Unbiased analysis of potential targets of breast cancer susceptibility loci by Capture Hi-C

Promiscuous MYC locus rearrangements hijack enhancers but mostly super-enhancers to dysregulate MYC expression in multiple myeloma

(2014) M Affer et al.   LEUKEMIA

Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment

(2014) Jim R Hughes et al.   NATURE GENETICS

A prostate cancer susceptibility allele at 6q22 increases RFX6 expression by modulating HOXB13 chromatin binding

(2014) Qilai Huang et al.   NATURE GENETICS

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

(2013) Qiyuan Li et al.   CELL

Deciphering the 8q24.21 association for glioma

(2013) Victor Enciso-Mora et al.   HUMAN MOLECULAR GENETICS

Chromatin Insulators: Linking Genome Organization to Cellular Function

(2013) Jennifer E. Phillips-Cremins et al.   MOLECULAR CELL

A high-resolution map of the three-dimensional chromatin interactome in human cells

(2013) Fulai Jin et al.   NATURE

Turning of COGS moves forward findings for hormonally mediated cancers

(2013) Lori C Sakoda et al.   NATURE GENETICS

Multiple independent variants at the TERT locus are associated with telomere length and risks of breast and ovarian cancer

(2013) Stig E Bojesen et al.   NATURE GENETICS

Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data

(2013) Job Dekker et al.   NATURE REVIEWS GENETICS

JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles

(2013) Anthony Mathelier et al.   NUCLEIC ACIDS RESEARCH

Noncoding Transcription at Enhancers: General Principles and Functional Models

(2012) Gioacchino Natoli et al.   Annual Review of Genetics

Matrix eQTL: ultra fast eQTL analysis via large matrix operations

(2012) A. A. Shabalin   BIOINFORMATICS

Estimating Causal Effects of Genetic Risk Variants for Breast Cancer Using Marker Data from Bilateral and Familial Cases

(2012) F. Dudbridge et al.   CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION

9q31.2-rs865686 as a Susceptibility Locus for Estrogen Receptor-Positive Breast Cancer: Evidence from the Breast Cancer Association Consortium

(2012) H. Warren et al.   CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION

Annotation of functional variation in personal genomes using RegulomeDB

(2012) A. P. Boyle et al.   GENOME RESEARCH

The role of genetic breast cancer susceptibility variants as prognostic factors

(2012) Peter A. Fasching, Paul D.P. Pharoah, Angela Cox, Heli Nevanlinna, Stig E. Bojesen, Thomas Karn, Annegien Broeks, Flora E. van Leeuwen, Laura J. van 't Veer, Renate Udo, Alison M. Dunning, Dario Greco, Kristiina Aittomäki, Carl Blomqvist, Mitul Shah, Børge G. Nordestgaard, Henrik Flyger, John L. Hopper, Melissa C. Southey, Carmel Apicella, Montserrat Garcia-Closas, Mark Sherman, Jolanta Lissowska, Caroline Seynaeve, Petra E.A. Huijts, Rob A.E.M. Tollenaar, Argyrios Ziogas, Arif B. Ekici, Claudia Rauh, Arto Mannermaa, Vesa Kataja, Veli-Matti Kosma, Jaana M. Hartikainen, Irene L. Andrulis, Hilmi Ozcelik, Anna-Marie Mulligan, Gord Glendon, Per Hall, Kamila Czene, Jianjun Liu, Jenny Chang-Claude, Shan Wang-Gohrke, Ursula Eilber, Stefan Nickels, Thilo Dörk, Maria Schiekel, Michael Bremer, Tjoung-Won Park-Simon, Graham G. Giles, Gianluca Severi, Laura Baglietto, Maartje J. Hooning, John W.M. Martens, Agnes Jager, Mieke Kriege, Annika Lindblom, Sara Margolin, Fergus J. Couch, Kristen N. Stevens, Janet E. Olson, Matthew Kosel, Simon S. Cross, Sabapathy P. Balasubramanian, Malcolm W.R. Reed, Alexander Miron, Esther M. John, Robert Winqvist, Katri Pylkäs, Arja Jukkola-Vuorinen, Saila Kauppila, Barbara Burwinkel, Frederik Marme, Andreas Schneeweiss, Christof Sohn, Georgia Chenevix-Trench, Diether Lambrechts, Anne-Sophie Dieudonne, Sigrid Hatse, Erik van Limbergen, Javier Benitez, Roger L. Milne, M. Pilar Zamora, José Ignacio Arias Pérez, Bernardo Bonanni, Bernard Peissel, Bernard Loris, Paolo Peterlongo, Preetha Rajaraman, Sara J. Schonfeld, Hoda Anton-Culver, Peter Devilee, Matthias W. Beckmann, Dennis J. Slamon et al.   HUMAN MOLECULAR GENETICS

Hi–C: A comprehensive technique to capture the conformation of genomes

(2012) Jon-Matthew Belton et al.   METHODS

Analysis of long-range chromatin interactions using Chromosome Conformation Capture

(2012) Natalia Naumova et al.   METHODS

The long-range interaction landscape of gene promoters

(2012) Amartya Sanyal et al.   NATURE

Comprehensive molecular portraits of human breast tumours

(2012) Daniel C. Koboldt et al.   NATURE

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

An integrated map of genetic variation from 1,092 human genomes

(2012)   NATURE

Architecture of the human regulatory network derived from ENCODE data

(2012) Mark B. Gerstein et al.   NATURE

Genome-wide association study identifies a common variant in RAD51B associated with male breast cancer risk

(2012) Nick Orr et al.   NATURE GENETICS

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

Splicing program of human MENA produces a previously undescribed isoform associated with invasive, mesenchymal-like breast tumors

(2012) F. Di Modugno et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cell type-specific binding patterns reveal that TCF7L2 can be tethered to the genome by association with GATA3

(2012) Seth Frietze et al.   GENOME BIOLOGY

The 8q24 Gene Desert: An Oasis of Non-Coding Transcriptional Activity

(2012) Konrad Huppi et al.   Frontiers in Genetics

Emerging Roles for Long Non-Coding RNAs in Cancer and Neurological Disorders

(2012) Courtney N. Niland et al.   Frontiers in Genetics

Correlation of breast cancer susceptibility loci with patient characteristics, metastasis-free survival, and mRNA expression of the nearest genes

(2011) Muhammad Riaz et al.   BREAST CANCER RESEARCH AND TREATMENT

Low penetrance breast cancer susceptibility loci are associated with specific breast tumor subtypes: findings from the Breast Cancer Association Consortium

(2011) Annegien Broeks et al.   HUMAN MOLECULAR GENETICS

Novel Breast Cancer Susceptibility Locus at 9q31.2: Results of a Genome-Wide Association Study

(2011) Olivia Fletcher et al.   JNCI-Journal of the National Cancer Institute

Mapping and analysis of chromatin state dynamics in nine human cell types

(2011) Jason Ernst et al.   NATURE

Principles for the post-GWAS functional characterization of cancer risk loci

(2011) Matthew L Freedman et al.   NATURE GENETICS

HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants

(2011) L. D. Ward et al.   NUCLEIC ACIDS RESEARCH

Synthetic Associations Created by Rare Variants Do Not Explain Most GWAS Results

(2011) Naomi R. Wray et al.   PLOS BIOLOGY

Synthetic Associations Are Unlikely to Account for Many Common Disease Genome-Wide Association Signals

(2011) Carl A. Anderson et al.   PLOS BIOLOGY

A User's Guide to the Encyclopedia of DNA Elements (ENCODE)

(2011)   PLOS BIOLOGY

Genetic Variants at Chromosomes 2q35, 5p12, 6q25.1, 10q26.13, and 16q12.1 Influence the Risk of Breast Cancer in Men

(2011) Nick Orr et al.   PLoS Genetics

Molecular Interplay of the Noncoding RNA ANRIL and Methylated Histone H3 Lysine 27 by Polycomb CBX7 in Transcriptional Silencing of INK4a

(2010) Kyoko L. Yap et al.   MOLECULAR CELL

Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis

(2010) Rajnish A. Gupta et al.   NATURE

Common variants at 2q37.3, 8q24.21, 15q21.3 and 16q24.1 influence chronic lymphocytic leukemia risk

(2010) Dalemari Crowther-Swanepoel et al.   NATURE GENETICS

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

(2010) Antoni Hurtado et al.   NATURE GENETICS

8q24 prostate, breast, and colon cancer risk loci show tissue-specific long-range interaction with MYC

(2010) N. Ahmadiyeh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tiling Path Genomic Profiling of Grade 3 Invasive Ductal Breast Cancers

(2009) R. Natrajan et al.   CLINICAL CANCER RESEARCH

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

(2009) Dominic Schmidt et al.   METHODS

Genome-wide association study identifies five susceptibility loci for glioma

(2009) Sanjay Shete et al.   NATURE GENETICS

Potential etiologic and functional implications of genome-wide association loci for human diseases and traits

(2009) L. A. Hindorff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

(2009) E. Lieberman-Aiden et al.   SCIENCE

BioGPS: an extensible and customizable portal for querying and organizing gene annotation resources

(2009) Chunlei Wu et al.   GENOME BIOLOGY

SNAP: a web-based tool for identification and annotation of proxy SNPs using HapMap

(2008) A. D. Johnson et al.   BIOINFORMATICS

Variation in Homeodomain DNA Binding Revealed by High-Resolution Analysis of Sequence Preferences

(2008) Michael F. Berger et al.   CELL

Multiple Loci With Different Cancer Specificities Within the 8q24 Gene Desert

(2008) Maya Ghoussaini et al.   JNCI-Journal of the National Cancer Institute

Allele-Specific Up-Regulation of FGFR2 Increases Susceptibility to Breast Cancer

(2008) Kerstin B Meyer et al.   PLOS BIOLOGY