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| Accession | Disease | Description | Year | Source | RNA-Seq | Count | Biomarkers |
| GSE96058 | Breast Cancer | Clinical Value of RNA Sequencing–Based Classifiers for Prediction of the Five Conventional Breast Cancer Biomarkers | 2017 | Tissue | Y | 3409 |
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| E-MTAB-6703 | Breast Cancer | A microarray meta-dataset of breast cancer | 2018 | Tissue | N | 2302 |
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| GSE138536 | Breast Cancer | Single-cell transcriptional diversity is a hallmark of developmental potential | 2019 | Cell Type | Y | 1902 |
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| GSE148418 | Breast Cancer | Carolina Breast Cancer Study tumor expression [NanoString nSolver-normalized] | 2020 | Tissue | Y | 1278 |
|
| GSE148425 | Breast Cancer | Carolina Breast Cancer Study tumor expression [RUVSeq-normalized] | 2020 | Tissue | Y | 1219 |
|
| GSE93601 | Breast Cancer | Alcohol Consumption and Breast Tumor Gene Expression | 2017 | Tissue | N | 1110 |
|
| GSE6532 | Breast Cancer | Definition of clinically distinct molecular subtypes in estrogen receptor positive breast carcinomas using genomic grade | 2006 | Tissue | N | 741 |
|
| GSE158309 | Breast Cancer | Prognostic significance of interferon-γ and its signaling pathway in early breast cancer depends on the molecular subtypes | 2020 | Tissue | N | 461 |
|
| GSE78958 | Breast Cancer | Effect of obesity on molecular characteristics of invasive breast tumors: gene expression analysis of 405 tumors by BMI | 2016 | Tissue | N | 424 |
|
| GSE81538 | Breast Cancer | Clinical Value of RNA-sequencing-based Classifiers for Prediction of the Five Conventional Breast Cancer Biomarkers: a Report From the Population-based Multicenter SCAN-B Study [cohort 405] | 2018 | Tissue | Y | 405 |
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| GSE163418 | Breast Cancer | NanoString PanCancer Immune Panel in Black and White Breast Cancer Patients in the Women's Circle of Health Study (WCHS) | 2020 | Tissue | Y | 367 |
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| GSE45725 | Breast Cancer | Internal validation cohort of breast cancers for development of ClinicoMolecular Triad Classification | 2013 | Tissue | N | 340 |
|
| GSE103745 | Breast Cancer | Identification and validation of single sample breast cancer radiosensitivity gene expression predictors | 2017 | Tissue | Y | 336 |
|
| GSE20685 | Breast Cancer | Microarray-based molecular subtyping of breast cancer | 2010 | Tissue | N | 327 |
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| GSE58644 | Breast Cancer | The prognostic ease and difficulty of invasive breast carcinoma | 2014 | Tissue | N | 321 |
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| GSE2034 | Breast Cancer | Breast cancer relapse free survival | 2004 | Tissue | N | 286 |
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| GSE87455 | Breast Cancer | Assessment of tumor pathological and transcriptional biomarkers in pre- and on-treatment core biopsies predictive of response and outcome after neoadjuvant chemotherapy plus Bevacizumab in patients with HER2-negative breast cancer | 2016 | Tissue | N | 275 |
|
| GSE21653 | Breast Cancer | A gene expression signature identifies two prognostic subgroups of basal breast cancer | 2010 | Tissue | N | 266 |
|
| GSE69986 | Breast Cancer | Expression profiling of invasive breast carcinoma samples from Institut Curie | 2015 | Tissue | N | 255 |
|
| GSE129559 | Breast Cancer | Study to evaluate the effect of the type of tissue on gene expression measurements | 2019 | Tissue | N | 232 |
|
| GSE26639 | Breast Cancer | Expression Data from 226 patients of the REMAGUS02 trial | 2011 | Tissue | N | 226 |
|
| GSE163882 | Breast Cancer | Multi-center retrospective evaluation of a RNA expression classifier to predict pathological complete response to neoadjuvant chemotherapy in breast cancer biopsies | 2020 | Tissue | Y | 222 |
|
| GSE12276 | Breast Cancer | Expression data from primary breast tumors | 2008 | Tissue | N | 204 |
|
| GSE22820 | Breast Cancer | Gene expression breast cancer | 2011 | Tissue | N | 186 |
|
| GSE10780 | Breast Cancer | Proliferative genes dominate malignancy-risk gene signature in histologically-normal breast tissue | 2008 | Tissue | N | 185 |
|
| GSE79378 | Breast Cancer | Detection of genes from five gene expression panels (GEPs) in breast tumor samples using NanoString nCounter analysis | 2016 | Tissue | N | 181 |
|
| GSE103746 | Breast Cancer | Identification and validation of single sample breast cancer radiosensitivity gene expression predictors | 2018 | Tissue | N | 172 |
|
| GSE103744 | Breast Cancer | Identification and validation of single sample breast cancer radiosensitivity gene expression predictors | 2017 | Tissue | N | 172 |
|
| GSE1456 | Breast Cancer | Gene expression of breast cancer tissue in a large population-based cohort of Swedish patients | 2004 | Tissue | N | 159 |
|
| GSE129557 | Breast Cancer | Study to evaluate the effect of intratumoral heterogeneity on gene expression measurements | 2019 | Tissue | N | 153 |
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| GSE129551 | Breast Cancer | Discovery cohort for SET ER/PR | 2019 | Tissue | N | 147 |
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| GSE124647 | Breast Cancer | SET ER/PR - A robust 18-gene Predictor for Sensitivity to Endocrine Therapy for Metastatic Breast Cancer | 2019 | Tissue | N | 140 |
|
| GSE29044 | Breast Cancer | Expression data from breast tumors in different age-specific cohorts and for different sequentional disease stages | 2011 | Tissue | N | 138 |
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| GSE129560 | Breast Cancer | Study to compare SET ER/PR index values from Affymetrix U133A microarrays to values from targeted RNASeq and to validate technical reproducibility on U133A microarrays | 2019 | Tissue | N | 128 |
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| GSE131512 | Breast Cancer | Extracellular RNA in a single droplet of human serum reflects physiologic and disease states | 2019 | Serum | Y | 128 |
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| GSE42568 | Breast Cancer | Breast Cancer Gene Expression Analysis | 2012 | Tissue | N | 121 |
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| GSE129558 | Breast Cancer | Study to evaluate the effect of technical repetition on gene expression measurements | 2019 | Tissue | N | 120 |
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| GSE16446 | Breast Cancer | Multifactorial Approach to Predicting Resistance to Anthracyclines | 2009 | Tissue | N | 120 |
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| GSE69031 | Breast Cancer | caArray_gray-00248: Genomic and transcriptional aberrations linked to breast cancer pathophysiologies | 2015 | Tissue | N | 118 |
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| GSE117970 | Breast | Human Tumor-Associated Macrophage and Monocyte Transcriptional Landscapes Reveal Cancer-Specific Reprogramming, Biomarkers, and Therapeutic Targets | 2018 | Blood | Y | 116 |
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| GSE114168 | Breast Cancer | Medullary breast carcinoma, a triple-negative breast cancer subtype associated with BCLG overexpression and BRCAness | 2018 | Tissue | N | 107 |
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| GSE22093 | Breast Cancer | Expression data from breast cancer FNA biopsies from patients | 2010 | Tissue | N | 103 |
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| GSE124646 | Breast Cancer | Breast cancer and normal breast tissue samples to estimate the effect of contamination of breast cancer samples with normal breast tissue | 2019 | Tissue | N | 100 |
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| GSE111601 | Breast Cancer | Correlated metabolomic, genomic, and histologic phenotypes in histologically normal breast tissue | 2018 | Tissue | N | 99 |
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| GSE27567 | Breast Cancer | Integrating Factor Analysis and a Transgenic Mouse Model to Reveal a Peripheral Blood Predictor of Breast Tumors | 2011 | Blood | N | 93 |
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| GSE140494 | Breast Cancer | Gene expression-based prediction of neodjuvant chemotherapy response in early breast cancer | 2019 | Tissue | N | 91 |
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| GSE129556 | Breast Cancer | Study for evaluating the effect of different microarray platforms on gene expression measurements | 2019 | Tissue | N | 88 |
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| GSE124648 | Breast Cancer | SET ER/PR - A robust 18-gene Predictor for Sensitivity to Endocrine Therapy for Metastatic Breast Cancer | 2019 | Tissue | N | 88 |
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| GSE59515 | Breast Cancer | Accurate prediction and validation of response to endocrine therapy in breast cancer | 2014 | Tissue | N | 75 |
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| GSE61304 | Breast Cancer | Novel bio-marker discovery for stratification and prognosis of breast cancer patients | 2014 | Tissue | N | 62 |
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| E-TABM-276 | Breast Cancer | Transcription profiling of breast tumors and surrounding tissue to detect pre-malignant histological and genetic changes | 2008 | Tissue | N | 61 |
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| GSE60994 | Breast Cancer | Exosome Transfer from Stromal to Breast Cancer Cells Regulates Therapy Resistance Pathways [set 1] | 2014 | Tissue | N | 51 |
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| E-MTAB-8638 | Breast | Transcription profiling by array of adipose tissue from healthy or tumor-bearing breasts | 2015 | Tissue | N | 47 |
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| GSE31192 | Breast Cancer | Molecular Signature of Pregnancy Associated Breast Cancer (PABC) | 2011 | Tissue | N | 33 |
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| GSE22513 | Breast Cancer | Markers of Taxane Sensitivity in Breast Cancer | 2010 | Tissue | N | 28 |
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| GSE103115 | Breast Cancer | Cisplatin-induced gene expression changes in triple-negative breast cancer (TNBC) cells | 2017 | Tissue | N | 24 |
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