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List of works by Jeffrey H Chuang

A human breast cancer-derived xenograft and organoid platform for drug discovery and precision oncology

scientific article published on 24 February 2022

A systematic approach to identify functional motifs within vertebrate developmental enhancers.

scientific article published on 20 October 2009

Activation of GCN2 kinase by ribosome stalling links translation elongation with translation initiation

scientific article published on 16 April 2016

Alterations in the Rho pathway contribute to Epstein-Barr virus-induced lymphomagenesis in immunosuppressed environments.

scientific article published on 23 February 2018

Anomalous dynamics of translocation

article

BMP signaling mediates glioma stem cell quiescence and confers treatment resistance in glioblastoma

scientific article published on 10 October 2019

Brain mitochondrial lipid abnormalities in mice susceptible to spontaneous gliomas.

scientific article published on 17 June 2008

CCNE1 amplification is associated with poor prognosis in patients with triple negative breast cancer

scientific article published on 21 January 2019

Cardiolipin and electron transport chain abnormalities in mouse brain tumor mitochondria: lipidomic evidence supporting the Warburg theory of cancer

scientific article

Clinical and Immunological Implications of Frameshift Mutations in Lung Cancer

scientific article published on 22 June 2019

CloudNeo: a cloud pipeline for identifying patient-specific tumor neoantigens

scientific article published on 12 June 2017

CodingMotif: exact determination of overrepresented nucleotide motifs in coding sequences

scientific article

Conservation of copy number profiles during engraftment and passaging of patient-derived cancer xenografts

scientific article published on 07 January 2021

Data from Treating Cancer as an Invasive Species

Deep learning-based cross-classifications reveal conserved spatial behaviors within tumor histological images

scientific article published on 11 December 2020

Distribution-based measures of tumor heterogeneity are sensitive to mutation calling and lack strong clinical predictive power

scientific article published on 30 July 2018

Dynamic simulation of cardiolipin remodeling: greasing the wheels for an interpretative approach to lipidomics.

scientific article

Expression divergence measured by transcriptome sequencing of four yeast species ⬇️

scientific article published on December 29, 2011

Fostering bioinformatics education through skill development of professors: Big Genomic Data Skills Training for Professors

scientific article published on 13 June 2019

Free energy self-averaging in protein-sized random heteropolymers

scientific article published on 27 July 2001

Frustrations in polymer conformation in gels and their minimization through molecular imprinting.

scientific article published in December 2000

Functional bias and spatial organization of genes in mutational hot and cold regions in the human genome

scientific article

Functional chromatin features are associated with structural mutations in cancer

scientific article

Genetic Architectures of Quantitative Variation in RNA Editing Pathways

scientific article published on 27 November 2015

Genomic data analysis workflows for tumors from patient-derived xenografts (PDXs): challenges and guidelines

scientific article published on 01 July 2019

High-resolution deconstruction of evolution induced by chemotherapy treatments in breast cancer xenografts

scientific article published in Scientific Reports

Integrating chemical footprinting data into RNA secondary structure prediction ⬇️

scientific article published on October 16, 2012

Loss of tumor suppressive microRNA-31 enhances TRADD/NF-κB signaling in glioblastoma

scientific article

Mutations in DNA repair genes are associated with increased neo-antigen load and activated T cell infiltration in lung adenocarcinoma.

scientific article published on 15 December 2017

Mutations in DNA repair genes are associated with increased neoantigen burden and a distinct immunophenotype in lung squamous cell carcinoma

article

RNA function. Ribosome stalling induced by mutation of a CNS-specific tRNA causes neurodegeneration.

scientific article

SARNAclust: Semi-automatic detection of RNA protein binding motifs from immunoprecipitation data.

scientific article published on 29 March 2018

Similarity of synonymous substitution rates across mammalian genomes

scientific article published on 03 August 2007

Statistical Analysis of the Processes Controlling Choline and Ethanolamine Glycerophospholipid Molecular Species Composition ⬇️

scientific article published on May 25, 2012

Systematic Establishment of Robustness and Standards in Patient-Derived Xenograft Experiments and Analysis

scientific article published on 09 March 2020

The importance of being cis: evolution of orthologous fish and mammalian enhancer activity.

scientific article

The tandem duplicator phenotype as a distinct genomic configuration in cancer

scientific article published on 7 April 2016

Transcriptional Enhancers in Protein-Coding Exons of Vertebrate Developmental Genes ⬇️

scientific article published on May 2, 2012

Treating Cancer as an Invasive Species

scientific article published on 16 September 2019

Uncertainties in tumor allele frequencies limit power to infer evolutionary pressures

scientific article

Unstable Genome and Transcriptome Dynamics during Tumor Metastasis Contribute to Therapeutic Heterogeneity in Colorectal Cancers

scientific article published on 22 January 2019

Whole-exome sequencing capture kit biases yield false negative mutation calls in TCGA cohorts

scientific article published in PLoS ONE

cneViewer: a database of conserved non-coding elements for studies of tissue-specific gene regulation.

scientific article published on 20 August 2008

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