title: Breast Cancer Array_Patient ID_117

description: pol

source_name: Primary Breast Tumor Patient ID 117


title: Breast Cancer Array_Patient ID_307

status: Public on Jun 21 2012

type: RNA

city: st louis

first: Cynthia

last: Ma

state: Missouri

address: 4515 Mckinley, 4515 Mckinley

department: Medical Oncology

country: USA

institute: Washington University

description: pol

hyb_protocol: Agilent 60-mer oligo microarray processing protocol

scan_protocol: Microarrays were scanned with an Agilent Scanner.

data_processing: txt files from Agilent Feature Extraction software were loaded into the UNC-CH Microarray Database. Final loess, normalized log2 ratios (Cy5-sample/Cy3-control) for each probe were retrieved.

molecule: total RNA

organism: Homo sapiens

source_name: Stratagene Human Universal Reference spiked with MCF7 and  ME16C mRNA

label_protocol: Agilent Low Input Linear Amplification Kit and protocol

growth_protocol: patient biopsies were frozen and stored in oct compound

extract_protocol: Trizol extractions followed by Dnase treatment and column purification.

tag: components

value: Total RNA from 10 human cell lines:1_Adenocarcinoma, mammary gland 2_Hepatoblastoma, liver 3_Adenocarcinoma, cervix 4_Embryonal carcinoma, testis 5_Glioblastoma, brain 6_Melanoma 7_Liposarcoma 8_Histiocytic Lymphoma; macrophage; histocyte 9_ Lymphoblastic leukemia, T lymphoblast 10_Plasmacytoma; myeloma; B lymphocyte.  Also, mRNA spiked in from MCF7 and ME16C.

tag: comment

value: Generated labeled cRNA from reference sample

tag: sample type

source_name: Primary Breast Tumor Patient ID 307

value: oct blocks from fine needle biopsies which contained at least 50% tumor cellularity

tag: ki67 surg

tag: er bl

tag: baseline subtype

value: LumB

tag: baseline ror p

tag: baseline ror s

tag: study id

value: POL

tag: tissue

value: breast cancer tumor

tag: treatment

value: Pre-Operative Letrozole


title: Breast Cancer Array_Patient ID_808

description: pol

value: Stratagene Human Universal Reference spiked with MCF7 and  ME16C mRNA

source_name: Primary Breast Tumor Patient ID 808


title: Breast Cancer Array_Patient ID_107

description: pol

source_name: Primary Breast Tumor Patient ID 107


title: Breast Cancer Array_Patient ID_508

description: pol

source_name: Primary Breast Tumor Patient ID 508

value: LumA


title: Breast Cancer Array_Patient ID_309

description: pol

source_name: Primary Breast Tumor Patient ID 309


title: Breast Cancer Array_Patient ID_402

description: pol

source_name: Primary Breast Tumor Patient ID 402


title: Breast Cancer Array_Patient ID_801

description: pol

source_name: Primary Breast Tumor Patient ID 801


title: Breast Cancer Array_Patient ID_125

description: pol

source_name: Primary Breast Tumor Patient ID 125


title: Breast Cancer Array_Patient ID_111

description: pol

source_name: Primary Breast Tumor Patient ID 111


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16300

description:
Z1031_16300_BL
Baseline expression array.

hyb_protocol: Agilent 60-mer oligo microarray processing protocol.

source_name: Stratagene Human Universal Reference spiked with MCF7 and ME16C mRNA

label_protocol: Agilent Low Input Linear Amplification Kit and protocol.

extract_protocol: Trizol extractions followed by DNase treatment and column purification.

tag: reference

value: 10 human cell lines:1_Adenocarcinoma, mammary gland 2_Hepatoblastoma, liver 3_Adenocarcinoma, cervix 4_Embryonal carcinoma, testis 5_Glioblastoma, brain 6_Melanoma 7_Liposarcoma 8_Histiocytic Lymphoma; macrophage; histocyte 9_ Lymphoblastic leukemia, T lymphoblast 10_Plasmacytoma; myeloma; B lymphocyte.  Also, mRNA spiked in from MCF7 and ME16C.

source_name: Primary breast tumor

tag: patient id

value: primary breast tissue

value: oct block from fine needle biopsy which contained at least 50% tumor cellularity


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16589

description:
Z1031_16589_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16454

description:
Z1031_16454_BL
Baseline expression array.


title: Breast Cancer Array_Patient ID_104

description: pol

source_name: Primary Breast Tumor Patient ID 104


title: Breast Cancer Array_Patient ID_306

description: pol

source_name: Primary Breast Tumor Patient ID 306


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16481

description:
Z1031_16481_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16357

description:
Z1031_16357_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16277

description:
Z1031_16277_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16431

description:
Z1031_16431_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16314

description:
Z1031_16314_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16918

description:
Z1031_16918_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16347

description:
Z1031_16347_BL
Baseline expression array.


title: Breast Cancer Array_Patient ID_115

description: pol

source_name: Primary Breast Tumor Patient ID 115


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16180

description:
Z1031_16180_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16408

description:
Z1031_16408_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16220

description:
Z1031_16220_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16319

description:
Z1031_16319_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16252

description:
Z1031_16252_BL
Baseline expression array.


title: Breast Cancer Array_Patient ID_112

description: pol

source_name: Primary Breast Tumor Patient ID 112


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16227

description:
Z1031_16227_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16062

description:
Z1031_16062_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16024

description:
Z1031_16024_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16350

description:
Z1031_16350_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15984

description:
Z1031_15984_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15736

description:
Z1031_15736_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15583

description:
Z1031_15583_BL_REDO
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15953

description:
Z1031_15953_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15760

description:
Z1031_15760_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16041

description:
Z1031_16041_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_POL Patient ID_834

description:
POL_834_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16178

description:
Z1031_16178_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15985

description:
Z1031_15985_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15990

description:
Z1031_15990_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15991

description:
Z1031_15991_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16107

description:
Z1031_16107_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16187

description:
Z1031_16187_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15970

description:
Z1031_15970_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_POL Patient ID_828

description:
POL_828_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15917

description:
Z1031_15917_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15687

description:
Z1031_15687_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_16111

description:
Z1031_16111_BL
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15910

description:
Z1031_15910_BL
Baseline expression array.


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 17124

type: genomic

hyb_protocol: Agilent Oligonucleotide Array-Based CGH for Genomic Analysis Protocol v5.0

data_processing: log(base 10) ratios(red processed signal/green processed signal) generated by Agilent's Feature Extraction software

molecule: genomic DNA

source_name: patient germline DNA isolated from whole blood or cell pellets

label_protocol: Exo-klenow fragment labeling

extract_protocol: DNA was isolated using Qiagen DNA Isolation kits.

value: whole blood or cell pellets

source_name: Genomic DNA isolated from human breast biospsies.

value: Genomic DNA isolated from pre-treatment human breast biospsies.


title: Breast Cancer Array_Pre-treatment_POL Patient ID_814

description:
POL_814_BL
Baseline expression array.


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 17208

scan_protocol: Agilent Oligonucleotide Array-Based CGH for Genomic Analysis Protocol v5.0

value: patient germline DNA isolated from whole blood or cell pellets


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16986

value: triaged to chemo


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16970


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15601

description:
Z1031_15601_BL_REDO
Baseline expression array.


title: Breast Cancer Array_Pre-treatment_POL Patient ID_804

description:
POL_804_BL
Baseline expression array.


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 17123


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 17170


title: Breast Cancer Array_Pre-treatment_POL Patient ID_820

description:
POL_820_BL
Baseline expression array.


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16598


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16590


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16992


title: Breast Cancer Array_Pre-treatment_POL Patient ID_807

description:
POL_807_BL
Baseline expression array.


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16825


title: Breast Cancer Array_Pre-treatment_Z1031 Patient ID_15714

description:
Z1031_15714_BL
Baseline expression array.


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16702


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16744


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16889


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16779


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16751


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16495


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16880


title: Breast Cancer Array_Pre-treatment_POL Patient ID_837

description:
POL_837_BL
Baseline expression array.


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16757


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16965


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16956

value: y


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16561


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16579


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16531


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16745


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16368


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16486


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16492


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16439


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16004


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 15892


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16442


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16365


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16313


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 15838


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16224

value: blood


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 15913


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16270


title: Breast Cancer Pre-Treatment aCGH_POL_Patient 409

description: pol


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16292


title: Breast Cancer Pre-Treatment aCGH_POL_Patient 308

description: pol


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16105


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16054


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 15870


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 15950


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 15879


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16392


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 16402


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16165


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16256


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16295


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 15921


title: Breast Cancer Pre-Treatment aCGH_Z1031_Patient 15882


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16135


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16140


title: Breast Cancer Pre-Treatment aCGH_POL_Patient 811

description: pol


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16290


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16136


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16342


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16070


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16099


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16093


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16127


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16084


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16067


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16063


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16064


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16052


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16035


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16016


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16031


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16069


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16042


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16025


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15832


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15995


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15866


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15829


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15931


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15757


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15977


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15816


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15681


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15894


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15830


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15715


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16002


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15669


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15867


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15797


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15776


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 16092


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15571

description: pol

value: pol


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15694


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15616

description: pol


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15660


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15445

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 839

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 829

description: pol


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15386

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 831

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 823

description: pol


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15547

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 508

description: pol


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15770


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 808

description: pol


title: Breast Cancer Array_Patient ID_15995

status: Public on May 10 2011

source_name: Stratagene Human Universal Reference spiked with MCF7 and  ME16C mRNA

value: Stratagene Human Reference total RNA from 10 human cell lines:1_Adenocarcinoma, mammary gland 2_Hepatoblastoma, liver 3_Adenocarcinoma, cervix 4_Embryonal carcinoma, testis 5_Glioblastoma, brain 6_Melanoma 7_Liposarcoma 8_Histiocytic Lymphoma; macrophage; histocyte 9_ Lymphoblastic leukemia, T lymphoblast 10_Plasmacytoma; myeloma; B lymphocyte.  Also, mRNA spiked in from MCF7 and ME16C.

source_name: Primary Breast Tumor_Patient ID_15995

value: oct blocks from fine needle biopsies which contained at least 50% tumor cellularity

tag: prototype

value: LUMA


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15654

value: breast cancer tumor


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 115

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 818

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 801

description: pol


title: Breast Cancer Array_Patient ID_16140

source_name: Primary Breast Tumor_Patient ID_16140

value: LUMB


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 307

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 841

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 125

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 402

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 306

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 112

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 122

description: pol


title: Breast Cancer_Pre-Treatment aCGH_Z1031_Patient 15565

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 826

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 107

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 117

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 309

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 104

description: pol


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 111

description: pol


title: Breast Cancer Array_Patient ID_15469

source_name: Primary Breast Tumor_Patient ID_15469


title: Breast Cancer Array_Patient ID_16025

source_name: Primary Breast Tumor_Patient ID_16025


title: Breast Cancer Array_Patient ID_15694

source_name: Primary Breast Tumor_Patient ID_15694


title: Breast Cancer Array_Patient ID_16035

source_name: Primary Breast Tumor_Patient ID_16035


title: Breast Cancer Array_Patient ID_15945

source_name: Primary Breast Tumor_Patient ID_15945


title: Breast Cancer Array_Patient ID_304

source_name: Primary Breast Tumor_Patient ID_304


title: Breast Cancer Array_Patient ID_15997_M

source_name: Primary Breast Tumor_Patient ID_15997_M


title: Breast Cancer Array_Patient ID_15616_S

source_name: Primary Breast Tumor_Patient ID_15616_S


title: Breast Cancer Array_Patient ID_15879

source_name: Primary Breast Tumor_Patient ID_15879


title: Breast Cancer Array_Patient ID_15991_S

source_name: Primary Breast Tumor_Patient ID_15991_S


title: Breast Cancer Array_Patient ID_16170_M_NR

source_name: Primary Breast Tumor_Patient ID_16170_M_NR


title: Breast Cancer Array_Patient ID_16064_M

source_name: Primary Breast Tumor_Patient ID_16064_M


title: Breast Cancer Array_Patient ID_16170_M

source_name: Primary Breast Tumor_Patient ID_16170_M


title: Breast Cancer Array_Patient ID_15913_S

source_name: Primary Breast Tumor_Patient ID_15913_S


title: Breast Cancer Array_Patient ID_8997

source_name: Stratagene Human Universal Reference spiked with MCF7 and  ME16C mRNA

source_name: Primary Breast Tumor_Patient ID_8997

value: BASAL


title: Breast Cancer Array_Patient ID_8699

source_name: Primary Breast Tumor_Patient ID_8699


title: Breast Cancer Array_Patient ID_8681

source_name: Primary Breast Tumor_Patient ID_8681


title: Breast Cancer Array_Patient ID_ES105

source_name: Primary Breast Tumor_Patient ID_ES105


title: Breast Cancer Array_Patient ID_15921_S

source_name: Primary Breast Tumor_Patient ID_15921_S


title: Breast Cancer Array_Patient ID_ES106

source_name: Primary Breast Tumor_Patient ID_ES106


title: Breast Cancer Array_Patient ID_8679

source_name: Primary Breast Tumor_Patient ID_8679


title: Breast Cancer Array_Patient ID_4584

source_name: Primary Breast Tumor_Patient ID_4584


title: Breast Cancer Array_Patient ID_2851

source_name: Primary Breast Tumor_Patient ID_2851


title: Breast Cancer Array_Patient ID_8682

source_name: Primary Breast Tumor_Patient ID_8682


title: Breast Cancer Array_Patient ID_2388

source_name: Primary Breast Tumor_Patient ID_2388


title: Breast Cancer Array_Patient ID_16002

source_name: Primary Breast Tumor_Patient ID_16002


title: Breast Cancer Array_Patient ID_17035

source_name: Primary Breast Tumor_Patient ID_17035

value: Normal


title: Breast Cancer Array_Patient ID_17034

source_name: Primary Breast Tumor_Patient ID_17034


title: Breast Cancer Array_Patient ID_4646

source_name: Primary Breast Tumor_Patient ID_4646


title: Breast Cancer Array_Patient ID_119B-0Tumor

source_name: Primary Breast Tumor_Patient ID_119B-0Tumor


title: Breast Cancer Array_Patient ID_17033

source_name: Stratagene Human Universal Reference spiked with MCF7 and  ME16C mRNA

source_name: Primary Breast Tumor_Patient ID_17033


title: Breast Cancer Array_Patient ID_11726

source_name: Primary Breast Tumor_Patient ID_11726


title: Breast Cancer Array_Patient ID_19640

source_name: Primary Breast Tumor_Patient ID_19640


title: Breast Cancer Array_Patient ID_13774

source_name: Primary Breast Tumor_Patient ID_13774


title: Breast Cancer Array_Patient ID_15928_New Reference

source_name: Primary Breast Tumor_Patient ID_15928_New Reference


title: Breast Cancer Array_Patient ID_201B-0Tumor

source_name: Primary Breast Tumor_Patient ID_201B-0Tumor


title: Breast Cancer Array_Patient ID_10752

source_name: Primary Breast Tumor_Patient ID_10752


title: Breast Cancer Array_Patient ID_4773

source_name: Primary Breast Tumor_Patient ID_4773


title: Breast Cancer_Pre-Treatment aCGH_POL_Patient 304

description: pol

source_name: patient germline DNA isolated from whole blood or cell pellets

source_name: Genomic DNA isolated from human breast biospsies.


title: Breast_PreTreatment_Patient 834

status: Public on Mar 06 2009

description: Gene expression.

data_processing: tif Image files generated by the Agilent scanner were split into cy3 and cy5 tifs by Tiffsplitter software.  The cy3 and cy5 images were then uploaded into Genepix software to generate a gpr file.  The gpr file and cy3 and cy5 tif images were then uploaded into the UNC Microarray database.  The UNC Microarray database allows us to store, filter, and retrieve data. The log2 ratios were normalized by the default normalization procedure in the UNC microarray database.

source_name: Stratagene Human Universal Reference spiked with MCF7 and ME16C mRNA

treatment_protocol: All tissue used for this study was taken prior to patient therapy.

tag: cell lines

value: 1_Adenocarcinoma, mammary gland 2_Hepatoblastoma, liver 3_Adenocarcinoma, cervix 4_Embryonal carcinoma, testis 5_Glioblastoma, brain 6_Melanoma 7_Liposarcoma 8_Histiocytic Lymphoma; macrophage; histocyte 9_ Lymphoblastic leukemia, T lymphoblast 10_Plasmacytoma; myeloma; B lymphocyte

tag: spike-ins

value: mRNA from MCF7 and ME16C

source_name: Breast_PreTreatment_Patient 834, LumB, PIK3CA mut

tag: disease

value: breast cancer

tag: subtype

value: LumB

value: mut

value: breast

tag: tumor cellularity

value: at least 50%

tag: stroage

value: oct blocks from fine needle biopsies


title: Breast_PreTreatment_Patient 839

description: Gene expression.

source_name: Breast_PreTreatment_Patient 839, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 832

description: Gene expression.

source_name: Breast_PreTreatment_Patient 832, LumA, PIK3CA wt

value: LumA

value: wt


title: Breast_PreTreatment_Patient 831

description: Gene expression.

source_name: Breast_PreTreatment_Patient 831, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 824

description: Gene expression.

source_name: Breast_PreTreatment_Patient 824, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 829

description: Gene expression.

source_name: Breast_PreTreatment_Patient 829, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 837

description: Gene expression.

source_name: Breast_PreTreatment_Patient 837, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 822

description: Gene expression.

source_name: Breast_PreTreatment_Patient 822, LumA, PIK3CA mut


title: Breast_PreTreatment_Patient 841

description: Gene expression.

source_name: Breast_PreTreatment_Patient 841, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 838

description: Gene expression.

source_name: Breast_PreTreatment_Patient 838, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 830

description: Gene expression.

source_name: Breast_PreTreatment_Patient 830, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 842

description: Gene expression.

source_name: Breast_PreTreatment_Patient 842, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 826

description: Gene expression.

source_name: Breast_PreTreatment_Patient 826, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 828

description: Gene expression.

source_name: Breast_PreTreatment_Patient 828, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 827

description: Gene expression.

source_name: Breast_PreTreatment_Patient 827, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient_8699

description: Gene expression.

source_name: Breast_Patient_8699, LumB, PIK3CA nd

value: nd


title: Breast_PreTreatment_Patient 835

description: Gene expression.

source_name: Stratagene Human Universal Reference spiked with MCF7 and ME16C mRNA

source_name: Breast_PreTreatment_Patient 835, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 818

description: Gene expression.

source_name: Breast_PreTreatment_Patient 818, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 823

description: Gene expression.

source_name: Breast_PreTreatment_Patient 823, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 820

description: Gene expression.

source_name: Breast_PreTreatment_Patient 820, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 814

description: Gene expression.

source_name: Breast_PreTreatment_Patient 814, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 816

description: Gene expression.

source_name: Breast_PreTreatment_Patient 816, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 810

description: Gene expression.

source_name: Breast_PreTreatment_Patient 810, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 807

description: Gene expression.

source_name: Breast_PreTreatment_Patient 807, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 811

description: Gene expression.

source_name: Breast_PreTreatment_Patient 811, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 808

description: Gene expression.

source_name: Breast_PreTreatment_Patient 808, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 821

description: Gene expression.

source_name: Breast_PreTreatment_Patient 821, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 805

description: Gene expression.

source_name: Breast_PreTreatment_Patient 805, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 815

description: Gene expression.

source_name: Breast_PreTreatment_Patient 815, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 809

description: Gene expression.

source_name: Breast_PreTreatment_Patient 809, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 409

description: Gene expression.

source_name: Breast_PreTreatment_Patient 409, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 803

description: Gene expression.

source_name: Breast_PreTreatment_Patient 803, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 507

description: Gene expression.

source_name: Stratagene Human Universal Reference spiked with MCF7 and ME16C mRNA

source_name: Breast_PreTreatment_Patient 507, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 702

description: Gene expression.

source_name: Breast_PreTreatment_Patient 702, LumA, PIK3CA mut


title: Breast_PreTreatment_Patient 703

description: Gene expression.

source_name: Breast_PreTreatment_Patient 703, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 508

description: Gene expression.

source_name: Breast_PreTreatment_Patient 508, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 306

description: Gene expression.

source_name: Breast_PreTreatment_Patient 306, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 207

description: Gene expression.

source_name: Breast_PreTreatment_Patient 207, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 804

description: Gene expression.

source_name: Breast_PreTreatment_Patient 804, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 402

description: Gene expression.

source_name: Breast_PreTreatment_Patient 402, LumA, PIK3CA mut


title: Breast_PreTreatment_Patient 411

description: Gene expression.

source_name: Breast_PreTreatment_Patient 411, LumA, PIK3CA mut


title: Breast_PreTreatment_Patient 307

description: Gene expression.

source_name: Breast_PreTreatment_Patient 307, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 208

description: Gene expression.

source_name: Breast_PreTreatment_Patient 208, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 502

description: Gene expression.

source_name: Breast_PreTreatment_Patient 502, LumA, PIK3CA mut


title: Breast_PreTreatment_Patient 126

description: Gene expression.

source_name: Breast_PreTreatment_Patient 126, LumA, PIK3CA mut


title: Breast_PreTreatment_Patient 415

description: Gene expression.

source_name: Breast_PreTreatment_Patient 415, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 701

description: Gene expression.

source_name: Breast_PreTreatment_Patient 701, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 206

description: Gene expression.

source_name: Breast_PreTreatment_Patient 206, LumA, PIK3CA mut


title: Breast_PreTreatment_Patient 801

description: Gene expression.

source_name: Stratagene Human Universal Reference spiked with MCF7 and ME16C mRNA

source_name: Breast_PreTreatment_Patient 801, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 305

description: Gene expression.

source_name: Breast_PreTreatment_Patient 305, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 506

description: Gene expression.

source_name: Breast_PreTreatment_Patient 506, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 308

description: Gene expression.

source_name: Breast_PreTreatment_Patient 308, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 413

description: Gene expression.

source_name: Breast_PreTreatment_Patient 413, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 309

description: Gene expression.

source_name: Breast_PreTreatment_Patient 309, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 302

description: Gene expression.

source_name: Breast_PreTreatment_Patient 302, LumA, PIK3CA mut


title: Breast_PreTreatment_Patient 406

description: Gene expression.

source_name: Breast_PreTreatment_Patient 406, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 304

description: Gene expression.

source_name: Breast_PreTreatment_Patient 304, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 124

description: Gene expression.

source_name: Breast_PreTreatment_Patient 124, LumA, PIK3CA mut


title: Breast_PreTreatment_Patient 303

description: Gene expression.

source_name: Breast_PreTreatment_Patient 303, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 125

description: Gene expression.

source_name: Breast_PreTreatment_Patient 125, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 120

description: Gene expression.

source_name: Breast_PreTreatment_Patient 120, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 118

description: Gene expression.

source_name: Breast_PreTreatment_Patient 118, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 123

description: Gene expression.

source_name: Breast_PreTreatment_Patient 123, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 117

description: Gene expression.

source_name: Breast_PreTreatment_Patient 117, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 109

description: Gene expression.

source_name: Stratagene Human Universal Reference spiked with MCF7 and ME16C mRNA

source_name: Breast_PreTreatment_Patient 109, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 122

description: Gene expression.

source_name: Breast_PreTreatment_Patient 122, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 115

description: Gene expression.

source_name: Breast_PreTreatment_Patient 115, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 108

description: Gene expression.

source_name: Breast_PreTreatment_Patient 108, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 112

description: Gene expression.

source_name: Breast_PreTreatment_Patient 112, LumB, PIK3CA mut


title: Breast_PreTreatment_Patient 104

description: Gene expression.

source_name: Breast_PreTreatment_Patient 104, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 121

description: Gene expression.

source_name: Breast_PreTreatment_Patient 121, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 111

description: Gene expression.

source_name: Breast_PreTreatment_Patient 111, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 107

description: Gene expression.

source_name: Breast_PreTreatment_Patient 107, LumB, PIK3CA wt


title: Breast_PreTreatment_Patient 103

description: Gene expression.

source_name: Breast_PreTreatment_Patient 103, LumA, PIK3CA wt


title: Breast_PreTreatment_Patient 114

description: Gene expression.

source_name: Breast_PreTreatment_Patient 114, LumA, PIK3CA wt


title: HCC712 cell line

hyb_protocol: Agilent Direct Method.

scan_protocol: Agilent Scan Control Software.

data_processing: A process control algorithm was used to flag log cgh probe ratios and calculate Z' scores.  Z' scores >=2 were used to identify probable copy gains and Z' scores <= -2 were used to identify probable copy loss. Z' scores for the genes of interest are available on the Series record.

source_name: germline DNA from anonymous donor

label_protocol: Agilent Genomic DNA Labeling kit.

growth_protocol: Grown under subconfluent conditions in growth media (RPMI 1640, pyruvate, 10 mM Hepes, glucose to 4.5g/L, 10% FBS, antibiotics).

extract_protocol: Qiagen QiaAmp DNA Micro kit.

treatment_protocol: Normal growing conditions.

value: blood

tag: gender

value: female

source_name: HCC712 cell line

tag: cell line


title: T47D cell line

source_name: T47D cell line


title: MCF7 cell line

source_name: MCF7 cell line


title: HCC_1187 cell line

source_name: HCC_1187 cell line


title: Breast Cancer_Pre-Treatment_Patient 831

source_name: patient germline DNA

growth_protocol: Tissue biopsies were frozen in oct and stored in liquid nitrogen.

treatment_protocol: Samples were taken from patients prior to treatment.

value: whole blood or cell pellets

source_name: DNA from patient breast biopsy

value: at least 70%

tag: storage

value: oct embedded


title: ZR75-1 cell line

source_name: ZR75-1 cell line


title: HCC1937 cell line

source_name: HCC1937 cell line


title: CAMA1 cell line

source_name: CAMA1 cell line


title: BT549 cell line

source_name: BT549 cell line


title: Breast Cancer_Pre-Treatment_Patient 837


title: HCC38 cell line

source_name: HCC38 cell line


title: MDAMB231 cell line

source_name: MDAMB231 cell line


title: Breast Cancer_Pre-Treatment_Patient 823


title: Breast Cancer_Pre-Treatment_Patient 814


title: Breast Cancer_Pre-Treatment_Patient 834


title: Breast Cancer_Pre-Treatment_Patient 819


title: Breast Cancer_Pre-Treatment_Patient 804


title: Breast Cancer_Pre-Treatment_Patient 829


title: SKBR3 cell line

source_name: SKBR3 cell line


title: HCC1419 cell line

source_name: HCC1419 cell line


title: Breast Cancer_Pre-Treatment_Patient 820


title: Breast Cancer_Pre-Treatment_Patient 828


title: Breast Cancer_Pre-Treatment_Patient 808


title: HCC1806 cell line

source_name: HCC1806 cell line


title: Breast Cancer_Pre-Treatment_Patient 807


title: Breast Cancer_Pre-Treatment_Patient 805


title: Breast Cancer_Pre-Treatment_Patient 818


title: Breast Cancer_Pre-Treatment_Patient 802


title: Breast Cancer_Pre-Treatment_Patient 811


title: Breast Cancer_Pre-Treatment_Patient 508


title: Breast Cancer_Pre-Treatment_Patient 410


title: Breast Cancer_Pre-Treatment_Patient 803


title: Breast Cancer_Pre-Treatment_Patient 308


title: Breast Cancer_Pre-Treatment_Patient 402


title: Breast Cancer_Pre-Treatment_Patient 309


title: Breast Cancer_Pre-Treatment_Patient 306


title: Breast Cancer_Pre-Treatment_Patient 304


title: Breast Cancer_Pre-Treatment_Patient 125


title: Breast Cancer_Pre-Treatment_Patient 411


title: Breast Cancer_Pre-Treatment_Patient 107


title: Breast Cancer_Pre-Treatment_Patient 118


title: Breast Cancer_Pre-Treatment_Patient 307


title: Breast Cancer_Pre-Treatment_Patient 114


title: Breast Cancer_Pre-Treatment_Patient 104


title: Breast Cancer_Pre-Treatment_Patient 111


title: Breast Cancer_Pre-Treatment_Patient 112


title: Breast Cancer_Pre-Treatment_Patient 103


title: Breast Cancer_Pre-Treatment_Patient 117