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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, Article 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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Leveraging Single-Cell Approaches in Cancer Precision Medicine

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

2021

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Multiple ABCB1 transcriptional fusions in drug resistant high-grade serous ovarian and breast cancer

Nature communications, 2019-03, Vol.10 (1), p.1295-1295, Article 1295

2019

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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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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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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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A single-sample microarray normalization method to facilitate personalized-medicine workflows

Genomics (San Diego, Calif.), 2012-12, Vol.100 (6), p.337-344

2012

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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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Circulating immune cell phenotype dynamics reflect the strength of tumor–immune cell interactions in patients during immunotherapy

Proceedings of the National Academy of Sciences - PNAS, 2020-07, Vol.117 (27), p.16072-16082

2020

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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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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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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.881-14, Article 881

2019

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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 Pan-ALDH1A Inhibitor Induces Necroptosis in Ovarian Cancer Stem-like Cells

Cell reports (Cambridge), 2019-03, Vol.26 (11), p.3061-3075.e6

2019

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Linking oncogenic pathways with therapeutic opportunities

Nature reviews. Cancer, 2006-09, Vol.6 (9), p.735-741

2006

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Combating subclonal evolution of resistant cancer phenotypes

Nature communications, 2017-11, Vol.8 (1), p.1231-15, Article 1231

2017

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Mechanisms and clinical implications of tumor heterogeneity and convergence on recurrent phenotypes

Journal of molecular medicine (Berlin, Germany), 2017-11, Vol.95 (11), p.1167-1178

2017

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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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Patient-derived xenografts of triple-negative breast cancer reproduce molecular features of patient tumors and respond to mTOR inhibition

Breast cancer research : BCR, 2014-04, Vol.16 (2), p.R36-R36, Article R36

2014

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Knowledge-based classification of fine-grained immune cell types in single-cell RNA-Seq data

Briefings in bioinformatics, 2021-09, Vol.22 (5)

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

Leveraging Single-Cell Approaches in Cancer Precision Medicine

Multiple ABCB1 transcriptional fusions in drug resistant high-grade serous ovarian and breast cancer

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

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

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

A single-sample microarray normalization method to facilitate personalized-medicine workflows

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

Circulating immune cell phenotype dynamics reflect the strength of tumor–immune cell interactions in patients during immunotherapy

Multiplatform single-sample estimates of transcriptional activation

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

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

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

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

A Pan-ALDH1A Inhibitor Induces Necroptosis in Ovarian Cancer Stem-like Cells

Linking oncogenic pathways with therapeutic opportunities

Combating subclonal evolution of resistant cancer phenotypes

Mechanisms and clinical implications of tumor heterogeneity and convergence on recurrent phenotypes

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

Patient-derived xenografts of triple-negative breast cancer reproduce molecular features of patient tumors and respond to mTOR inhibition

Knowledge-based classification of fine-grained immune cell types in single-cell RNA-Seq data

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