Haocheng Ding
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View article: A Bayesian framework for genome-wide circadian rhythmicity biomarker detection
A Bayesian framework for genome-wide circadian rhythmicity biomarker detection Open
Circadian rhythms are endogenous $\sim $24-h cycles that significantly influence physiological and behavioral processes. These rhythms are governed by a transcriptional–translational feedback loop of core circadian genes and are essential …
View article: A novel Bayesian hierarchical model for detecting differential circadian pattern in transcriptomic applications
A novel Bayesian hierarchical model for detecting differential circadian pattern in transcriptomic applications Open
Circadian rhythm plays a critical role in regulating various physiological processes, and disruptions in these rhythms have been linked to a wide range of diseases. Identifying molecular biomarkers showing differential circadian (DC) patte…
View article: The Core Circadian Clock Factor, <i>Bmal1</i> , Transduces Sex-specific Differences in Both Rhythmic and Nonrhythmic Gene Expression in the Mouse Heart
The Core Circadian Clock Factor, <i>Bmal1</i> , Transduces Sex-specific Differences in Both Rhythmic and Nonrhythmic Gene Expression in the Mouse Heart Open
It has been well established that cardiovascular diseases exhibit significant differences between sexes in both preclinical models and humans. In addition, there is growing recognition that disrupted circadian rhythms can contribute to the…
View article: CosinorTest: An R Shiny App for Cosinor-model-based circadian and differential analysis in transcriptomic applications
CosinorTest: An R Shiny App for Cosinor-model-based circadian and differential analysis in transcriptomic applications Open
Summary ‘CosinorTest’ application is an interactive R Shiny tool designed to facilitate circadian and differential circadian analysis with transcriptomic data using Cosinor-model-based methods. This novel application integrates multiple ma…
View article: A Bayesian Framework for Genome-wide Circadian Rhythmicity Biomarker Detection
A Bayesian Framework for Genome-wide Circadian Rhythmicity Biomarker Detection Open
Circadian rhythms are endogenous ∼24-hour cycles that significantly influence physiological and behavioral processes. These rhythms are governed by a transcriptional-translational feedback loop of core circadian genes and are essential for…
View article: Flavokavains A- and B-Free Kava Enhances Resilience against the Adverse Health Effects of Tobacco Smoke in Mice
Flavokavains A- and B-Free Kava Enhances Resilience against the Adverse Health Effects of Tobacco Smoke in Mice Open
Tobacco smoke remains a serious global issue, resulting in serious health complications, contributing to the onset of numerous preventive diseases and imposing significant health burdens. Despite regulatory policies and cessation measures …
View article: Targeted Bmal1 restoration in muscle prolongs lifespan with systemic health effects in aging model
Targeted Bmal1 restoration in muscle prolongs lifespan with systemic health effects in aging model Open
Disruption of the circadian clock in skeletal muscle worsens local and systemic health, leading to decreased muscle strength, metabolic dysfunction, and aging-like phenotypes. Whole-body knockout mice that lack Bmal1, a key component of th…
View article: AB-free kava enhances resilience against the adverse health effects of tobacco smoke in mice
AB-free kava enhances resilience against the adverse health effects of tobacco smoke in mice Open
Tobacco smoke remains a serious global issue, resulting in serious health complications, contributing to the onsets of numerous preventive diseases, and imposing significant financial burdens. Despite regulatory policies and cessation meas…
View article: New role for cardiomyocyte<i>Bmal1</i>in the regulation of sex-specific heart transcriptomes
New role for cardiomyocyte<i>Bmal1</i>in the regulation of sex-specific heart transcriptomes Open
It has been well established that cardiovascular diseases exhibit significant differences between sexes in both preclinical models and humans. In addition, there is growing recognition that disrupted circadian rhythms can contribute to the…
View article: HDAC3 and HDAC8 PROTAC dual degrader reveals roles of histone acetylation in gene regulation
HDAC3 and HDAC8 PROTAC dual degrader reveals roles of histone acetylation in gene regulation Open
View article: DAXX drives de novo lipogenesis and contributes to tumorigenesis
DAXX drives de novo lipogenesis and contributes to tumorigenesis Open
Cancer cells exhibit elevated lipid synthesis. In breast and other cancer types, genes involved in lipid production are highly upregulated, but the mechanisms that control their expression remain poorly understood. Using integrated transcr…
View article: Statistical Methods for Detecting Circadian Rhythmicity and Differential Circadian Patterns with Repeated Measurement in Transcriptomic Applications
Statistical Methods for Detecting Circadian Rhythmicity and Differential Circadian Patterns with Repeated Measurement in Transcriptomic Applications Open
Circadian analysis via transcriptomic data has been successful in revealing the clock output changes underlying many diseases and physiological processes. Repeated measurement design in a circadian study is prevalent, in which the same sub…
View article: Suppressing the activation of protein kinase A as a DNA damage-independent mechanistic lead for dihydromethysticin prophylaxis of NNK-induced lung carcinogenesis
Suppressing the activation of protein kinase A as a DNA damage-independent mechanistic lead for dihydromethysticin prophylaxis of NNK-induced lung carcinogenesis Open
Our earlier work demonstrated varying potency of dihydromethysticin (DHM) as the active kava phytochemical for prophylaxis of tobacco carcinogen nicotine-derived nitrosamine ketone (NNK)-induced mouse lung carcinogenesis. Efficacy was depe…
View article: Pharmacological Inhibition of CBP/p300 Blocks Estrogen Receptor Alpha (ERα) Function through Suppressing Enhancer H3K27 Acetylation in Luminal Breast Cancer
Pharmacological Inhibition of CBP/p300 Blocks Estrogen Receptor Alpha (ERα) Function through Suppressing Enhancer H3K27 Acetylation in Luminal Breast Cancer Open
Estrogen receptor alpha (ER) is the oncogenic driver for ER+ breast cancer (BC). ER antagonists are the standard-of-care treatment for ER+ BC; however, primary and acquired resistance to these agents is common. CBP and p300 are critical ER…
View article: Likelihood-based tests for detecting circadian rhythmicity and differential circadian patterns in transcriptomic applications
Likelihood-based tests for detecting circadian rhythmicity and differential circadian patterns in transcriptomic applications Open
Circadian rhythmicity in transcriptomic profiles has been shown in many physiological processes, and the disruption of circadian patterns has been found to associate with several diseases. In this paper, we developed a series of likelihood…
View article: Likelihood-based Tests for Detecting Circadian Rhythmicity and Differential Circadian Patterns in Transcriptomic Applications
Likelihood-based Tests for Detecting Circadian Rhythmicity and Differential Circadian Patterns in Transcriptomic Applications Open
Circadian rhythmicity in transcriptomic profiles has been shown in many physiological processes, and the disruption of circadian patterns has been founded to associate with several diseases. In this paper, we developed a series of likeliho…