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Alternative preprocessing of RNA-Sequencing data in The Cancer Genome Atlas leads to improved analysis results

Bioinformatics (Oxford, England), 2015-11, Vol.31 (22), p.3666-3672

2015

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Paradoxical cancer cell proliferation after FGFR inhibition through decreased p21 signaling in FGFR1-amplified breast cancer cells

Breast cancer research : BCR, 2024-03, Vol.26 (1), p.54-54

2024

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ENDORSE: a prognostic model for endocrine therapy in estrogen‐receptor‐positive breast cancers

Molecular systems biology, 2022-06, Vol.18 (6), p.e10558-n/a

2022

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Phylogenetic inference from single-cell RNA-seq data

Scientific reports, 2023-08, Vol.13 (1), p.12854-12854, Article 12854

2023

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Oncogenic pathway signatures in human cancers as a guide to targeted therapies

Nature, 2006-01, Vol.439 (7074), p.353-357

2006

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Cell facilitation promotes growth and survival under drug pressure in breast cancer

Nature communications, 2023-06, Vol.14 (1), p.3851-3851, Article 3851

2023

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Multiplatform single-sample estimates of transcriptional activation

Proceedings of the National Academy of Sciences - PNAS, 2013-10, Vol.110 (44), p.17778-17783

2013

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Evolution of core archetypal phenotypes in progressive high grade serous ovarian cancer

Nature communications, 2021-05, Vol.12 (1), p.1-16, Article 3039

2021

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RAGE ablation attenuates glioma progression and enhances tumor immune responses by suppressing galectin-3 expression

Neuro-oncology (Charlottesville, Va.), 2023-05, Vol.25 (5), p.886-898

2023

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Airway PI3K pathway activation is an early and reversible event in lung cancer development

Science translational medicine, 2010-04, Vol.2 (26), p.26ra25

2010

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ONC201/TIC10 enhances durability of mTOR inhibitor everolimus in metastatic ER+ breast cancer

eLife, 2023-09, Vol.12

2023

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A machine learning framework for scRNA-seq UMI threshold optimization and accurate classification of cell types

Frontiers in genetics, 2022-11, Vol.13, p.982019-982019

2022

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Pathway activity profiling of growth factor receptor network and stemness pathways differentiates metaplastic breast cancer histological subtypes

BMC cancer, 2019-09, Vol.19 (1), p.881-881, Article 881

2019

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Tepoxalin increases chemotherapy efficacy in drug-resistant breast cancer cells overexpressing the multidrug transporter gene ABCB1

Translational oncology, 2021-10, Vol.14 (10), p.101181-101181, Article 101181

2021

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Simplifying the development of portable, scalable, and reproducible workflows

eLife, 2021-10, Vol.10

2021

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Exploiting collateral sensitivity controls growth of mixed culture of sensitive and resistant cells and decreases selection for resistant cells in a cell line model

Cancer cell international, 2020-06, Vol.20 (1), p.253-13, Article 253

2020

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Novel temporal and spatial patterns of metastatic colonization from breast cancer rapid-autopsy tumor biopsies

Genome medicine, 2021-10, Vol.13 (1), p.170-18, Article 170

2021

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Predicting clinical response to everolimus in ER+ breast cancers using machine-learning

Frontiers in molecular biosciences, 2022-10, Vol.9, p.981962-981962

2022

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Topsentinol L Trisulfate, a Marine Natural Product That Targets Basal-like and Claudin-Low Breast Cancers

Marine drugs, 2021-01, Vol.19 (1), p.41

2021

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A `one-two punch' therapy strategy to target chemoresistance in estrogen receptor positive breast cancer

Translational oncology, 2021-01, Vol.14 (1), p.100946, Article 100946

2021

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A field guide to genomics research

PLoS biology, 2014-01, Vol.12 (1), p.e1001744

2014

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Activity of distinct growth factor receptor network components in breast tumors uncovers two biologically relevant subtypes

Genome medicine, 2017-04, Vol.9 (1), p.40-19, Article 40

2017

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An integration of complementary strategies for gene-expression analysis to reveal novel therapeutic opportunities for breast cancer

Breast cancer research : BCR, 2009-01, Vol.11 (4), p.R55-R55, Article R55

2009

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Usefulness of Circulating Tumor DNA in Identifying Somatic Mutations and Tracking Tumor Evolution in Patients With Non-small Cell Lung Cancer

Chest, 2021-09, Vol.160 (3), p.1095-1107

2021

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Leveraging Single-Cell Approaches in Cancer Precision Medicine

Trends in cancer, 2021-04, Vol.7 (4), p.359-372

2021

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Alternative preprocessing of RNA-Sequencing data in The Cancer Genome Atlas leads to improved analysis results

Paradoxical cancer cell proliferation after FGFR inhibition through decreased p21 signaling in FGFR1-amplified breast cancer cells

ENDORSE: a prognostic model for endocrine therapy in estrogen‐receptor‐positive breast cancers

Phylogenetic inference from single-cell RNA-seq data

Oncogenic pathway signatures in human cancers as a guide to targeted therapies

Cell facilitation promotes growth and survival under drug pressure in breast cancer

Multiplatform single-sample estimates of transcriptional activation

Evolution of core archetypal phenotypes in progressive high grade serous ovarian cancer

RAGE ablation attenuates glioma progression and enhances tumor immune responses by suppressing galectin-3 expression

Airway PI3K pathway activation is an early and reversible event in lung cancer development

ONC201/TIC10 enhances durability of mTOR inhibitor everolimus in metastatic ER+ breast cancer

A machine learning framework for scRNA-seq UMI threshold optimization and accurate classification of cell types

Pathway activity profiling of growth factor receptor network and stemness pathways differentiates metaplastic breast cancer histological subtypes

Tepoxalin increases chemotherapy efficacy in drug-resistant breast cancer cells overexpressing the multidrug transporter gene ABCB1

Simplifying the development of portable, scalable, and reproducible workflows

Exploiting collateral sensitivity controls growth of mixed culture of sensitive and resistant cells and decreases selection for resistant cells in a cell line model

Novel temporal and spatial patterns of metastatic colonization from breast cancer rapid-autopsy tumor biopsies

Predicting clinical response to everolimus in ER+ breast cancers using machine-learning

Topsentinol L Trisulfate, a Marine Natural Product That Targets Basal-like and Claudin-Low Breast Cancers

A `one-two punch' therapy strategy to target chemoresistance in estrogen receptor positive breast cancer

A field guide to genomics research

Activity of distinct growth factor receptor network components in breast tumors uncovers two biologically relevant subtypes

An integration of complementary strategies for gene-expression analysis to reveal novel therapeutic opportunities for breast cancer

Usefulness of Circulating Tumor DNA in Identifying Somatic Mutations and Tracking Tumor Evolution in Patients With Non-small Cell Lung Cancer

Leveraging Single-Cell Approaches in Cancer Precision Medicine

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