Douglas Arneson
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View article: From trial data to personalized medicine: a validated framework with an application to Crohn’s disease
From trial data to personalized medicine: a validated framework with an application to Crohn’s disease Open
Clinical practice is currently guided by studies that average over patient outcomes. This may not be the best approach, as different patients may have different treatment responses. Here we extend a method for simulating clinical trials to…
View article: Multitissue single-cell analysis reveals differential cellular and molecular sensitivity between fructose and high-fat high-sucrose diets
Multitissue single-cell analysis reveals differential cellular and molecular sensitivity between fructose and high-fat high-sucrose diets Open
View article: HIV-SEQ Reveals Global Host Gene Expression Differences Between HIV-Transcribing Cells from Viremic and Suppressed People with HIV
HIV-SEQ Reveals Global Host Gene Expression Differences Between HIV-Transcribing Cells from Viremic and Suppressed People with HIV Open
“Active” reservoir cells transcribing HIV can perpetuate chronic inflammation in virally suppressed people with HIV (PWH) and likely contribute to viral rebound after antiretroviral therapy (ART) interruption, so they represent an importan…
View article: PP4.14 – 00024 HIV RNA+ cells from ART-suppressed PWH exhibit transcriptional profiles distinct from those during active viremia
PP4.14 – 00024 HIV RNA+ cells from ART-suppressed PWH exhibit transcriptional profiles distinct from those during active viremia Open
View article: Thyroid hormone T4 mitigates traumatic brain injury in mice by dynamically remodeling cell type specific genes, pathways, and networks in hippocampus and frontal cortex
Thyroid hormone T4 mitigates traumatic brain injury in mice by dynamically remodeling cell type specific genes, pathways, and networks in hippocampus and frontal cortex Open
The complex pathology of mild traumatic brain injury (mTBI) is a main contributor to the difficulties in achieving a successful therapeutic regimen. Thyroxine (T4) administration has been shown to prevent the cognitive impairments induced …
View article: Characterisation of digital therapeutic clinical trials: a systematic review with natural language processing
Characterisation of digital therapeutic clinical trials: a systematic review with natural language processing Open
View article: Personalizing treatment selection in Crohn’s disease: a meta-analysis of individual participant data from fifteen randomized controlled trials
Personalizing treatment selection in Crohn’s disease: a meta-analysis of individual participant data from fifteen randomized controlled trials Open
BACKGROUND Meta-analyses have found anti-TNF drugs to be the best treatment, on average, for Crohn’s disease. We performed a subgroup analysis to determine if it is possible to achieve more efficacious outcomes by individualizing treatment…
View article: Sequential regression and simulation: a method for estimating causal effects from heterogeneous clinical trials without a common control group
Sequential regression and simulation: a method for estimating causal effects from heterogeneous clinical trials without a common control group Open
Background The advent of clinical trial data sharing platforms has created opportunities for making new discoveries and answering important questions using already collected data. However, existing methods for meta-analyzing these data req…
View article: Mammary duct luminal epithelium controls adipocyte thermogenic programme
Mammary duct luminal epithelium controls adipocyte thermogenic programme Open
View article: Tiered sympathetic control of cardiac function revealed by viral tracing and single cell transcriptome profiling
Tiered sympathetic control of cardiac function revealed by viral tracing and single cell transcriptome profiling Open
The cell bodies of postganglionic sympathetic neurons innervating the heart primarily reside in the stellate ganglion (SG), alongside neurons innervating other organs and tissues. Whether cardiac-innervating stellate ganglionic neurons (SG…
View article: Author response: Tiered sympathetic control of cardiac function revealed by viral tracing and single cell transcriptome profiling
Author response: Tiered sympathetic control of cardiac function revealed by viral tracing and single cell transcriptome profiling Open
View article: Tiered Sympathetic Control of Cardiac Function Revealed by Viral Tracing and Single Cell Transcriptome Profiling
Tiered Sympathetic Control of Cardiac Function Revealed by Viral Tracing and Single Cell Transcriptome Profiling Open
SUMMARY The cell bodies of postganglionic sympathetic neurons innervating the heart primarily reside in the stellate ganglion (SG), alongside neurons innervating other organs and tissues. Whether cardiac-innervating stellate ganglionic neu…
View article: Thyroid Hormone T4 Mitigates Traumatic Brain Injury by Dynamically Remodeling Cell Type Specific Genes, Pathways, and Networks in Hippocampus and Frontal Cortex
Thyroid Hormone T4 Mitigates Traumatic Brain Injury by Dynamically Remodeling Cell Type Specific Genes, Pathways, and Networks in Hippocampus and Frontal Cortex Open
Background The complex pathology of mild traumatic brain injury (mTBI) is a main contributor to the difficulties in achieving a successful therapeutic regimen. Thyroxine (T4) administration has been shown to prevent the cognitive impairmen…
View article: A method for estimating causal effects from heterogeneous clinical trials without a common control group using sequential regression and simulation: an individual participant data meta-analysis and validation study
A method for estimating causal effects from heterogeneous clinical trials without a common control group using sequential regression and simulation: an individual participant data meta-analysis and validation study Open
BACKGROUND The advent of clinical trial data sharing platforms has created opportunities for making new discoveries and answering important questions using already collected data. However, existing methods for meta-analyzing these data req…
View article: Systems spatiotemporal dynamics of traumatic brain injury at single-cell resolution reveals humanin as a therapeutic target
Systems spatiotemporal dynamics of traumatic brain injury at single-cell resolution reveals humanin as a therapeutic target Open
Background The etiology of mild traumatic brain injury (mTBI) remains elusive due to the tissue and cellular heterogeneity of the affected brain regions that underlie cognitive impairments and subsequent neurological disorders. This comple…
View article: Systems spatiotemporal dynamics of traumatic brain injury at single cell resolution reveals humanin as a therapeutic target
Systems spatiotemporal dynamics of traumatic brain injury at single cell resolution reveals humanin as a therapeutic target Open
Background The etiology of mild traumatic brain injury (mTBI) remains elusive due to the tissue and cellular heterogeneity of the affected brain regions that underlie cognitive impairments and subsequent neurological disorders. This comple…
View article: PharmOmics: A species- and tissue-specific drug signature database and gene-network-based drug repositioning tool
PharmOmics: A species- and tissue-specific drug signature database and gene-network-based drug repositioning tool Open
Drug development has been hampered by a high failure rate in clinical trials due to our incomplete understanding of drug functions across organs and species. Therefore, elucidating species- and tissue-specific drug functions can provide in…
View article: Mammary ductal epithelium controls cold-induced adipocyte thermogenesis
Mammary ductal epithelium controls cold-induced adipocyte thermogenesis Open
Sympathetic activation during cold exposure increases adipocyte thermogenesis via the expression of mitochondrial protein uncoupling protein 1 (UCP1) 1 . The propensity of adipocytes to express UCP1 is under a critical influence of the adi…
View article: Open challenges in developing digital therapeutics in the United States
Open challenges in developing digital therapeutics in the United States Open
View article: Case–control study of the association of chronic acid suppression and social determinants of health with COVID-19 infection
Case–control study of the association of chronic acid suppression and social determinants of health with COVID-19 infection Open
View article: Systems spatiotemporal dynamics of traumatic brain injury at single cell resolution reveals humanin as a therapeutic target
Systems spatiotemporal dynamics of traumatic brain injury at single cell resolution reveals humanin as a therapeutic target Open
The etiology of mild traumatic brain injury (mTBI) remains elusive due to the tissue and cellular heterogeneity of the affected brain regions that underlie cognitive impairments and subsequent neurological disorders. This complexity is fur…
View article: Joint cell segmentation and cell type annotation for spatial transcriptomics
Joint cell segmentation and cell type annotation for spatial transcriptomics Open
RNA hybridization-based spatial transcriptomics provides unparalleled detection sensitivity. However, inaccuracies in segmentation of image volumes into cells cause misassignment of mRNAs which is a major source of errors. Here, we develop…
View article: ScRNA-seq Reveals a Role of Mammary Luminal Epithelium in Adipocyte Adaptations
ScRNA-seq Reveals a Role of Mammary Luminal Epithelium in Adipocyte Adaptations Open
Almost four decades of research suggest a dynamic role of ductal epithelial cells in adipocyte adaptation in mammary gland white adipose tissue (mgWAT), but factors that mediate such communication are not known. Here, we identify a complex…
View article: Fr001 PROTON PUMP INHIBITOR AND RISK OF SARS-COV-2 INFECTION: A MULTI-CENTER EXPERIENCE
Fr001 PROTON PUMP INHIBITOR AND RISK OF SARS-COV-2 INFECTION: A MULTI-CENTER EXPERIENCE Open
View article: Estrogen receptor alpha in the brain mediates tamoxifen-induced changes in physiology in mice
Estrogen receptor alpha in the brain mediates tamoxifen-induced changes in physiology in mice Open
Adjuvant tamoxifen therapy improves survival in breast cancer patients. Unfortunately, long-term treatment comes with side effects that impact health and quality of life, including hot flashes, changes in bone density, and fatigue. Partly …
View article: Author response: Estrogen receptor alpha in the brain mediates tamoxifen-induced changes in physiology in mice
Author response: Estrogen receptor alpha in the brain mediates tamoxifen-induced changes in physiology in mice Open
Article Figures and data Abstract eLife digest Introduction Results Discussion Materials and methods Data availability References Decision letter Author response Article and author information Metrics Abstract Adjuvant tamoxifen therapy im…
View article: Association of Chronic Acid Suppression and Social Determinants of Health with COVID-19 Infection
Association of Chronic Acid Suppression and Social Determinants of Health with COVID-19 Infection Open
Acid suppressants are a widely-used class of medications previously linked to an increased risk of aerodigestive infections. However, prior studies of these medications as potentially reversible risk factors for COVID-19 have been conflict…
View article: CovidCounties is an interactive real time tracker of the COVID19 pandemic at the level of US counties
CovidCounties is an interactive real time tracker of the COVID19 pandemic at the level of US counties Open
Management of the COVID-19 pandemic has proven to be a significant challenge to policy makers. This is in large part due to uneven reporting and the absence of open-access visualization tools to present local trends and infer healthcare ne…
View article: Mammary ductal epithelium controls cold-induced adipocyte thermogenesis
Mammary ductal epithelium controls cold-induced adipocyte thermogenesis Open
Sympathetic activation during cold exposure increases adipocyte thermogenesis via expression of mitochondrial protein uncoupling protein 1 (UCP1) 1 . The propensity of adipocytes to express UCP1 is under a critical influence of the adipose…
View article: Single-Cell Study of Two Rat Models of Pulmonary Arterial Hypertension Reveals Connections to Human Pathobiology and Drug Repositioning
Single-Cell Study of Two Rat Models of Pulmonary Arterial Hypertension Reveals Connections to Human Pathobiology and Drug Repositioning Open
Rationale: The cellular and molecular landscape and translational value of commonly used models of pulmonary arterial hypertension (PAH) are poorly understood. Single-cell transcriptomics can enhance molecular understanding of precl…