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Purity Independent Subtyping of Tumors (PurIST), A Clinically Robust, Single-sample Classifier for Tumor Subtyping in Pancreatic Cancer

Clinical cancer research, 2020-01, Vol.26 (1), p.82-92

2020

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Enhancer Remodeling during Adaptive Bypass to MEK Inhibition Is Attenuated by Pharmacologic Targeting of the P-TEFb Complex

Cancer discovery, 2017-03, Vol.7 (3), p.302-321

2017

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Pain modality- and sex-specific effects of COMT genetic functional variants

Pain (Amsterdam), 2013-08, Vol.154 (8), p.1368-1376

2013

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glmmPen: High Dimensional Penalized Generalized Linear Mixed Models

The R journal, 2023-12, Vol.15 (4), p.106-128

2023

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A P53-Independent DNA Damage Response Suppresses Oncogenic Proliferation and Genome Instability

Cell reports (Cambridge), 2020-02, Vol.30 (5), p.1385-1399.e7

2020

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Mu Opioid Splice Variant MOR-1K Contributes to the Development of Opioid-Induced Hyperalgesia

PloS one, 2015-08, Vol.10 (8), p.e0135711

2015

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Differential and limited expression of mutant alleles in multiple myeloma

Blood, 2014-11, Vol.124 (20), p.3110-3117

2014

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Open-source curation of a pancreatic ductal adenocarcinoma gene expression analysis platform (pdacR) supports a two-subtype model

Communications biology, 2023-02, Vol.6 (1), p.163-10, Article 163

2023

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Virtual microdissection identifies distinct tumor- and stroma-specific subtypes of pancreatic ductal adenocarcinoma

Nature genetics, 2015-10, Vol.47 (10), p.1168-1178

2015

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Differential transcript usage analysis incorporating quantification uncertainty via compositional measurement error regression modeling

Biostatistics (Oxford, England), 2024-04, Vol.25 (2), p.559-576

2024

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Modeling Between-Study Heterogeneity for Improved Replicability in Gene Signature Selection and Clinical Prediction

Journal of the American Statistical Association, 2020-07, Vol.115 (531), p.1125-1138

2020

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FOXA1 and adaptive response determinants to HER2 targeted therapy in TBCRC 036

NPJ breast cancer, 2021-05, Vol.7 (1), p.51-15, Article 51

2021

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DNA Mutational Profiling in Patients With Colorectal Cancer Treated With Standard of Care Reveals Differences in Outcome and Racial Distribution of Mutations

Journal of clinical oncology, 2024-02, Vol.42 (4), p.399-409

2024

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Efficient detection and classification of epigenomic changes under multiple conditions

Biometrics, 2022-09, Vol.78 (3), p.1141-1154

2022

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ZINBA integrates local covariates with DNA-seq data to identify broad and narrow regions of enrichment, even within amplified genomic regions

Genome biology, 2011-07, Vol.12 (7), p.R67-R67, Article R67

2011

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Estimating cell type composition using isoform expression one gene at a time

Biometrics, 2023-06, Vol.79 (2), p.854-865

2023

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Compression of quantification uncertainty for scRNA-seq counts

Bioinformatics, 2021-07, Vol.37 (12), p.1699-1707

2021

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Deeply Learned Generalized Linear Models with Missing Data

Journal of computational and graphical statistics, 2024-04, Vol.33 (2), p.638-650

2024

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Sub-Cluster Identification through Semi-Supervised Optimization of Rare-Cell Silhouettes (SCISSORS) in single-cell RNA-sequencing

Bioinformatics (Oxford, England), 2023-08, Vol.39 (8)

2023

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Efficient computation of high-dimensional penalized generalized linear mixed models by latent factor modeling of the random effects

Biometrics, 2024-01, Vol.80 (1)

2024

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GSK2801, a BAZ2/BRD9 Bromodomain Inhibitor, Synergizes with BET Inhibitors to Induce Apoptosis in Triple-Negative Breast Cancer

Molecular cancer research, 2019-07, Vol.17 (7), p.1503-1518

2019

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Tumor-intrinsic and Cancer-associated Fibroblast Subtypes Independently Predict Outcomes in Pancreatic Cancer

Annals of surgery, 2024-10, Vol.280 (4), p.659-666

2024

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MODEL-BASED FEATURE SELECTION AND CLUSTERING OF RNA-SEQ DATA FOR UNSUPERVISED SUBTYPE DISCOVERY

The annals of applied statistics, 2021-03, Vol.15 (1), p.481-508

2021

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Cytokine biomarkers and chronic pain: Association of genes, transcription, and circulating proteins with temporomandibular disorders and widespread palpation tenderness

Pain (Amsterdam), 2011-12, Vol.152 (12), p.2802-2812

2011

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Improved detection of epigenomic marks with mixed‐effects hidden Markov models

Biometrics, 2019-12, Vol.75 (4), p.1401-1413

2019

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Purity Independent Subtyping of Tumors (PurIST), A Clinically Robust, Single-sample Classifier for Tumor Subtyping in Pancreatic Cancer

Enhancer Remodeling during Adaptive Bypass to MEK Inhibition Is Attenuated by Pharmacologic Targeting of the P-TEFb Complex

Pain modality- and sex-specific effects of COMT genetic functional variants

glmmPen: High Dimensional Penalized Generalized Linear Mixed Models

A P53-Independent DNA Damage Response Suppresses Oncogenic Proliferation and Genome Instability

Mu Opioid Splice Variant MOR-1K Contributes to the Development of Opioid-Induced Hyperalgesia

Differential and limited expression of mutant alleles in multiple myeloma

Open-source curation of a pancreatic ductal adenocarcinoma gene expression analysis platform (pdacR) supports a two-subtype model

Virtual microdissection identifies distinct tumor- and stroma-specific subtypes of pancreatic ductal adenocarcinoma

Differential transcript usage analysis incorporating quantification uncertainty via compositional measurement error regression modeling

Modeling Between-Study Heterogeneity for Improved Replicability in Gene Signature Selection and Clinical Prediction

FOXA1 and adaptive response determinants to HER2 targeted therapy in TBCRC 036

DNA Mutational Profiling in Patients With Colorectal Cancer Treated With Standard of Care Reveals Differences in Outcome and Racial Distribution of Mutations

Efficient detection and classification of epigenomic changes under multiple conditions

ZINBA integrates local covariates with DNA-seq data to identify broad and narrow regions of enrichment, even within amplified genomic regions

Estimating cell type composition using isoform expression one gene at a time

Compression of quantification uncertainty for scRNA-seq counts

Deeply Learned Generalized Linear Models with Missing Data

Sub-Cluster Identification through Semi-Supervised Optimization of Rare-Cell Silhouettes (SCISSORS) in single-cell RNA-sequencing

Efficient computation of high-dimensional penalized generalized linear mixed models by latent factor modeling of the random effects

GSK2801, a BAZ2/BRD9 Bromodomain Inhibitor, Synergizes with BET Inhibitors to Induce Apoptosis in Triple-Negative Breast Cancer

Tumor-intrinsic and Cancer-associated Fibroblast Subtypes Independently Predict Outcomes in Pancreatic Cancer

MODEL-BASED FEATURE SELECTION AND CLUSTERING OF RNA-SEQ DATA FOR UNSUPERVISED SUBTYPE DISCOVERY

Cytokine biomarkers and chronic pain: Association of genes, transcription, and circulating proteins with temporomandibular disorders and widespread palpation tenderness

Improved detection of epigenomic marks with mixed‐effects hidden Markov models

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