IDC

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 12    FEC x 4


title: breast cancer PERU56

value: Pass

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

value: N

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: Taxol x 12 FAC x 4


title: breast cancer MEXICO17

tag: pcr or rd

value: pCR

tag: array qc

tag: preoperative treatment

value: Taxol x 12 FEC x 4

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer MEXICO11

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

value: ILC

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: P

value: Taxol x 12   FEC x 4


title: breast cancer MEXICO6

tag: pcr or rd

value: RD

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer MEXICO14

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

value: Taxol x12   FEC x 4

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU48

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

value: H

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: MRM/ALND


title: breast cancer MEXICO5

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer PERU54

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU40

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: residual cancer


title: breast cancer MEXICO1

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer LBJ047

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

value: Taxol  x 12  FAC   x 4

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: MRM/LNB

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU26

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

value: IDC

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer PERU42

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer PERU28

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU23

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer PERU74

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer PERU37

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: MRM

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer MEXICO3

tag: pcr or rd

tag: array qc

value: Pass

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 12    FEC x 4


title: breast cancer 588

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: B

tag: er% positive

tag: er status

value: N

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: Taxol x 8 (d/t P.D) FEC x 6 (P.D) XRT+ Xeloda


title: breast cancer MEXICO16

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU66

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 12 FAC x 4


title: breast cancer 384

tag: pcr or rd

tag: array qc

value: ILC

tag: er% positive

tag: er status

value: P

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: Taxol x 12 FEC x 4


title: breast cancer PERU52

value: pCR

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU17-19

tag: pcr or rd

value: RD

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

value: H

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer 107

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer PERU12-14

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 647

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

value: W

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer 374

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: Adriamycin x 6 Cyclophosphamide x 6 Taxol x 12


title: breast cancer 365

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 315

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

value: IDC/ILC

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 7 (d/t N.C) FAC x 4    (Multifocal,  Declined hormonal therapy and XRT)


title: breast cancer 399

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: IDC

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: MRM


title: breast cancer 673

tag: pcr or rd

tag: array qc

value: Pass

tag: preoperative treatment

value: Taxol x 11 ( one dose missed & no repleced) FEC x 4

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: MRM/ALND

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 343

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

value: A

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: N


title: breast cancer 385

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FEC x 3 ( d/t N.C)Taxol x 12


title: breast cancer PERU07

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: P

tag: preoperative treatment

value: Taxol x 12 FAC x 4

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 423

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

value: B

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 12 FEC x 4


title: breast cancer PERU09

value: RD

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: H

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer PERU01

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 565

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

value: W

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 12 FAC x 6


title: breast cancer 323

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FAC x 3 (d/t P.D) Taxol x 12


title: breast cancer 332

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: IDC

tag: preoperative treatment

value: Taxol x 6 (d/t P.D)   FAC x 4

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 443

tag: pcr or rd

value: pCR

tag: array qc

value: Pass

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: MRM


title: breast cancer SPAIN16

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: Infiltrating Ductal Carcinoma

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: ND

value: Paclitaxel x(12 )  + FEC x( 0)

value: Mastectomy


title: breast cancer SPAIN14

tag: pcr or rd

tag: array qc

value: P

value: N

tag: preoperative treatment

value: Paclitaxel x(12)  + FEC x(3 )

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 485

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 11( Pt missed the first D/T shingles),  FAC x 4


title: breast cancer SPAIN60

tag: pcr or rd

value: RD

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: Paclitaxel x(12 )  + FEC x(4 )


title: breast cancer SPAIN13

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: W

value: Inflitrating Lobular Carcinoma

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 331

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

value: H

tag: histology

value: IDC

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Taxol x 12 FAC x 4


title: breast cancer SPAIN48

value: pCR

value: Pass

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer SPAIN27

tag: pcr or rd

tag: array qc

value: Infiltrating Ductal Carcinoma

tag: preoperative treatment

value: Paclitaxel x(12 )  + FEC x( 4)

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer SPAIN45

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: ND

value: Paclitaxel x(12 )  + FEC x(3 )


title: breast cancer 755

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

value: P

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FEC x  4 (original planned was 6 cycles disc. due to anorexia)

value: TM/LNB


title: breast cancer SPAIN18

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: Lumpectomy

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer SPAIN4

tag: pcr or rd

value: RD

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: N

value: Mastectomy


title: breast cancer 703

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: B

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FAC x 6


title: breast cancer SPAIN25

tag: pcr or rd

tag: array qc

value: W

value: Mixed; Ductal and Lobular

tag: preoperative treatment

value: Paclitaxel x(12 )  + FEC x(4 )

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer SPAIN53

value: Pass

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer SPAIN46

tag: pcr or rd

tag: array qc

value: Infiltrating Ductal Carcinoma

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer SPAIN47

value: pCR

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: Only Infiltrating

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 536

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

value: IDC

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: TM/ALND


title: breast cancer 705

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer SPAIN7

tag: pcr or rd

tag: array qc

value: H

value: P

value: ND

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer SPAIN57

value: RD

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: Lumpectomy


title: breast cancer 369

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

value: N

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FEC x 6


title: breast cancer 680

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

value: FAC x 6

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 461

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer 570

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: B

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: SM/ALND


title: breast cancer 521

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: SM/LNB

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 694

value: Pass

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

value: W

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer PERU77

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FAC x 6  (Taxol x 6 post Sx - still under adj chemo)


title: breast cancer 414

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 632

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer 604

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FAC x 5


title: breast cancer 622

tag: pcr or rd

value: pCR

tag: array qc

value: IDC

tag: preoperative treatment

value: FAC x 4 (stopped after 4 of 6 planned cycles d/t nausea fatigue fever)

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 702

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: P

value: FEC x 5


title: breast cancer 629

tag: pcr or rd

value: RD

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer SPAIN38

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: Infiltrating Ductal Carcinoma

value: ND

tag: preoperative treatment

value: FEC x(6 )

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: Quadrantectomy

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer SPAIN40

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer 349

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

value: N

tag: her 2 ihc

tag: her 2 fish

value: FAC x 6 (neo-adj); Taxol x 12 (adj); Tamoxifen


title: breast cancer 633

tag: pcr or rd

tag: array qc

value: B

tag: preoperative treatment

value: FAC x 6

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: SM/ALND

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 444

value: Pass

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

value: W

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC x 6 (neo-adj)


title: breast cancer PERU43

tag: pcr or rd

tag: array qc

value: H

value: IDC

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FAC x 3 (D/T PD) Taxol x 4


title: breast cancer SPAIN34

value: pCR

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

value: FEC x(6)

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer SPAIN39

tag: pcr or rd

value: RD

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

value: Infiltrating Ductal Carcinoma

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: P

value: FEC x( 6)


title: breast cancer SPAIN5

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

value: N

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: ND

value: Quadrantectomy


title: breast cancer SPAIN59

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU15-17

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC  x 6

value: ND for liver mets


title: breast cancer PERU49

tag: pcr or rd

tag: array qc

value: Pass

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FAC x 4 (D/T P.D.)


title: breast cancer SPAIN1

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: W

tag: preoperative treatment

value: FEC x(6 )

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU22

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

value: H

tag: histology

value: IDC

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC x 5(d/t P.D)


title: breast cancer SPAIN9

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer LBJ043

tag: pcr or rd

tag: array qc

value: B

value: IDC/IBC

tag: preoperative treatment

value: FAC x 4  (d/t P.D) Taxotere x 2 (d/t severe Dehydration) Xeloda x 2(d/t P.D) XRT+ Xeloda Taxol x 2

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU75

value: RD

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: P

value: FAC x 6


title: breast cancer PERU05

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

value: N

tag: her 2 ihc

tag: her 2 fish

value: FAC x 6  (Taxol x 12 post Sx)

value: MRM/ALND

value: residual cancer


title: breast cancer PERU61

value: Pass

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU02

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC x 6   (Taxol x 12 post Sx)


title: breast cancer MEXICO2

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FEC x 6


title: breast cancer PERU69

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU57

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC x 6  (Taxol post Sx)


title: breast cancer PERU72

tag: pcr or rd

tag: array qc

value: H

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer MEXICO12

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: IDC

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU55

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer MEXICO10

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer MEXICO18

tag: pcr or rd

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU21

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC  x 6  (Taxol x 12 post Sx)

value: MRM/LNB


title: breast cancer PERU27

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FAC  x 6


title: breast cancer PERU73

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU51

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer PERU08

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FAC x 6   (Taxol x 10 post Sx)


title: breast cancer 572

tag: pcr or rd

value: RD

tag: array qc

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU53

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer PERU45

tag: pcr or rd

tag: array qc

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer 631

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

value: W

value: P

tag: preoperative treatment

value: FAC x 6 (Last Cycle only AC  no 5-FU)

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 595

tag: pcr or rd

tag: array qc

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: N


title: breast cancer PERU38

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FAC x 6  (Taxol x 12 post Sx)

value: MRM/ALND


title: breast cancer PERU41

tag: pcr or rd

value: pCR

tag: array qc

value: Pass

tag: preoperative treatment

value: FAC x 6

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer MEXICO15

tag: dlda30 score

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FEC x 6


title: breast cancer 539

tag: pcr or rd

tag: array qc

value: IDC/ILC

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc


title: breast cancer PERU36

tag: dlda30 score

value: H

value: IDC

tag: her 2 fish

tag: preoperative treatment

value: FAC x 6  (Taxol post Sx)

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU44

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC x 6  (Taxol x 11 post Sx)


title: breast cancer PERU50

tag: array qc

tag: dlda30 score

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer LBJ016

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

value: Taxol  x  6  FAC x  6

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 439

value: RD

tag: array qc

tag: dlda30 score

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: MRM


title: breast cancer 378

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

value: W

tag: er% positive

tag: er status

value: P

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer 338

tag: array qc

tag: dlda30 score

value: N

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 380

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer 725

tag: array qc

tag: dlda30 score

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FEC x 6 (P.D “new supra & infraclavicular Ln”)Taxol x 12


title: breast cancer 400

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 713

tag: array qc

tag: dlda30 score

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer PERU13-15

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FAC  x 6

value: residual cancer


title: breast cancer LBJ038

value: pCR

tag: array qc

value: Pass

tag: dlda30 score

tag: preoperative treatment

value: FAC x 6 Taxol x 4

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

value: MRM/ALND

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer 466

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC x 6


title: breast cancer SPAIN44

tag: array qc

tag: dlda30 score

value: Infiltrating Ductal Carcinoma

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: ND

value: FEC x(6 )

value: Mastectomy


title: breast cancer SPAIN31

tag: pcr or rd

value: RD

tag: dlda30 pred (1=pcr, 0=rd)

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU16-18

tag: array qc

tag: dlda30 score

tag: biopsy date mmddyy

tag: age

tag: race

value: H

tag: histology

value: IDC

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC  x 6  (Taxol x 12 post Sx)

value: MRM


title: breast cancer SPAIN21

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

value: W

value: Infiltrating Lobular Carcinoma

tag: er% positive

tag: er status

value: N

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer SPAIN50

tag: array qc

tag: dlda30 score

value: P

value: positive

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer PERU25

tag: pcr or rd

value: Pass

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: FAC  x 6

value: residual cancer


title: breast cancer SPAIN58

tag: array qc

tag: dlda30 score

value: Infiltrating Ductal Carcinoma

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: Lumpectomy


title: breast cancer SPAIN11

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

value: ND

tag: preoperative treatment

value: FEC x(6 )

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer SPAIN28

value: pCR

tag: array qc

tag: dlda30 score

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

tag: prechemo t

tag: prechemo n

tag: bmn grade


title: breast cancer SPAIN42

tag: pcr or rd

value: RD

tag: dlda30 pred (1=pcr, 0=rd)

value: Mixed; Ductal and Lobular

tag: er% positive

tag: er status

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish

value: FEC x( 6)

value: Mastectomy

value: Not medible


title: breast cancer SPAIN30

tag: array qc

tag: dlda30 score

value: W

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: breast cancer SPAIN32

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

tag: biopsy date mmddyy

tag: age

tag: race

tag: histology

value: infiltrating Mucosecretor Carcinoma

tag: prechemo t

tag: prechemo n

tag: bmn grade

value: N

value: FEC x(5 ) due to NC +Paclitaxel x (7)


title: breast cancer SPAIN49

tag: array qc

value: Pass

tag: dlda30 score

value: H

tag: er% positive

tag: er status

value: P

tag: pr% positive

tag: pr status

tag: her 2 status

tag: her 2 ihc

tag: her 2 fish


title: breast cancer SPAIN36

tag: pcr or rd

tag: dlda30 pred (1=pcr, 0=rd)

value: infiltrating Ductal Carcinoma

tag: preoperative treatment

tag: treatment received (1=fac, 2=t/fac)

tag: randomized (1=fac, 2=t/fac)

tag: surgery type

tag: surgery date

tag: post chemo size cm

tag: post chemo +ln/total


title: newly diagnosed multiple myeloma 318

status: Public on Jun 27 2010

city: Rotterdam

first: Mark

last: van Duin

address: Wytemaweg 80

country: Netherlands

institute: Erasmus MC

description: Gene expression data from CD138 purified myeloma plasma cells at diagnosis included in HOVON65/GMMG-HD4

hyb_protocol: 15 ug of fragmented and biotin labeled cRNA was hybridized to gene arrays in accordance with Affymetrix protocols.

scan_protocol: GCOS version 1.4

data_processing: Quality controls of the arrays using GeneChip® Operating Software (GCOS version 1.4) included scaling factor (SF) and percentage of genes present (GP). Arrays with SF difference < 3 and GP > 20% were further analyzed. Raw data from selected gene expression arrays (CEL-files) were pre-processed using GCRMA (via Partek(R) Genomic Suite, version 6.4). Quality control for GCRMA normalized arrays included normalized unscaled standard errors (NUSE). Arrays with a NUSE value > 1.05 were excluded from analysis to exclude poor quality arrays.{Silkworth et al, 2008}.

source_name: CD138 purified myeloma plasma cells

label_protocol: Two-Cycle Eukaryotic Target Labeling Assay (Affymetrix) was used to obtain sufficient amounts of cRNA in order to hybridize 15 ug of fragmented and biotin labeled cRNA on gene arrays in accordance with Affymetrix protocols.

extract_protocol: DNA/RNA prep kit (Qiagen, Venlo, The Netherlands)

tag: cell type

value: CD138 purified myeloma plasma cells

tag: cluster

value: HY

tag: iss

value: II


title: newly diagnosed multiple myeloma 320

value: I


title: newly diagnosed multiple myeloma 317

value: CTA


title: newly diagnosed multiple myeloma 316


title: newly diagnosed multiple myeloma 313


title: newly diagnosed multiple myeloma 311

value: III


title: newly diagnosed multiple myeloma 319


title: newly diagnosed multiple myeloma 315


title: newly diagnosed multiple myeloma 309

value: MF


title: newly diagnosed multiple myeloma 312


title: newly diagnosed multiple myeloma 310


title: newly diagnosed multiple myeloma 307


title: newly diagnosed multiple myeloma 314

value: NFkB


title: newly diagnosed multiple myeloma 296


title: newly diagnosed multiple myeloma 289


title: newly diagnosed multiple myeloma 291


title: newly diagnosed multiple myeloma 287

value: Myeloid


title: newly diagnosed multiple myeloma 302


title: newly diagnosed multiple myeloma 299


title: newly diagnosed multiple myeloma 305


title: newly diagnosed multiple myeloma 306


title: newly diagnosed multiple myeloma 304


title: newly diagnosed multiple myeloma 303

value: PR


title: newly diagnosed multiple myeloma 300


title: newly diagnosed multiple myeloma 297


title: newly diagnosed multiple myeloma 293

value: MS


title: newly diagnosed multiple myeloma 284


title: newly diagnosed multiple myeloma 290


title: newly diagnosed multiple myeloma 308


title: newly diagnosed multiple myeloma 288


title: newly diagnosed multiple myeloma 286


title: newly diagnosed multiple myeloma 292


title: newly diagnosed multiple myeloma 295


title: newly diagnosed multiple myeloma 285


title: newly diagnosed multiple myeloma 298


title: newly diagnosed multiple myeloma 282


title: newly diagnosed multiple myeloma 273


title: newly diagnosed multiple myeloma 294


title: newly diagnosed multiple myeloma 283


title: newly diagnosed multiple myeloma 279


title: newly diagnosed multiple myeloma 274


title: newly diagnosed multiple myeloma 276


title: newly diagnosed multiple myeloma 281


title: newly diagnosed multiple myeloma 271


title: newly diagnosed multiple myeloma 272


title: newly diagnosed multiple myeloma 280


title: newly diagnosed multiple myeloma 277


title: newly diagnosed multiple myeloma 268


title: newly diagnosed multiple myeloma 265


title: newly diagnosed multiple myeloma 275


title: newly diagnosed multiple myeloma 270


title: newly diagnosed multiple myeloma 267


title: newly diagnosed multiple myeloma 262


title: newly diagnosed multiple myeloma 266


title: newly diagnosed multiple myeloma 278


title: newly diagnosed multiple myeloma 263


title: newly diagnosed multiple myeloma 261


title: newly diagnosed multiple myeloma 264


title: newly diagnosed multiple myeloma 256


title: newly diagnosed multiple myeloma 259


title: newly diagnosed multiple myeloma 269


title: newly diagnosed multiple myeloma 258


title: newly diagnosed multiple myeloma 260


title: newly diagnosed multiple myeloma 257


title: newly diagnosed multiple myeloma 255


title: newly diagnosed multiple myeloma 254


title: newly diagnosed multiple myeloma 253


title: newly diagnosed multiple myeloma 251


title: newly diagnosed multiple myeloma 252


title: newly diagnosed multiple myeloma 249


title: newly diagnosed multiple myeloma 250


title: newly diagnosed multiple myeloma 243


title: newly diagnosed multiple myeloma 246


title: newly diagnosed multiple myeloma 236


title: newly diagnosed multiple myeloma 247


title: newly diagnosed multiple myeloma 245


title: newly diagnosed multiple myeloma 242


title: newly diagnosed multiple myeloma 230


title: newly diagnosed multiple myeloma 301


title: newly diagnosed multiple myeloma 234


title: newly diagnosed multiple myeloma 244


title: newly diagnosed multiple myeloma 241


title: newly diagnosed multiple myeloma 240


title: newly diagnosed multiple myeloma 233


title: newly diagnosed multiple myeloma 238


title: newly diagnosed multiple myeloma 229


title: newly diagnosed multiple myeloma 237


title: newly diagnosed multiple myeloma 235


title: newly diagnosed multiple myeloma 228


title: newly diagnosed multiple myeloma 239


title: newly diagnosed multiple myeloma 248


title: newly diagnosed multiple myeloma 231


title: newly diagnosed multiple myeloma 232


title: newly diagnosed multiple myeloma 227


title: newly diagnosed multiple myeloma 224


title: newly diagnosed multiple myeloma 223


title: newly diagnosed multiple myeloma 225


title: newly diagnosed multiple myeloma 222


title: newly diagnosed multiple myeloma 226


title: newly diagnosed multiple myeloma 221


title: newly diagnosed multiple myeloma 220


title: newly diagnosed multiple myeloma 216


title: newly diagnosed multiple myeloma 219


title: newly diagnosed multiple myeloma 210


title: newly diagnosed multiple myeloma 218


title: newly diagnosed multiple myeloma 213


title: newly diagnosed multiple myeloma 217


title: newly diagnosed multiple myeloma 214


title: newly diagnosed multiple myeloma 206


title: newly diagnosed multiple myeloma 207


title: newly diagnosed multiple myeloma 204


title: newly diagnosed multiple myeloma 215


title: newly diagnosed multiple myeloma 198


title: newly diagnosed multiple myeloma 212


title: newly diagnosed multiple myeloma 209


title: newly diagnosed multiple myeloma 201


title: newly diagnosed multiple myeloma 200


title: newly diagnosed multiple myeloma 197


title: newly diagnosed multiple myeloma 211


title: newly diagnosed multiple myeloma 202


title: newly diagnosed multiple myeloma 205


title: newly diagnosed multiple myeloma 208


title: newly diagnosed multiple myeloma 193


title: newly diagnosed multiple myeloma 199


title: newly diagnosed multiple myeloma 203


title: newly diagnosed multiple myeloma 189


title: newly diagnosed multiple myeloma 196


title: newly diagnosed multiple myeloma 186


title: newly diagnosed multiple myeloma 194


title: newly diagnosed multiple myeloma 192

value: nd


title: newly diagnosed multiple myeloma 187


title: newly diagnosed multiple myeloma 184


title: newly diagnosed multiple myeloma 190


title: newly diagnosed multiple myeloma 195


title: newly diagnosed multiple myeloma 183


title: newly diagnosed multiple myeloma 177


title: newly diagnosed multiple myeloma 181


title: newly diagnosed multiple myeloma 182


title: newly diagnosed multiple myeloma 174


title: newly diagnosed multiple myeloma 185


title: newly diagnosed multiple myeloma 176


title: newly diagnosed multiple myeloma 179


title: newly diagnosed multiple myeloma 191


title: newly diagnosed multiple myeloma 188


title: newly diagnosed multiple myeloma 173


title: newly diagnosed multiple myeloma 165


title: newly diagnosed multiple myeloma 164


title: newly diagnosed multiple myeloma 166


title: newly diagnosed multiple myeloma 172


title: newly diagnosed multiple myeloma 175


title: newly diagnosed multiple myeloma 169


title: newly diagnosed multiple myeloma 171


title: newly diagnosed multiple myeloma 170


title: newly diagnosed multiple myeloma 159


title: newly diagnosed multiple myeloma 161


title: newly diagnosed multiple myeloma 156


title: newly diagnosed multiple myeloma 180


title: newly diagnosed multiple myeloma 168


title: newly diagnosed multiple myeloma 178


title: newly diagnosed multiple myeloma 154


title: newly diagnosed multiple myeloma 160


title: newly diagnosed multiple myeloma 167


title: newly diagnosed multiple myeloma 163


title: newly diagnosed multiple myeloma 162


title: newly diagnosed multiple myeloma 157


title: newly diagnosed multiple myeloma 143


title: newly diagnosed multiple myeloma 155


title: newly diagnosed multiple myeloma 146


title: newly diagnosed multiple myeloma 144


title: newly diagnosed multiple myeloma 150


title: newly diagnosed multiple myeloma 145


title: newly diagnosed multiple myeloma 142


title: newly diagnosed multiple myeloma 152


title: newly diagnosed multiple myeloma 136


title: newly diagnosed multiple myeloma 147


title: newly diagnosed multiple myeloma 137


title: newly diagnosed multiple myeloma 132


title: newly diagnosed multiple myeloma 133


title: newly diagnosed multiple myeloma 134


title: newly diagnosed multiple myeloma 158


title: newly diagnosed multiple myeloma 130


title: newly diagnosed multiple myeloma 140


title: newly diagnosed multiple myeloma 139


title: newly diagnosed multiple myeloma 135


title: newly diagnosed multiple myeloma 138


title: newly diagnosed multiple myeloma 153


title: newly diagnosed multiple myeloma 141


title: newly diagnosed multiple myeloma 148


title: newly diagnosed multiple myeloma 131


title: newly diagnosed multiple myeloma 151


title: newly diagnosed multiple myeloma 129


title: newly diagnosed multiple myeloma 119


title: newly diagnosed multiple myeloma 122


title: newly diagnosed multiple myeloma 128


title: newly diagnosed multiple myeloma 121


title: newly diagnosed multiple myeloma 118


title: newly diagnosed multiple myeloma 124


title: newly diagnosed multiple myeloma 125


title: newly diagnosed multiple myeloma 113


title: newly diagnosed multiple myeloma 107


title: newly diagnosed multiple myeloma 116


title: newly diagnosed multiple myeloma 101


title: newly diagnosed multiple myeloma 115


title: newly diagnosed multiple myeloma 104


title: newly diagnosed multiple myeloma 126


title: newly diagnosed multiple myeloma 117


title: newly diagnosed multiple myeloma 112


title: newly diagnosed multiple myeloma 110


title: newly diagnosed multiple myeloma 106


title: newly diagnosed multiple myeloma 123


title: newly diagnosed multiple myeloma 103


title: newly diagnosed multiple myeloma 109


title: newly diagnosed multiple myeloma 100


title: newly diagnosed multiple myeloma 108


title: newly diagnosed multiple myeloma 111


title: newly diagnosed multiple myeloma 105


title: newly diagnosed multiple myeloma 102


title: newly diagnosed multiple myeloma 120


title: newly diagnosed multiple myeloma 114


title: newly diagnosed multiple myeloma 93


title: newly diagnosed multiple myeloma 99


title: newly diagnosed multiple myeloma 98


title: newly diagnosed multiple myeloma 94


title: newly diagnosed multiple myeloma 92


title: newly diagnosed multiple myeloma 96


title: newly diagnosed multiple myeloma 86


title: newly diagnosed multiple myeloma 76


title: newly diagnosed multiple myeloma 127


title: newly diagnosed multiple myeloma 78


title: newly diagnosed multiple myeloma 73


title: newly diagnosed multiple myeloma 95


title: newly diagnosed multiple myeloma 72


title: newly diagnosed multiple myeloma 79


title: newly diagnosed multiple myeloma 89


title: newly diagnosed multiple myeloma 90


title: newly diagnosed multiple myeloma 84


title: newly diagnosed multiple myeloma 97


title: newly diagnosed multiple myeloma 85


title: newly diagnosed multiple myeloma 77


title: newly diagnosed multiple myeloma 80


title: newly diagnosed multiple myeloma 88


title: newly diagnosed multiple myeloma 81


title: newly diagnosed multiple myeloma 87


title: newly diagnosed multiple myeloma 91


title: newly diagnosed multiple myeloma 74


title: newly diagnosed multiple myeloma 82


title: newly diagnosed multiple myeloma 83


title: newly diagnosed multiple myeloma 75


title: newly diagnosed multiple myeloma 71


title: newly diagnosed multiple myeloma 70


title: newly diagnosed multiple myeloma 60


title: newly diagnosed multiple myeloma 149


title: newly diagnosed multiple myeloma 66


title: newly diagnosed multiple myeloma 65


title: newly diagnosed multiple myeloma 69


title: newly diagnosed multiple myeloma 67


title: newly diagnosed multiple myeloma 56


title: newly diagnosed multiple myeloma 59


title: newly diagnosed multiple myeloma 62


title: newly diagnosed multiple myeloma 53


title: newly diagnosed multiple myeloma 61


title: newly diagnosed multiple myeloma 64


title: newly diagnosed multiple myeloma 55


title: newly diagnosed multiple myeloma 54


title: newly diagnosed multiple myeloma 48


title: newly diagnosed multiple myeloma 49


title: newly diagnosed multiple myeloma 52


title: newly diagnosed multiple myeloma 46


title: newly diagnosed multiple myeloma 57


title: newly diagnosed multiple myeloma 44


title: newly diagnosed multiple myeloma 43


title: newly diagnosed multiple myeloma 51


title: newly diagnosed multiple myeloma 41


title: newly diagnosed multiple myeloma 45


title: newly diagnosed multiple myeloma 50


title: newly diagnosed multiple myeloma 68


title: newly diagnosed multiple myeloma 47


title: newly diagnosed multiple myeloma 42


title: newly diagnosed multiple myeloma 63


title: newly diagnosed multiple myeloma 39


title: newly diagnosed multiple myeloma 32


title: newly diagnosed multiple myeloma 58


title: newly diagnosed multiple myeloma 38


title: newly diagnosed multiple myeloma 36


title: newly diagnosed multiple myeloma 33


title: newly diagnosed multiple myeloma 23


title: newly diagnosed multiple myeloma 30


title: newly diagnosed multiple myeloma 29


title: newly diagnosed multiple myeloma 26


title: newly diagnosed multiple myeloma 37


title: newly diagnosed multiple myeloma 34


title: newly diagnosed multiple myeloma 40


title: newly diagnosed multiple myeloma 24


title: newly diagnosed multiple myeloma 25


title: newly diagnosed multiple myeloma 31


title: newly diagnosed multiple myeloma 19


title: newly diagnosed multiple myeloma 28


title: newly diagnosed multiple myeloma 16


title: newly diagnosed multiple myeloma 27


title: newly diagnosed multiple myeloma 22


title: newly diagnosed multiple myeloma 18


title: newly diagnosed multiple myeloma 21


title: newly diagnosed multiple myeloma 14


title: newly diagnosed multiple myeloma 35


title: newly diagnosed multiple myeloma 17


title: newly diagnosed multiple myeloma 6


title: newly diagnosed multiple myeloma 1


title: newly diagnosed multiple myeloma 12


title: newly diagnosed multiple myeloma 20


title: newly diagnosed multiple myeloma 9


title: newly diagnosed multiple myeloma 13


title: newly diagnosed multiple myeloma 15


title: newly diagnosed multiple myeloma 3


title: newly diagnosed multiple myeloma 4


title: 32_before

status: Public on May 25 2010

city: Vienna

first: Dietmar

last: Pils

address: Waehringer Guertel 18-20

department: Dept. of Surgery

country: Austria

institute: Medical University of Vienna

description: Gene expression of patient 32 before neoadjuvant chemotherapy

hyb_protocol: 1.65 ug of Cy3-labelled cRNA (specific activity >10.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 250 ml containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 250 ml of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent Whole Human Genome Oligo Microarrays (G4112A) for 17 hours at 65Â°C in a rotating Agilent hybridization oven.  After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37Â°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.

scan_protocol: Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505B) using one color scan setting for 1x44k array slides (Scan Area 61x21.6 mm, Scan resolution 10um, Dye channel is set to Green and Green PMT is set to 100%).

data_processing: The scanned images were analyzed with Feature Extraction Software 9.1 (Agilent) using default parameters (protocol GE1-v1_91 and Grid: 012391_D_20060331) to obtain background subtracted and spatially detrended Processed Signal intensities.  Features flagged in Feature Extraction as Feature Non-uniform, Saturated, and Population outlier were flagges A(bsent). Features flagged Not positive and significant and Not above background were flagged M(arginal). All other values were flagged P(resent).

label_protocol: Cyanine-3 (Cy3) labeled cRNA was prepared from 0.2 ug RNA using the One-Color Quick Amp Labeling Kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).  Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.

extract_protocol: RNA was prepared using the RNA 6000 Nano LabChip kit (Agilent Technologies, Palo Alto, CA) following the manufacturer's recommendations. RNA was quantified using a NanoDrop-1000 spectrophotometer and quality was monitored with the Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).

treatment_protocol: A two-pass, high speed core biopsy, evaluated for a cancer cell content of >50% by fresh-frozen section analysis, was performed before and after  four cycles neoadjuvant chemotherapy (epirubicine 90mg/m2 and cyclophosphamide 600mg/m2 every three weeks)

tag: patient no

tag: tissue

value: Breast cancer tissue

tag: gender

value: female

tag: before/after chemotherapy

value: before

tag: response

value: R

tag: initial cm

tag: post cht cm

tag: sinn

tag: ypt

tag: ypn

tag: grade

tag: her2neu score


title: 31_before

description: Gene expression of patient 31 before neoadjuvant chemotherapy

value: NR


title: newly diagnosed multiple myeloma 7

value: CD138 purified myeloma plasma cells


title: newly diagnosed multiple myeloma 11


title: newly diagnosed multiple myeloma 10


title: newly diagnosed multiple myeloma 5


title: newly diagnosed multiple myeloma 2

value: HY


title: 30_after

description: Gene expression of patient 30 after neoadjuvant chemotherapy

value: after


title: 27_before

description: Gene expression of patient 27 before neoadjuvant chemotherapy


title: 28_after

description: Gene expression of patient 28 after neoadjuvant chemotherapy


title: 28_before

description: Gene expression of patient 28 before neoadjuvant chemotherapy


title: 23_after

description: Gene expression of patient 23 after neoadjuvant chemotherapy


title: 31_after

description: Gene expression of patient 31 after neoadjuvant chemotherapy


title: 26_after

description: Gene expression of patient 26 after neoadjuvant chemotherapy


title: 29_before

description: Gene expression of patient 29 before neoadjuvant chemotherapy


title: 25_after

description: Gene expression of patient 25 after neoadjuvant chemotherapy


title: 26_before

description: Gene expression of patient 26 before neoadjuvant chemotherapy


title: 22_after

description: Gene expression of patient 22 after neoadjuvant chemotherapy


title: 19_after

description: Gene expression of patient 19 after neoadjuvant chemotherapy


title: 25_before

description: Gene expression of patient 25 before neoadjuvant chemotherapy


title: 30_before

description: Gene expression of patient 30 before neoadjuvant chemotherapy


title: 22_before

description: Gene expression of patient 22 before neoadjuvant chemotherapy


title: 18_before

description: Gene expression of patient 18 before neoadjuvant chemotherapy

value: is


title: 24_before

description: Gene expression of patient 24 before neoadjuvant chemotherapy


title: 27_after

description: Gene expression of patient 27 after neoadjuvant chemotherapy


title: newly diagnosed multiple myeloma 8

description: Gene expression data from CD138 purified myeloma plasma cells at diagnosis included in HOVON65/GMMG-HD4

value: I


title: 20_before

description: Gene expression of patient 20 before neoadjuvant chemotherapy


title: 16_after

description: Gene expression of patient 16 after neoadjuvant chemotherapy


title: 18_after

description: Gene expression of patient 18 after neoadjuvant chemotherapy


title: 16_before

description: Gene expression of patient 16 before neoadjuvant chemotherapy


title: 15_before

description: Gene expression of patient 15 before neoadjuvant chemotherapy


title: 19_before

description: Gene expression of patient 19 before neoadjuvant chemotherapy


title: 17_before

description: Gene expression of patient 17 before neoadjuvant chemotherapy

value: x


title: 15_after

description: Gene expression of patient 15 after neoadjuvant chemotherapy


title: 23_before

description: Gene expression of patient 23 before neoadjuvant chemotherapy


title: 21_before

description: Gene expression of patient 21 before neoadjuvant chemotherapy


title: 13_before

description: Gene expression of patient 13 before neoadjuvant chemotherapy


title: 13_after

description: Gene expression of patient 13 after neoadjuvant chemotherapy


title: 12_before

description: Gene expression of patient 12 before neoadjuvant chemotherapy


title: 12_after

description: Gene expression of patient 12 after neoadjuvant chemotherapy


title: 11_before

description: Gene expression of patient 11 before neoadjuvant chemotherapy


title: 8_before

description: Gene expression of patient 8 before neoadjuvant chemotherapy


title: 9_after

description: Gene expression of patient 9 after neoadjuvant chemotherapy


title: 14_before

description: Gene expression of patient 14 before neoadjuvant chemotherapy


title: 10_after

description: Gene expression of patient 10 after neoadjuvant chemotherapy


title: 11_after

description: Gene expression of patient 11 after neoadjuvant chemotherapy


title: 10_before

description: Gene expression of patient 10 before neoadjuvant chemotherapy


title: 9_before

description: Gene expression of patient 9 before neoadjuvant chemotherapy


title: 7_before

description: Gene expression of patient 7 before neoadjuvant chemotherapy


title: 8_after

description: Gene expression of patient 8 after neoadjuvant chemotherapy


title: 3_after

description: Gene expression of patient 3 after neoadjuvant chemotherapy


title: 6_before

description: Gene expression of patient 6 before neoadjuvant chemotherapy


title: 7_after

description: Gene expression of patient 7 after neoadjuvant chemotherapy


title: 3_before

description: Gene expression of patient 3 before neoadjuvant chemotherapy


title: 4_before

description: Gene expression of patient 4 before neoadjuvant chemotherapy


title: 5_before

description: Gene expression of patient 5 before neoadjuvant chemotherapy


title: 1_after

description: Gene expression of patient 1 after neoadjuvant chemotherapy


title: 5_after

description: Gene expression of patient 5 after neoadjuvant chemotherapy


title: 2_before

description: Gene expression of patient 2 before neoadjuvant chemotherapy


title: 4_after

description: Gene expression of patient 4 after neoadjuvant chemotherapy


title: 6_after

description: Gene expression of patient 6 after neoadjuvant chemotherapy


title: BR_FNA_M806

status: Public on Feb 04 2010

city: Shanghai

first: Leming

last: Shi

address: 2005 Songhu Road

department: School of Life Sciences

country: China

institute: Fudan University

description:
MAQC_Distribution_Status: MAQC_V -- Validation
Please see the GSE20194_MDACC_Sample_Info.xls file on the GSE20194 Series record for additional information on the Sample characteristics

hyb_protocol: Affymetrix protocol

scan_protocol: Affymetrix protocol

source_name: Sample ID -- 806, fine-needle aspiration, breast cancer cells

label_protocol: biotin labeling

extract_protocol: RNA was extracted from FNA samples using the RNAeasy Kit (Qiagen, Valencia, CA). The amount and quality of RNA were assessed with DU-640 UV Spectrophotometer (Beckman Coulter, Fullerton, CA), and they were considered adequate for further analysis if the optical density 260/280 ratio was ≥1.8 and the total RNA yield was ≥ 1μg.

treatment_protocol: Patients received pretreatment fine-needle aspiration (FNA) of the primary breast tumor or ipsilateral axillary metastasis before starting chemotherapy as part of an ongoing pharmacogenomic marker discovery program. The aspiration was performed using a 23- or 25-gauge needle. Cells from two to three passes were collected in vials containing 1 mL RNA later solution (Ambion, Austin, TX) and stored at -80°C. FNA samples on average contain 80% neoplastic cells and contain little or no stromal cells or normal breast epithelium.

value: breast cancer cells

tag: age

tag: race

value: hispanic

value: P

value: RD

tag: tbefore

tag: nbefore

tag: bmngrd

tag: er

tag: her2 status

value: N

tag: her2 ihc

tag: her2 fish

tag: histology

value: IDC

tag: treatment code

value: TFAC

tag: treatments comments

value: Taxol x 8 ( d/t NC) FAC x 3 (d/t PD) Xeloda (1) Letrozole + Gleevec (PD) +XRT (rt breast, bi-supra and IMC w/ xeloda)


title: 1_before

description: Gene expression of patient 1 before neoadjuvant chemotherapy

tag: patient no

tag: tissue

value: Breast cancer tissue

tag: gender

value: female

tag: before/after chemotherapy

value: before

tag: response

tag: initial cm

tag: post cht cm

tag: sinn


title: 2_after

description: Gene expression of patient 2 after neoadjuvant chemotherapy

value: R

tag: ypt

tag: ypn

tag: grade

tag: her2neu score