List of works - Brian J. Abraham

A CD47-associated super-enhancer links pro-inflammatory signalling to CD47 upregulation in breast cancer

scientific article published on 05 April 2017

APOBEC signature mutation generates an oncogenic enhancer that drives LMO1 expression in T-ALL

scientific article published on 6 March 2017

ARID1A loss in neuroblastoma promotes the adrenergic-to-mesenchymal transition by regulating enhancer-mediated gene expression

scientific article published on 15 July 2020

ASCL1 is a MYCN- and LMO1-dependent member of the adrenergic neuroblastoma core regulatory circuitry

scientific article published on 09 December 2019

Activation of the LMO2 oncogene through a somatically acquired neomorphic promoter in T-cell acute lymphoblastic leukemia.

scientific article published on 7 March 2017

Activation of the p53 Transcriptional Program Sensitizes Cancer Cells to Cdk7 Inhibitors.

scientific article

CDK7 inhibition suppresses super-enhancer-linked oncogenic transcription in MYCN-driven cancer.

scientific article

CDK7-dependent transcriptional addiction in triple-negative breast cancer.

scientific article

Chromatin proteomic profiling reveals novel proteins associated with histone-marked genomic regions

scientific article

Coactivator condensation at super-enhancers links phase separation and gene control

scientific article published in Science

Common variants in signaling transcription-factor-binding sites drive phenotypic variability in red blood cell traits

scientific article published on 23 November 2020

Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes

scientific article

Convergence of developmental and oncogenic signaling pathways at transcriptional super-enhancers

scientific article

Covalent targeting of remote cysteine residues to develop CDK12 and CDK13 inhibitors

scientific article published on 29 August 2016

Cross-Cohort Analysis Identifies a TEAD4-MYCN Positive Feedback Loop as the Core Regulatory Element of High-Risk Neuroblastoma

scientific article published on 6 March 2018

Dynamic regulation of epigenomic landscapes during hematopoiesis ⬇️

scientific article published on March 19, 2013

EP300 Selectively Controls the Enhancer Landscape of MYCN-Amplified Neuroblastoma

scientific article published on 01 March 2022

EWS/FLI Confers Tumor Cell Synthetic Lethality to CDK12 Inhibition in Ewing Sarcoma

scientific article published on 18 January 2018

Erratum to: Genome-wide incorporation dynamics reveal distinct categories of turnover for the histone variant H3.3.

scientific article published on 4 February 2016

Genetic predisposition to neuroblastoma mediated by a LMO1 super-enhancer polymorphism.

scientific article

Genome-wide Trans-ethnic Meta-analysis Identifies Seven Genetic Loci Influencing Erythrocyte Traits and a Role for RBPMS in Erythropoiesis

scientific article published on 19 December 2016

Genome-wide analyses of transcription factor GATA3-mediated gene regulation in distinct T cell types ⬇️

scientific article published on August 26, 2011

Genome-wide incorporation dynamics reveal distinct categories of turnover for the histone variant H3.3.

scientific article published on January 2013

High MITF Expression is Associated with Super-enhancers and Suppressed by CDK7 Inhibition in Melanoma.

scientific article

Integrated genomic analyses of de novo pathways underlying atypical meningiomas

scientific article published on 14 February 2017

JDP2: An oncogenic bZIP transcription factor in T cell acute lymphoblastic leukemia.

scientific article published on 25 June 2018

LIN28B regulates transcription and potentiates MYCN-induced neuroblastoma through binding to ZNF143 at target gene promotors

scientific article published on 29 June 2020

MYC Drives a Subset of High-Risk Pediatric Neuroblastomas and Is Activated through Mechanisms Including Enhancer Hijacking and Focal Enhancer Amplification

scientific article published on 28 December 2017

Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes ⬇️

scientific article (publication date: 11 April 2013)

Models of human core transcriptional regulatory circuitries

scientific article

Multiple structural maintenance of chromosome complexes at transcriptional regulatory elements.

scientific article published on 24 October 2013

Novel mechanism of positive versus negative regulation by thyroid hormone receptor β1 (TRβ1) identified by genome-wide profiling of binding sites in mouse liver

scientific article

O-GlcNAcase Is an RNA Polymerase II Elongation Factor Coupled to Pausing Factors SPT5 and TIF1β.

scientific article published on 6 September 2016

Oncogene regulation. An oncogenic super-enhancer formed through somatic mutation of a noncoding intergenic element

scientific article

Parkinson-associated risk variant in distal enhancer of α-synuclein modulates target gene expression

scientific article

RNA helicase DDX21 mediates nucleotide stress responses in neural crest and melanoma cells

scientific article published on 30 March 2020

Recurrent somatic mutations in POLR2A define a distinct subset of meningiomas

scientific article published on 22 August 2016

SEAseq: a portable and cloud-based chromatin occupancy analysis suite

scientific article published on 23 February 2022

Selective gene dependencies in MYCN-amplified neuroblastoma include the core transcriptional regulatory circuitry

article

Small genomic insertions form enhancers that misregulate oncogenes

scientific article published on 09 February 2017

Super-enhancers in the control of cell identity and disease

scientific article (publication date: 7 November 2013)

Suppression of Adaptive Responses to Targeted Cancer Therapy by Transcriptional Repression.

scientific article

TOX Regulates Growth, DNA Repair, and Genomic Instability in T-cell Acute Lymphoblastic Leukemia

scientific article published on 3 October 2017

Targeting transcription regulation in cancer with a covalent CDK7 inhibitor

scientific article

Targeting transcriptional addictions in small cell lung cancer with a covalent CDK7 inhibitor

scientific article

The developmental potential of iPSCs is greatly influenced by reprogramming factor selection

scientific article

The long noncoding RNA Wisper controls cardiac fibrosis and remodeling

scientific article published on June 2017

Transcription factor trapping by RNA in gene regulatory elements

scientific article

YY1 Is a Structural Regulator of Enhancer-Promoter Loops

scientific article published on 30 November 2017

List of works by Brian J. Abraham

A CD47-associated super-enhancer links pro-inflammatory signalling to CD47 upregulation in breast cancer

APOBEC signature mutation generates an oncogenic enhancer that drives LMO1 expression in T-ALL

ARID1A loss in neuroblastoma promotes the adrenergic-to-mesenchymal transition by regulating enhancer-mediated gene expression

ASCL1 is a MYCN- and LMO1-dependent member of the adrenergic neuroblastoma core regulatory circuitry

Activation of the LMO2 oncogene through a somatically acquired neomorphic promoter in T-cell acute lymphoblastic leukemia.

Activation of the p53 Transcriptional Program Sensitizes Cancer Cells to Cdk7 Inhibitors.

CDK7 inhibition suppresses super-enhancer-linked oncogenic transcription in MYCN-driven cancer.

CDK7-dependent transcriptional addiction in triple-negative breast cancer.

Chromatin proteomic profiling reveals novel proteins associated with histone-marked genomic regions

Coactivator condensation at super-enhancers links phase separation and gene control

Common variants in signaling transcription-factor-binding sites drive phenotypic variability in red blood cell traits

Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes

Convergence of developmental and oncogenic signaling pathways at transcriptional super-enhancers

Covalent targeting of remote cysteine residues to develop CDK12 and CDK13 inhibitors

Cross-Cohort Analysis Identifies a TEAD4-MYCN Positive Feedback Loop as the Core Regulatory Element of High-Risk Neuroblastoma

Dynamic regulation of epigenomic landscapes during hematopoiesis ⬇️

EP300 Selectively Controls the Enhancer Landscape of MYCN-Amplified Neuroblastoma

EWS/FLI Confers Tumor Cell Synthetic Lethality to CDK12 Inhibition in Ewing Sarcoma

Erratum to: Genome-wide incorporation dynamics reveal distinct categories of turnover for the histone variant H3.3.

Genetic predisposition to neuroblastoma mediated by a LMO1 super-enhancer polymorphism.

Genome-wide Trans-ethnic Meta-analysis Identifies Seven Genetic Loci Influencing Erythrocyte Traits and a Role for RBPMS in Erythropoiesis

Genome-wide analyses of transcription factor GATA3-mediated gene regulation in distinct T cell types ⬇️

Genome-wide incorporation dynamics reveal distinct categories of turnover for the histone variant H3.3.

High MITF Expression is Associated with Super-enhancers and Suppressed by CDK7 Inhibition in Melanoma.

Integrated genomic analyses of de novo pathways underlying atypical meningiomas

JDP2: An oncogenic bZIP transcription factor in T cell acute lymphoblastic leukemia.

LIN28B regulates transcription and potentiates MYCN-induced neuroblastoma through binding to ZNF143 at target gene promotors

MYC Drives a Subset of High-Risk Pediatric Neuroblastomas and Is Activated through Mechanisms Including Enhancer Hijacking and Focal Enhancer Amplification

Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes ⬇️

Models of human core transcriptional regulatory circuitries

Multiple structural maintenance of chromosome complexes at transcriptional regulatory elements.

Novel mechanism of positive versus negative regulation by thyroid hormone receptor β1 (TRβ1) identified by genome-wide profiling of binding sites in mouse liver

O-GlcNAcase Is an RNA Polymerase II Elongation Factor Coupled to Pausing Factors SPT5 and TIF1β.

Oncogene regulation. An oncogenic super-enhancer formed through somatic mutation of a noncoding intergenic element

Parkinson-associated risk variant in distal enhancer of α-synuclein modulates target gene expression

RNA helicase DDX21 mediates nucleotide stress responses in neural crest and melanoma cells

Recurrent somatic mutations in POLR2A define a distinct subset of meningiomas

SEAseq: a portable and cloud-based chromatin occupancy analysis suite

Selective gene dependencies in MYCN-amplified neuroblastoma include the core transcriptional regulatory circuitry

Small genomic insertions form enhancers that misregulate oncogenes

Super-enhancers in the control of cell identity and disease

Suppression of Adaptive Responses to Targeted Cancer Therapy by Transcriptional Repression.

TOX Regulates Growth, DNA Repair, and Genomic Instability in T-cell Acute Lymphoblastic Leukemia

Targeting transcription regulation in cancer with a covalent CDK7 inhibitor

Targeting transcriptional addictions in small cell lung cancer with a covalent CDK7 inhibitor

The developmental potential of iPSCs is greatly influenced by reprogramming factor selection

The long noncoding RNA Wisper controls cardiac fibrosis and remodeling

Transcription factor trapping by RNA in gene regulatory elements

YY1 Is a Structural Regulator of Enhancer-Promoter Loops