Regulators of genetic risk of breast cancer identified by integrative network analysis

From candidate gene studies to GWAS and post-GWAS analyses in breast cancer

(2015) Laura Fachal et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Luminal Progenitors Restrict Their Lineage Potential during Mammary Gland Development

(2015) Veronica Rodilla et al.   PLOS BIOLOGY

TRIM29 Suppresses TWIST1 and Invasive Breast Cancer Behavior

(2014) Lingbao Ai et al.   CANCER RESEARCH

COSMIC: exploring the world's knowledge of somatic mutations in human cancer

(2014) Simon A. Forbes et al.   NUCLEIC ACIDS RESEARCH

YB-1 Transforms Human Mammary Epithelial Cells Through Chromatin Remodeling Leading to the Development of Basal-Like Breast Cancer

(2014) Alastair H. Davies et al.   STEM CELLS

Integrative eQTL-Based Analyses Reveal the Biology of Breast Cancer Risk Loci

(2013) Qiyuan Li et al.   CELL

Network analysis of GWAS data

(2013) Mark DM Leiserson et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Notch3 marks clonogenic mammary luminal progenitor cells in vivo

(2013) Daniel Lafkas et al.   JOURNAL OF CELL BIOLOGY

Large-scale genotyping identifies 41 new loci associated with breast cancer risk

(2013) Kyriaki Michailidou et al.   NATURE GENETICS

MiR-155-mediated loss of C/EBPβ shifts the TGF-β response from growth inhibition to epithelial-mesenchymal transition, invasion and metastasis in breast cancer

(2013) J Johansson et al.   ONCOGENE

A Comprehensive Nuclear Receptor Network for Breast Cancer Cells

(2013) Ralf Kittler et al.   Cell Reports

Matrix eQTL: ultra fast eQTL analysis via large matrix operations

(2012) A. A. Shabalin   BIOINFORMATICS

Neural crest transcription factor Sox10 is preferentially expressed in triple-negative and metaplastic breast carcinomas

(2012) Ashley Cimino-Mathews et al.   HUMAN PATHOLOGY

Minireview: The Androgen Receptor in Breast Tissues: Growth Inhibitor, Tumor Suppressor, Oncogene?

(2012) T. E. Hickey et al.   MOLECULAR ENDOCRINOLOGY

Comprehensive molecular portraits of human breast tumours

(2012) Daniel C. Koboldt et al.   NATURE

Breast cancer risk–associated SNPs modulate the affinity of chromatin for FOXA1 and alter gene expression

(2012) Richard Cowper-Sal·lari et al.   NATURE GENETICS

Leveraging models of cell regulation and GWAS data in integrative network-based association studies

(2012) Andrea Califano et al.   NATURE GENETICS

FOXA1 represses the molecular phenotype of basal breast cancer cells

(2012) G M Bernardo et al.   ONCOGENE

ELF5 Suppresses Estrogen Sensitivity and Underpins the Acquisition of Antiestrogen Resistance in Luminal Breast Cancer

(2012) Maria Kalyuga et al.   PLOS BIOLOGY

Unraveling the Regulatory Mechanisms Underlying Tissue-Dependent Genetic Variation of Gene Expression

(2012) Jingyuan Fu et al.   PLoS Genetics

RedeR: R/Bioconductor package for representing modular structures, nested networks and multiple levels of hierarchical associations.

(2012) Mauro AA Castro et al.   GENOME BIOLOGY

Androgen receptor driven transcription in molecular apocrine breast cancer is mediated by FoxA1

(2011) Jessica L L Robinson et al.   EMBO JOURNAL

NFIB is a potential target for estrogen receptor-negative breast cancers

(2011) Hyeong-Gon Moon et al.   Molecular Oncology

Cellular reprogramming by the conjoint action of ER , FOXA1, and GATA3 to a ligand-inducible growth state

(2011) S. L. Kong et al.   Molecular Systems Biology

Distinct stem cells contribute to mammary gland development and maintenance

(2011) Alexandra Van Keymeulen et al.   NATURE

From expression QTLs to personalized transcriptomics

(2011) Stephen B. Montgomery et al.   NATURE REVIEWS GENETICS

Maintenance of hormone responsiveness in luminal breast cancers by suppression of Notch

(2011) J. M. Haughian et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Essential Gene Profiles in Breast, Pancreatic, and Ovarian Cancer Cells

(2011) Richard Marcotte et al.   Cancer Discovery

Most Random Gene Expression Signatures Are Significantly Associated with Breast Cancer Outcome

(2011) David Venet et al.   PLoS Computational Biology

BRCA1 Basal-like Breast Cancers Originate from Luminal Epithelial Progenitors and Not from Basal Stem Cells

(2010) Gemma Molyneux et al.   Cell Stem Cell

Cooperative interaction between retinoic acid receptor-  and estrogen receptor in breast cancer

(2010) C. S. Ross-Innes et al.   GENES & DEVELOPMENT

FOXA1 is a key determinant of estrogen receptor function and endocrine response

(2010) Antoni Hurtado et al.   NATURE GENETICS

Systems Biology and Genomics of Breast Cancer

(2010) C. M. Perou et al.   Cold Spring Harbor Perspectives in Biology

ChIP-seq: Using high-throughput sequencing to discover protein–DNA interactions

(2009) Dominic Schmidt et al.   METHODS

The transcriptional network for mesenchymal transformation of brain tumours

(2009) Maria Stella Carro et al.   NATURE

Aberrant luminal progenitors as the candidate target population for basal tumor development in BRCA1 mutation carriers

(2009) Elgene Lim et al.   NATURE MEDICINE

The Ets transcription factor Elf5 specifies mammary alveolar cell fate

(2008) S. R. Oakes et al.   GENES & DEVELOPMENT

Statistical Power of Expression Quantitative Trait Loci for Mapping of Complex Trait Loci in Natural Populations

(2008) P. Schliekelman   GENETICS