Transcriptional Architecture and Chromatin Landscape of the Core Circadian Clock in Mammals

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The Role of Chromatin during Transcription

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Mammalian PERIOD2 regulates H2A.Z incorporation in chromatin to orchestrate circadian negative feedback

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Circadian clock—A promising scientific target in oral science

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A conditional Smg6 mutant mouse model reveals circadian clock regulation through the nonsense-mediated mRNA decay pathway

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C. elegans molting requires rhythmic accumulation of the Grainyhead/LSF transcription factor GRH‐1

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Aging alters circadian regulation of redox in Drosophila

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Desynchronization of Circadian Clocks in Cancer: A Metabolic and Epigenetic Connection

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PRL2 links magnesium flux and sex-dependent circadian metabolic rhythms

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Deubiquitinating enzyme USP9X regulates cellular clock function by modulating the ubiquitination and degradation of a core circadian protein BMAL1

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Synchronization and maintenance of circadian timing in the mammalian clockwork

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Response to therapeutic sleep deprivation: a naturalistic study of clinical and genetic factors and post-treatment depressive symptom trajectory

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Improving Gene Regulatory Network Inference by Incorporating Rates of Transcriptional Changes

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Gut microbiota: closely tied to the regulation of circadian clock in the development of type 2 diabetes mellitus

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A Systems Biology Approach Identifies Hidden Regulatory Connections Between the Circadian and Cell-Cycle Checkpoints

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Personalized medicine and circadian rhythms: Opportunities for modern society

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Clock-controlled rhythmic transcription: is the clock enough and how does it work?

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Circadian rhythm disruption: a potential trigger in Parkinson’s disease pathogenesis

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Clinical Chronobiology: Circadian Rhythms in Health and Disease

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Circadian Clock Deregulation and Metabolic Reprogramming: A System Biology Approach to Tissue-Specific Redox Signaling and Disease Development

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CLOCK gene variants associated with the discrepancy between subjective and objective severity in bipolar depression

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BMAL1 associates with chromosome ends to control rhythms in TERRA and telomeric heterochromatin

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Epigenetic Regulation of Circadian Clocks and Its Involvement in Drug Addiction

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Nutritional compensation of the circadian clock is a conserved process influenced by gene expression regulation and mRNA stability

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Prediction of mammalian tissue-specific CLOCK–BMAL1 binding to E-box DNA motifs

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Mammalian circadian clock proteins form dynamic interacting microbodies distinct from phase separation

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Functional genomics identifyBirc5/Survivinas a candidate gene involved in the chronotoxicity of cyclin-dependent kinase inhibitors

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Structural plasticity of the circadian timing system. An overview from flies to mammals

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Differential localization of PER 1 and PER 2 in the brain master circadian clock

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Role of melatonin receptor 1A and pituitary homeobox‐1 coexpression in protecting tubular epithelial cells in membranous nephropathy

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Identification and Characterization of Transcripts Regulated by Circadian Alternative Polyadenylation in Mouse Liver

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Identification of the Repressive Domain of the Negative Circadian Clock Component CHRONO

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Cell-specific regulation of the circadian clock by BMAL1 in the paraventricular nucleus: Implications for regulation of systemic biological rhythms

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Adipose Clocks

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Circadian control of mitochondrial dynamics and functions

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Timing without coding: How do long non-coding RNAs regulate circadian rhythms?

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Circadian Organelles: Rhythms at All Scales

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Environmental circadian disruption re-writes liver circadian proteomes

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REV-ERBα regulates Fgf21 expression in the liver via hepatic nuclear factor 6

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Paraspeckles as rhythmic nuclear mRNA anchorages responsible for circadian gene expression

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Epigenetic regulation of the circadian clock: role of 5-aza-2′-deoxycytidine

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TRiC/CCT chaperonins are essential for maintaining myofibril organization, cardiac physiological rhythm, and lifespan

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A Role for the Biological Clock in Liver Cancer

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Interactions between the circadian clock and metabolism: there are good times and bad times

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Evolutionary conservations, changes of circadian rhythms and their effect on circadian disturbances and therapeutic approaches

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Biochemical mechanism of the mammalian circadian clock

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Time to Target Stroke: Examining the Circadian System in Stroke.

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Exploiting the Circadian Clock for Improved Cancer Therapy: Perspective From a Cell Biologist

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Tuning up an aged clock: Circadian clock regulation in metabolism and aging

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CircadiOmics: circadian omic web portal

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Chronobiology Meets Quantum Biology: A New Paradigm Overlooking the Horizon?

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Circadian rhythm-related factors of PER and CRY family genes function as novel therapeutic targets and prognostic biomarkers in lung adenocarcinoma

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Overview of the Circadian Clock in the Hair Follicle Cycle

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Circadian rhythm and exercise

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Pregnancy Suppresses the Daily Rhythmicity of Core Body Temperature and Adipose Metabolic Gene Expression in the Mouse

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A high-salt/high fat diet alters circadian locomotor activity and glucocorticoid synthesis in mice

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Circadian Clock Control of Translation Initiation Factor eIF2α Activity Requires eIF2γ-Dependent Recruitment of Rhythmic PPP-1 Phosphatase in Neurospora crassa

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Identification of novel small molecules targeting core clock proteins to regulate circadian rhythm

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Synergies of Multiple Zeitgebers Tune Entrainment

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Circadian clocks, retinogenesis and ocular health in vertebrates: new molecular insights

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How Does Chronobiology Contribute to the Development of Diseases in Later Life

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Experimental design and power calculation in omics circadian rhythmicity detection using the cosinor model

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Chemical interplay between gut microbiota and epigenetics: Implications in circadian biology

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A ticking clock links metabolic pathways and organ systems function in health and disease

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A-to-I RNA editing enzyme ADAR2 regulates light-induced circadian phase-shift

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Nonlinear phenomena in models of the circadian clock

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Dissecting the Rev-erbα Cistrome and the Mechanisms Controlling Circadian Transcription in LiverPreprint

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Clockwork conditioning: Aligning the skeletal muscle clock with time-of-day exercise for cardiometabolic health

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The circadian clock at the intersection of metabolism and aging – emerging roles of metabolites

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PRD-2 directly regulates casein kinase I and counteracts nonsense-mediated decay in the Neurospora circadian clock

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Diurnal and circadian rhythmicity of the human blood transcriptome overlaps with organ- and tissue-specific expression of a non-human primate

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Mathematical analysis of robustness of oscillations in models of the mammalian circadian clock

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TIMELESS upregulates PD-L1 expression and exerts an immunosuppressive role in breast cancer

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PAS Dimerization at the Nexus of the Mammalian Circadian Clock

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Clock-dependent chromatin accessibility rhythms regulate circadian transcription

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Readjustment of circadian clocks by exercise intervention is a potential therapeutic target for sleep disorders: a narrative review

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RNA Dynamics in the Control of Circadian Rhythm

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Rosiglitazone reverses high fat diet-induced changes in BMAL1 function in muscle, fat, and liver tissue in mice

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Molecular link between circadian clocks and cardiac function: a network of core clock, slave clock, and effectors

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Cellular circadian oscillators in the suprachiasmatic nucleus remain coupled in the absence of connexin-36

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Resetting the Aging Clock: Implications for Managing Age-Related Diseases

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Circadian Rhythm Effects on the Molecular Regulation of Physiological Systems

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Circadian clock genes and insomnia: molecular mechanisms and therapeutic implications

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JMJD5 links CRY1 function and proteasomal degradation

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The Clock‐NAD+‐Sirtuin connection in nonalcoholic fatty liver disease

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The circadian clock CRY1 regulates pluripotent stem cell identity and somatic cell reprogramming

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Class 3 PI3K coactivates the circadian clock to promote rhythmic de novo purine synthesis

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An atlas of the human liver diurnal transcriptome and its perturbation by hepatitis C virus infection

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Expression and cellular localization of the transcription factor N euro D 1 in the developing and adult rat pineal gland

Castro, A. E., Benitez, S. G., Altamirano, L. E. F., Savastano, L. E., Patterson, S. I., & Muñoz, E. M. (2015) · Journal of Pineal Research · doi:10.1111/jpi.12228 · Cited by 17

Computational modeling of the cell-autonomous mammalian circadian oscillator

Podkolodnaya, O. A., Tverdokhleb, N. N., & Podkolodnyy, N. L. (2017) · BMC Systems Biology · doi:10.1186/s12918-016-0379-8 · Cited by 18

Exploring the role of circadian clock gene and association with cancer pathophysiology

Keshvari, M., Nejadtaghi, M., Hosseini-Beheshti, F., Rastqar, A., & Patel, N. (2019) · Chronobiology International · doi:10.1080/07420528.2019.1681440 · Cited by 17

The role of circadian genes in the pathogenesis of colorectal cancer

Soofiyani, S. R., Ahangari, H., Soleimanian, A., Babaei, G., Ghasemnejad, T., Safavi, S. E., Eyvazi, S., & Tarhriz, V. (2021) · Gene · doi:10.1016/j.gene.2021.145894 · Cited by 18

Quantification of pre-mRNA escape rate and synergy in splicing

Bonde, M. M., Voegeli, S., Baudrimont, A., Séraphin, B., & Becskei, A. (2014) · Nucleic Acids Research · doi:10.1093/nar/gku1014 · Cited by 17

Natural antisense transcript of Period2, Per2AS, regulates the amplitude of the mouse circadian clockPreprint

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Circadian PERIOD proteins regulate TC-DSB repair through anchoring to the nuclear envelope

Bozec, B. L., Guitton-Sert, L., Collins, S., Finoux, A.-L., Payrault, C., Guillou, E., Aguirrebengoa, M., Dougados, V., Jouffret, V., Frison, J., et al. (2025) · Molecular Cell · doi:10.1016/j.molcel.2025.10.027 · Cited by 17

Crystal Structure of the CLOCK Transactivation Domain Exon19 in Complex with a Repressor

Hou, Z., Su, L., Pei, J., Grishin, N. V., & Zhang, H. (2017) · Structure · doi:10.1016/j.str.2017.05.023 · Cited by 16

Circadian disruption and cisplatin chronotherapy for mammary carcinoma

Koritala, B. S. C., Porter, K. I., Sarkar, S., & Gaddameedhi, S. (2022) · Toxicology and Applied Pharmacology · doi:10.1016/j.taap.2022.115863 · Cited by 16

A clock-dependent brake for rhythmic arousal in the dorsomedial hypothalamus

Liu, Q., Bell, B. J., Kim, D. W., Lee, S., Keleş, M. F., Liu, Q., Blum, I. D., Wang, A. A., Blank, E. J., Xiong, J., et al. (2023) · Nature Communications · doi:10.1038/s41467-023-41877-4 · Cited by 16

A normalization method that controls for total RNA abundance affects the identification of differentially expressed genes, revealing bias toward morning‐expressed responses

Laosuntisuk, K., Vennapusa, A. R., Somayanda, I. M., Leman, A. R., Jagadish, S. V. K., & Doherty, C. J. (2024) · The Plant Journal · doi:10.1111/tpj.16654 · Cited by 17

Histone methylation: at the crossroad between circadian rhythms in transcription and metabolism

González-Suárez, M., & Aguilar‐Arnal, L. (2024) · Frontiers in Genetics · doi:10.3389/fgene.2024.1343030 · Cited by 20

Circadian clock component PER2 negatively regulates CD4+ T cell IFN-γ production in ulcerative colitis

Ye, Y., Liu, C., Wu, R., Kang, D., Gao, H., Lv, H., Feng, Z., Shi, Y., Liu, Z., & Chen, L. (2024) · Mucosal Immunology · doi:10.1016/j.mucimm.2024.07.010 · Cited by 16

How does healthy aging impact on the circadian clock?

Popa‐Wagner, A., Buga, A.-M., Dumitraşcu, D. I., Uzoni, A., Thome, J., & Coogan, A. N. (2015) · Journal of Neural Transmission · doi:10.1007/s00702-015-1424-2 · Cited by 17

Transcriptional architecture of the mammalian circadian clock

Takahashi, J. S. (2016) · Nature Reviews Genetics · doi:10.1038/nrg.2016.150 · Cited by 2,786

Molecular components of the circadian clock in mammals

Takahashi, J. S. (2015) · Diabetes, Obesity and Metabolism · doi:10.1111/dom.12514 · Cited by 230

Circadian genomics

Niemitz, E. L. (2012) · Nature Genetics · doi:10.1038/ng.2487

Teasing Apart the Role of the Mammalian Molecular Circadian Clock and Three-Dimensional Chromatin Interactions in Rhythmic Transcription

Beytebiere, J. R. (2019) · OakTrust (Texas A&M University Libraries)

Molecular Circadian Rhythms in Central and Peripheral Clocks in Mammals

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