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miQC: An adaptive probabilistic framework for quality control of single-cell RNA-sequencing data

PLoS computational biology, 2021-08, Vol.17 (8), p.e1009290-e1009290

2021

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Inside help: An integrative review of champions in healthcare-related implementation

SAGE Open Medicine, 2018, Vol.6, p.2050312118773261-2050312118773261

2018

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MIDER: network inference with mutual information distance and entropy reduction

PloS one, 2014-05, Vol.9 (5), p.e96732-e96732

2014

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Efficient inference of parsimonious phenomenological models of cellular dynamics using S-systems and alternating regression

PloS one, 2015-03, Vol.10 (3), p.e0119821-e0119821

2015

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Order Under Uncertainty: Robust Differential Expression Analysis Using Probabilistic Models for Pseudotime Inference

PLoS computational biology, 2016-11, Vol.12 (11), p.e1005212-e1005212

2016

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Optimal deconvolution of transcriptional profiling data using quadratic programming with application to complex clinical blood samples

PloS one, 2011-11, Vol.6 (11), p.e27156-e27156

2011

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DeepCellState: An autoencoder-based framework for predicting cell type specific transcriptional states induced by drug treatment

PLoS computational biology, 2021-10, Vol.17 (10), p.e1009465-e1009465

2021

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Gene regulatory network reconstruction using Bayesian networks, the Dantzig Selector, the Lasso and their meta-analysis

PloS one, 2011-12, Vol.6 (12), p.e29165-e29165

2011

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Dissecting the specificity of protein-protein interaction in bacterial two-component signaling: orphans and crosstalks

PloS one, 2011-05, Vol.6 (5), p.e19729-e19729

2011

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A developmental formative evaluation of a pilot participatory music program for veterans with housing insecurity

BMC public health, 2023-08, Vol.23 (1), p.1583-1583, Article 1583

2023

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Comparison of automated classification techniques for predicting benthic biological communities using hydroacoustics and video observations

Continental shelf research, 2011-02, Vol.31 (2), p.S28-S38

2011

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Improved reconstruction of in silico gene regulatory networks by integrating knockout and perturbation data

PloS one, 2010-01, Vol.5 (1), p.e8121-e8121

2010

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The Perils of a "My Work Here is Done" perspective: a mixed methods evaluation of sustainment of an evidence-based intervention for transient ischemic attack

BMC health services research, 2022-07, Vol.22 (1), p.857-857, Article 857

2022

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Assessing performance of Bayesian state-space models fit to Argos satellite telemetry locations processed with Kalman filtering

PloS one, 2014-03, Vol.9 (3), p.e92277-e92277

2014

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Learning from women veterans who navigate invisible injuries, caregiving, and reintegration challenges

BMC women's health, 2023-12, Vol.23 (1), p.665-665, Article 665

2023

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MicroNet-MIMRF: a microbial network inference approach based on mutual information and Markov random fields

Bioinformatics advances, 2024-10, Vol.4 (1), p.vbae167

2024

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The protocol-guided rapid evaluation of veterans experiencing new transient neurological symptoms (PREVENT) quality improvement program: rationale and methods

BMC neurology, 2019-11, Vol.19 (1), p.294-294, Article 294

2019

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High throughput determination of TGFβ1/SMAD3 targets in A549 lung epithelial cells

PloS one, 2011, Vol.6 (5), p.e20319

2011

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COT: an efficient and accurate method for detecting marker genes among many subtypes

Bioinformatics advances, 2022, Vol.2 (1), p.vbac037-vbac037

2022

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Integrating phosphorylation network with transcriptional network reveals novel functional relationships

PloS one, 2012-03, Vol.7 (3), p.e33160-e33160

2012

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Improve-RRBS: a novel tool to correct the 3' trimming of reduced representation sequencing reads

Bioinformatics advances, 2024-05, Vol.4 (1), p.vbae076

2024

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Building cohesion in distributed telemedicine teams: findings from the Department of Veterans Affairs National Telestroke Program

BMC health services research, 2021-02, Vol.21 (1), p.124-124, Article 124

2021

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scVIC: deep generative modeling of heterogeneity for scRNA-seq data

Bioinformatics advances, 2024, Vol.4 (1), p.vbae086

2024

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Node-degree aware edge sampling mitigates inflated classification performance in biomedical random walk-based graph representation learning

Bioinformatics advances, 2024, Vol.4 (1), p.vbae036-vbae036

2024

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Adjusting for covariates and assessing modeling fitness in machine learning using MUVR2

Bioinformatics advances, 2024, Vol.4 (1), p.vbae051-vbae051

2024

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miQC: An adaptive probabilistic framework for quality control of single-cell RNA-sequencing data

Inside help: An integrative review of champions in healthcare-related implementation

MIDER: network inference with mutual information distance and entropy reduction

Efficient inference of parsimonious phenomenological models of cellular dynamics using S-systems and alternating regression

Order Under Uncertainty: Robust Differential Expression Analysis Using Probabilistic Models for Pseudotime Inference

Optimal deconvolution of transcriptional profiling data using quadratic programming with application to complex clinical blood samples

DeepCellState: An autoencoder-based framework for predicting cell type specific transcriptional states induced by drug treatment

Gene regulatory network reconstruction using Bayesian networks, the Dantzig Selector, the Lasso and their meta-analysis

Dissecting the specificity of protein-protein interaction in bacterial two-component signaling: orphans and crosstalks

A developmental formative evaluation of a pilot participatory music program for veterans with housing insecurity

Comparison of automated classification techniques for predicting benthic biological communities using hydroacoustics and video observations

Improved reconstruction of in silico gene regulatory networks by integrating knockout and perturbation data

The Perils of a "My Work Here is Done" perspective: a mixed methods evaluation of sustainment of an evidence-based intervention for transient ischemic attack

Assessing performance of Bayesian state-space models fit to Argos satellite telemetry locations processed with Kalman filtering

Learning from women veterans who navigate invisible injuries, caregiving, and reintegration challenges

MicroNet-MIMRF: a microbial network inference approach based on mutual information and Markov random fields

The protocol-guided rapid evaluation of veterans experiencing new transient neurological symptoms (PREVENT) quality improvement program: rationale and methods

High throughput determination of TGFβ1/SMAD3 targets in A549 lung epithelial cells

COT: an efficient and accurate method for detecting marker genes among many subtypes

Integrating phosphorylation network with transcriptional network reveals novel functional relationships

Improve-RRBS: a novel tool to correct the 3' trimming of reduced representation sequencing reads

Building cohesion in distributed telemedicine teams: findings from the Department of Veterans Affairs National Telestroke Program

scVIC: deep generative modeling of heterogeneity for scRNA-seq data

Node-degree aware edge sampling mitigates inflated classification performance in biomedical random walk-based graph representation learning

Adjusting for covariates and assessing modeling fitness in machine learning using MUVR2

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