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Prevalence of Insomnia and Sleep Patterns among Liver Cirrhosis Patients 肝硬化患者失眠与睡眠模式的患病率
Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2014-11-19 DOI: 10.5334/jcr.aa
H. Al-Jahdali, A. Al Enezi, Ahmed E. Anwar, A. Al-Harbi, S. Baharoon, A. Aljumah, A. Shimemeri, K. Abdullah
Background: Few studies are available regarding the prevalence of sleep disturbance in cirrhotic patients without overt hepatic encephalopathy. This study aimed to assess the prevalence of insomnia in stable liver cirrhosis patients who are attending the outpatient clinics at King Abdulaziz Medical City, Riyadh (KAMC-KFNGH). Methods: A cross-sectional study enrolled 200 stable patients with confirmed liver cirrhosis. We used the ICSD-2 definition to assess the prevalence of insomnia. We also collected information about sleep patterns, demographic data, the underlying cause of liver cirrhosis and the severity of liver cirrhosis using Child-Pugh scores (CTP). Results: The mean age was 58.9 (SD ± 12.2) years. Hepatitis C was the most common (60.2%) cause of liver cirrhosis among respondents. The prevalence of insomnia was 42% (84/200). Univarite analysis shows association between coffee intake and the presence of insomnia (56.9% vs. 35.9%, p-value = 0.006). The prevalence of insomnia was higher in hepatitis C (51.7%) compared to hepatitis B (36.8%) and other hepatitis (15%), p-value = 0.001. There was a significant relationship between severity of liver cirrhosis (CTP-A, CTP-C, CTP-B) and prevalence of insomnia: 55%, 36.1% and 32.1% respectively, p-value = 0.009. Insomniac patients were significantly older than non-insomniac (61.6 ± 12.0 vs. 57.0 ± 12.0 years, p = 0.008). Results from the multivariate stepwise analysis showed coffee intake (OR=2.7), hepatitis C (OR = 7.2), CTP-A (OR = 1.9), excessive daytime sleepiness (OR = 5.3) and short sleep duration (OR = 5.7) were the most strongly associated with the presence of insomnia. Conclusion: Our study showed a high prevalence of insomnia in patients with liver cirrhosis.
背景:关于无明显肝性脑病的肝硬化患者睡眠障碍患病率的研究很少。本研究旨在评估在利雅得阿卜杜勒阿齐兹国王医疗城(KAMC-KFNGH)门诊就诊的稳定型肝硬化患者失眠的患病率。方法:一项横断面研究纳入了200例稳定的确诊肝硬化患者。我们使用ICSD-2定义来评估失眠的患病率。我们还使用Child-Pugh评分(CTP)收集了有关睡眠模式、人口统计数据、肝硬化的潜在原因和肝硬化严重程度的信息。结果:患者平均年龄58.9 (SD±12.2)岁。丙型肝炎是受访者中最常见的肝硬化原因(60.2%)。失眠患病率为42%(84/200)。单变量分析显示,咖啡摄入量与失眠之间存在关联(56.9% vs. 35.9%, p值= 0.006)。丙型肝炎患者失眠患病率(51.7%)高于乙型肝炎(36.8%)和其他肝炎(15%),p值= 0.001。肝硬化严重程度(CTP-A、CTP-C、CTP-B)与失眠发生率有显著相关性,分别为55%、36.1%、32.1%,p值= 0.009。失眠症患者年龄明显大于非失眠症患者(61.6±12.0∶57.0±12.0,p = 0.008)。多变量逐步分析的结果显示,咖啡摄入(OR=2.7)、丙型肝炎(OR= 7.2)、CTP-A (OR= 1.9)、白天过度嗜睡(OR= 5.3)和睡眠时间短(OR= 5.7)与失眠的存在密切相关。结论:我们的研究显示肝硬化患者失眠的发生率较高。
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引用次数: 21
Daily blood feeding rhythms of laboratory-reared North American Culex pipiens. 实验室饲养的北美库蚊的每日吸血节律。
Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2014-01-22 DOI: 10.1186/1740-3391-12-1
Megan L Fritz, Edward D Walker, Aaron J Yunker, Ian Dworkin

Background: Blood feeding by free-living insect vectors of disease is rhythmic and can be used to predict when infectious bites will occur. These daily rhythms can also be targeted by control measures, as in insecticide-treated nets. Culex pipiens form pipiens and C.p. f. molestus are two members of the Culex pipiens assemblage and vectors of West Nile Virus throughout North America. Although Culex species vector human pathogens and parasites, the daily blood feeding rhythms of C.p. f. molestus, to our knowledge, have not been studied. We described and compared the daily blood feeding rhythms of three laboratory-reared populations of Culex pipiens, one of which has confirmed molestus ancestry. We also examined the plasticity of blood feeding time for these three populations.

Results: For most (>70%) C.p. f. pipiens and C.p. f. molestus collected from metropolitan Chicago, IL, blood feeding took place during scotophase. Peak blood feeding occurred in mid-scotophase, 3-6 hours after lights off. For C.p. f. pipiens originating from Pennsylvania, most mosquitoes (> 90%) blood fed during late photophase and early scotophase. C.p. f. molestus denied a blood meal during scotophase were less likely to blood feed during early photophase (< 20%) than were C.p. f. pipiens from Chicago (> 50%). C.p. f. pipiens from Pennsylvania were capable of feeding readily at any hour of photo- or scotophase.

Conclusions: Daily blood feeding rhythms of C.p. f. molestus are similar to those of C.p. f. pipiens, particularly when populations originate from the same geographic region. However, the timing of blood feeding is more flexible for C.p. f. pipiens populations relative to C.p. f. molestus.

背景:自由生活的病媒昆虫的吸血是有节奏的,可以用来预测何时会发生传染性叮咬。这些日常节律也可以通过控制措施(如经杀虫剂处理的蚊帐)作为目标。库蚊属的库蚊和大鼠库蚊是西尼罗病毒在北美传播的两种媒介。虽然库蚊是人类病原体和寄生虫的传播媒介,但据我们所知,还没有对库蚊的日常吸血节律进行过研究。我们描述并比较了三个实验室饲养的库蚊种群的每日吸血节律,其中一个种群已经证实了摩鼠的祖先。我们还研究了这三个种群的取血时间的可塑性。结果:大部分(>70%)在芝加哥市区采集到的库蚊和小绒绒螯蟹在幼虫期吸血。进食高峰出现在昏睡中期,即熄灯后3 ~ 6小时。对产自美国宾夕法尼亚州的淡色库蚊,大部分(> 90%)蚊在光期晚期和斑期早期采血。在光期早期,未进食血的大鼠(< 20%)比来自芝加哥的库蚊(> 50%)更不可能进食血。来自宾夕法尼亚州的c.p.f.b ipiiens在光相或光相的任何时刻都能轻易取食。结论:大鼠绒螯蟹的日采血节律与库蚊相似,特别是当种群来自同一地理区域时。然而,相较于小绒绒绒鼠,红毛绒鼠的吸血时间更为灵活。
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引用次数: 24
Daily cycling of nitric oxide synthase (NOS) in the hippocampus of pigeons (C. livia). 鸽子海马一氧化氮合酶(NOS)的日循环。
Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2013-11-01 DOI: 10.1186/1740-3391-11-12
Aline V Machado-Nils, Larissa Om de Faria, André S Vieira, Simone A Teixeira, Marcelo N Muscará, Elenice Am Ferrari

Background: Nitric oxide synthase (NOS) is essential for the synthesis of nitric oxide (NO), a non-conventional neurotransmitter with an important role in synaptic plasticity underlying processes of hippocampus-dependent memory and in the regulation of biological clocks and circadian rhythms. Many studies have shown that both the NOS cytosolic protein content and its enzymatic activity present a circadian variation in different regions of the rodent brain, including the hippocampus. The present study investigated the daily variation of NOS enzymatic activity and the cytosolic content of nNOS in the hippocampus of pigeons.

Results: Adult pigeons kept under a skeleton photoperiod were assigned to six different groups. Homogenates of the hippocampus obtained at six different times-of-day were used for NOS analyses. Both iNOS activity and nNOS cytosolic protein concentrations were highest during the subjective light phase and lowest in the subjective dark phase of the circadian period. ANOVA showed significant time differences for iNOS enzymatic activity (p < 0.05) and for nNOS protein content (p < 0.05) in the hippocampus. A significant daily rhythm for both iNOS and nNOS was confirmed by analysis with the Cosinor method (p < 0.05). The present findings indicate that the enzymatic activity of iNOS and content of nNOS protein in the hippocampus of pigeons exhibit a daily rhythm, with acrophase values occurring during the behavioral activity phase.

Conclusions: The data corroborate the reports on circadian variation of NOS in the mammalian hippocampus and can be considered indicative of a dynamic interaction between hippocampus-dependent processes and circadian clock mechanisms.

背景:一氧化氮合酶(NOS)是合成一氧化氮(NO)所必需的,一氧化氮是一种非传统的神经递质,在海马依赖记忆的突触可塑性过程中发挥重要作用,并在生物钟和昼夜节律的调节中发挥重要作用。许多研究表明,NOS胞质蛋白含量及其酶活性在啮齿类动物大脑的不同区域(包括海马)均存在昼夜变化。本研究研究了鸽子海马内NOS酶活性及细胞内NOS含量的日变化。结果:在骨骼光周期下饲养的成年鸽子被分为六个不同的组。在一天中六个不同时间获得的海马匀浆用于NOS分析。iNOS活性和细胞内nNOS蛋白浓度在生理周期主观光照期最高,在主观暗期最低。结论:这些数据证实了哺乳动物海马中NOS的昼夜变化,可以认为表明海马依赖过程和生物钟机制之间存在动态相互作用。
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引用次数: 6
Synaptophysin is involved in resetting of the mammalian circadian clock. 突触素参与哺乳动物生物钟的重置。
Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2013-10-01 DOI: 10.1186/1740-3391-11-11
Marie Aramendy, Sascha Seibert, Philipp Treppmann, Karin Richter, Gudrun Ahnert-Hilger, Urs Albrecht

Background: Mammals can adapt to changing light/dark conditions by advancing or delaying their circadian clock phase. Light pulses evoke changes in gene expression and neuronal activity in the suprachiasmatic nuclei (SCN), the central pacemaker of the circadian system. Alterations in neuronal activity are partially mediated by changes in synaptic vesicle (SV) fusion at the presynaptic membrane, which modulates release of neurotransmitters.

Methods: Male synaptophysin (Syp) knock-out and littermate control wild type mice were tested in an Aschoff type I resetting paradigm. Additionally, gene expression of cFos, Per1 and Per2 was assessed in the SCN. Finally, complexes between the synaptic vesicle proteins Syp and synaptobrevin (Syb) were studied in order to correlate behavior with protein complexes at synaptic vesicles.

Results: Here we show that mice lacking Syp, a modulator of neurotransmitter release, are defective in delaying clock phase. In contrast, clock phase advances as well as clock period are normal in Syp-/- knock-out mice. This correlates with the formation of Syp/Syb complexes.

Conclusions: Our findings suggest that Syp is involved specifically in the response to a nocturnal light pulse occurring in the early night. It appears that the SV component Syp is critically involved in the delay portion of the resetting mechanism of the circadian clock.

背景:哺乳动物可以通过提前或延迟其生物钟阶段来适应不断变化的光/暗条件。光脉冲会引起视交叉上核(SCN)基因表达和神经元活动的变化,视交叉上核是昼夜节律系统的中枢起搏器。神经元活动的改变部分是由突触前膜突触囊泡(SV)融合的改变介导的,突触囊泡融合调节神经递质的释放。方法:采用Aschoff I型重置模式对Syp基因敲除的雄性野生型小鼠和同窝对照野生型小鼠进行实验。此外,在SCN中评估了cFos、Per1和Per2的基因表达。最后,研究突触囊泡蛋白Syp和synaptobrevin (Syb)之间的复合物,以研究突触囊泡中蛋白质复合物的行为。结果:我们发现缺乏Syp(一种神经递质释放调节剂)的小鼠在延迟生物钟方面存在缺陷。相比之下,Syp-/-敲除小鼠的时钟阶段提前和时钟周期是正常的。这与Syp/Syb复合物的形成有关。结论:我们的研究结果表明,Syp特异性参与了对夜间发生的夜间光脉冲的反应。SV成分Syp似乎在生物钟重置机制的延迟部分起着关键作用。
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引用次数: 3
An out-of-lab trial: a case example for the effect of intensive exercise on rhythms of human clock gene expression. 实验室外试验:高强度运动对人体生物钟基因表达节律影响的案例。
Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2013-09-03 DOI: 10.1186/1740-3391-11-10
Akihiko Okamoto, Takuro Yamamoto, Ritsuko Matsumura, Koichi Node, Makoto Akashi

Background: Although out-of-lab investigation of the human circadian clock at the clock gene expression level remains difficult, a recent method using hair follicle cells might be useful. While exercise may function as an entrainment cue for circadian rhythms, it remains unclear whether exercise affects human circadian clock gene expression.

Methods: Efforts to observe apparent effects of exercise on clock gene expression require that several specific conditions be met: intense exercise should be habitually performed at a relatively uncommon time of day over an extended period; and any relative phase shift thereby observed should be validated by comparison of exercise and no-exercise periods. Wake-up and meal times should be kept almost constant over the experimental period. The present study was conducted using a professional fighter who met these strict criteria as subject. Facial hair samples were collected at 4-h intervals around the clock to ascertain rhythms of clock gene expression.

Results: During a period in which nighttime training (from 20:00 to 22:00) was habitually performed, circadian clock gene expression was phase-delayed by 2 to 4 h compared with that during a no-exercise period. Maximum level and circadian amplitude of clock gene expression were not affected by the nighttime training.

Conclusion: Our trial observations illustrate the possibility that heavy physical exercise might strongly affect the circadian phase of clock gene expression. Exercise might be therefore effective for the clinical care of circadian disorders. The results also suggest that athletes may require careful scheduling of heavy physical exercise to maintain normal circadian phase and ensure optimal athletic performance.

背景:尽管在生物钟基因表达水平上对人类生物钟的实验室外研究仍然很困难,但最近使用毛囊细胞的方法可能有用。虽然运动可能是昼夜节律的一种提示,但运动是否会影响人类生物钟基因的表达尚不清楚。方法:为了观察运动对生物钟基因表达的明显影响,需要满足几个特定的条件:高强度的运动应该习惯性地在一天中相对不常见的时间进行,并且要长时间进行;由此观察到的任何相对相移都应通过运动和非运动期间的比较来验证。在实验期间,起床和用餐时间应保持几乎不变。本研究以符合这些严格标准的职业拳击手为对象进行。每隔4小时采集面部毛发样本,以确定生物钟基因表达的节律。结果:在夜间训练期间(20:00 - 22:00),生物钟基因表达比不运动时延迟2 - 4小时。生物钟基因表达的最大水平和昼夜幅度不受夜间训练的影响。结论:我们的实验结果表明,剧烈的体育锻炼可能会强烈影响生物钟基因表达的昼夜节律阶段。因此,运动可能对昼夜节律紊乱的临床护理有效。结果还表明,运动员可能需要仔细安排大量的体育锻炼,以保持正常的昼夜节律,确保最佳的运动表现。
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引用次数: 20
Circadian behavior of mice deficient in PER1/PML or PER2/PML. PER1/PML或PER2/PML缺失小鼠的昼夜行为
Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2013-08-28 DOI: 10.1186/1740-3391-11-9
Takao Miki, Misty Chen-Goodspeed, Zhaoyang Zhao, Cheng Chi Lee

Background: Our recent studies demonstrate that the murine homolog of the human tumor suppressor promyelocytic leukemia (PML) regulates circadian behavior of mice. To further gather insight into PML's contribution to circadian behavior, we generated two strains of mice deficient in one of the two period (Per) genes and the PML gene, with Per1-/-/Pml-/- and Per2-/-/Pml-/- genotypes.

Results: Here we report the circadian behavior of these mice based on wheel-running behavioral analysis. In a free-running environment, the Per1-/-/Pml-/- mice maintained circadian rhythm but displayed a significantly shorter period of 22.2 h. In addition, these mice displayed significantly enhanced phase response to a light pulse given at zeitgeber time (ZT) 14 and 22. The Per2-/-/Pml-/- mice lose persistent rhythm when in a free-running environment, as also the case for Per2-/- mice. A transient post-light pulse rhythm seen in the arrhythmic Per2-/- mice was less apparent in Per2-/-/Pml-/- mice. Both the Per1-/-/Pml-/- and Per2-/-/Pml-/- mice displayed a more advanced phase angle of entrainment activity during light-dark cycles than the single gene deficient mice.

Conclusions: Beyond merely regulating PER1 and PER2, the current behavioral studies suggest PML has additional roles in mouse circadian behavior.

背景:我们最近的研究表明,人类肿瘤抑制因子早幼粒细胞白血病(PML)的小鼠同源物调节小鼠的昼夜节律行为。为了进一步了解PML对昼夜节律行为的贡献,我们培养了两株缺乏两个周期(Per)基因之一和PML基因的小鼠,分别为Per1-/-/ PML -/-和Per2-/-/ PML -/-基因型。结果:在此,我们报告了这些小鼠基于轮跑行为分析的昼夜节律行为。在自由运动环境下,Per1-/-/Pml-/-小鼠维持了昼夜节律,但其周期明显缩短,为22.2 h。此外,这些小鼠对授时时间(ZT) 14和22的光脉冲表现出显著增强的相位响应。Per2-/-/Pml-/-小鼠在自由奔跑的环境中失去了持久的节律,Per2-/-小鼠也是如此。在Per2-/-/Pml-/-小鼠中看到的瞬时光后脉冲节律在Per2-/-/Pml-/-小鼠中不太明显。与单基因缺陷小鼠相比,Per1-/-/Pml-/-和Per2-/-/ /Pml-/-小鼠在光-暗循环中表现出更先进的夹带活动相角。结论:除了仅仅调节PER1和PER2外,目前的行为研究表明PML在小鼠昼夜节律行为中还有其他作用。
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引用次数: 5
Diurnal and nutritional adjustments of intracellular Ca2+ release channels and Ca2+ ATPases associated with restricted feeding schedules in the rat liver. 大鼠肝脏细胞内Ca2+释放通道和Ca2+ atp酶与限制进食时间表相关的日和营养调节。
Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2013-08-20 DOI: 10.1186/1740-3391-11-8
Adrián Báez-Ruiz, Karina Cázares-Gómez, Olivia Vázquez-Martínez, Raúl Aguilar-Roblero, Mauricio Díaz-Muñoz

Background: Intracellular calcium is a biochemical messenger that regulates part of the metabolic adaptations in the daily fed-fast cycle. The aim of this study was to characterize the 24-h variations of the liver ryanodine and IP3 receptors (RyR and IP3R) as well as of the endoplasmic-reticulum and plasma-membrane Ca2+-ATPases (SERCA and PMCA) in daytime restricted feeding protocol.

Methods: A biochemical and immunohistochemical approach was implemented in this study: specific ligand-binding for RyR and IP3R, enzymatic activity (SERCA and PMCA), and protein levels and zonational hepatic-distribution were determined by immunoblot and immunohistochemistry respectively under conditions of fasting, feeding, and temporal food-restriction.

Results: Binding assays and immunoblots for IP3R1 and 2 showed a peak at the light/dark transition in the ad-libitum (AL) group, whereas in the restricted-feeding (RF) group the peak shifted towards the food-access time. In the case of RyR binding experiments, both AL and RF groups showed a modest elevation during the dark period, with the RF rats exhibiting increased binding in response to feeding. The AL group showed 24-h rhythmicity in SERCA level; in contrast, RF group showed a pronounced amplitude elevation and a peak phase-shift during the light-period in SERCA level and activity. The activity of PMCA was constant along day in both groups; PMCA1 levels showed a 24-h rhythmicity in the RF rats (with a peak in the light period), meanwhile PMCA4 protein levels showed rhythmicity in both groups. The fasted condition promoted an increase in IP3R binding and protein level; re-feeding increased the amount of RyR; neither the activity nor expression of SERCA and PMCA protein was affected by fasting-re-feeding conditions. Histochemical experiments showed that the distribution of the Ca2+-handling proteins, between periportal and pericentral zones of the liver, varied with the time of day and the feeding protocol.

Conclusions: Our findings show that RF influences mainly the phase and amplitude of hepatic IP3R and SERCA rhythms as well as discrete zonational distribution for RyR, IP3Rs, SERCA, and PMCA within the liver acinus, suggesting that intracellular calcium dynamics could be part of the rheostatic adaptation of the liver due to diurnal meal entrainment/food entrained oscillator expression.

背景:细胞内钙是一种生化信使,在日常喂快循环中调节部分代谢适应。本研究的目的是表征在白天限制喂养方案中肝脏红嘌呤和IP3受体(RyR和IP3R)以及内质网和质膜Ca2+- atp酶(SERCA和PMCA)的24小时变化。方法:本研究采用生化和免疫组织化学方法:在禁食、进食和暂时限食条件下,分别采用免疫印迹和免疫组织化学方法检测RyR和IP3R的特异性配体结合、酶活性(SERCA和PMCA)、蛋白质水平和肝脏分带分布。结果:IP3R1和IP3R1的结合试验和免疫印迹显示,在自由进食(AL)组中,IP3R1和IP3R1的峰值出现在明暗转换时,而在限制进食(RF)组中,IP3R1和IP3R1的峰值向进食时间方向移动。在RyR结合实验中,AL组和RF组在黑暗期均表现出适度的升高,RF大鼠在进食后表现出增加的结合。AL组SERCA水平呈24 h节律性;RF组的SERCA水平和活动在光照期表现出明显的振幅升高和峰相移。两组大鼠PMCA活性均保持不变;PMCA1蛋白水平在RF大鼠中呈24小时节律性(在光照期达到峰值),PMCA4蛋白水平在两组中均呈节律性。禁食促进了IP3R结合和蛋白水平的升高;再投喂增加了RyR的量;禁食-再饲喂条件不影响SERCA和PMCA蛋白的活性和表达。组织化学实验表明,Ca2+处理蛋白在肝脏门静脉周围和中心周围区域的分布随着一天中的时间和喂养方案而变化。结论:我们的研究结果表明,射频主要影响肝脏IP3R和SERCA节律的相位和幅度,以及肝腺泡内RyR、IP3Rs、SERCA和PMCA的离散分带分布,这表明细胞内钙动力学可能是肝脏由于昼夜膳食夹带/食物夹带振荡表达而产生的流变适应的一部分。
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引用次数: 6
Methods for serial analysis of long time series in the study of biological rhythms. 生物节律研究中的长时间序列序列分析方法。
Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2013-07-18 DOI: 10.1186/1740-3391-11-7
Antoni Díez-Noguera

When one is faced with the analysis of long time series, one often finds that the characteristics of circadian rhythms vary with time throughout the series. To cope with this situation, the whole series can be fragmented into successive sections which are analyzed one after the other, which constitutes a serial analysis. This article discusses serial analysis techniques, beginning with the characteristics that the sections must have and how they can affect the results. After consideration of the effects of some simple filters, different types of serial analysis are discussed systematically according to the variable analyzed or the estimated parameters: scalar magnitudes, angular magnitudes (time or phase), magnitudes related to frequencies (or periods), periodograms, and derived and / or special magnitudes and variables. The use of wavelet analysis and convolutions in long time series is also discussed. In all cases the fundamentals of each method are exposed, jointly with practical considerations and graphic examples. The final section provides information about software available to perform this type of analysis.

在对较长的时间序列进行分析时,人们往往会发现昼夜节律的特征在整个序列中随时间而变化。为了应对这种情况,可以将整个序列分割成连续的部分,一个接一个地进行分析,这就是序列分析。本文将讨论序列分析技术,首先介绍各部分必须具备的特征以及这些特征如何影响分析结果。在考虑了一些简单滤波器的影响之后,本文将根据所分析的变量或估算的参数,系统地讨论不同类型的序列分析:标量幅度、角度幅度(时间或相位)、与频率(或周期)相关的幅度、周期图以及派生和/或特殊幅度和变量。此外,还讨论了在长时间序列中使用小波分析和卷积的问题。在所有情况下,每种方法的基本原理都会结合实际考虑因素和图形示例进行阐述。最后一节介绍了可用于进行此类分析的软件。
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引用次数: 0
Maximum entropy spectral analysis for circadian rhythms: theory, history and practice. 昼夜节律的最大熵谱分析:理论、历史和实践。
Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2013-07-11 DOI: 10.1186/1740-3391-11-6
Harold B Dowse

There is an array of numerical techniques available to estimate the period of circadian and other biological rhythms. Criteria for choosing a method include accuracy of period measurement, resolution of signal embedded in noise or of multiple periodicities, and sensitivity to the presence of weak rhythms and robustness in the presence of stochastic noise. Maximum Entropy Spectral Analysis (MESA) has proven itself excellent in all regards. The MESA algorithm fits an autoregressive model to the data and extracts the spectrum from its coefficients. Entropy in this context refers to "ignorance" of the data and since this is formally maximized, no unwarranted assumptions are made. Computationally, the coefficients are calculated efficiently by solution of the Yule-Walker equations in an iterative algorithm. MESA is compared here to other common techniques. It is normal to remove high frequency noise from time series using digital filters before analysis. The Butterworth filter is demonstrated here and a danger inherent in multiple filtering passes is discussed.

有一系列的数值技术可用于估计昼夜节律和其他生物节律的周期。选择方法的标准包括周期测量的准确性,嵌入噪声或多周期的信号的分辨率,对弱节奏存在的敏感性和随机噪声存在的鲁棒性。最大熵谱分析(MESA)在各个方面都证明了自己的优点。MESA算法对数据拟合一个自回归模型,并从其系数中提取频谱。在这种情况下,熵指的是对数据的“无知”,由于这在形式上是最大化的,因此不会做出毫无根据的假设。计算上,采用迭代法求解Yule-Walker方程,有效地计算了系数。这里将MESA与其他常用技术进行比较。在分析之前,使用数字滤波器去除时间序列中的高频噪声是正常的。这里演示了巴特沃斯滤波器,并讨论了多次滤波过程中固有的危险。
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引用次数: 19
Wavelet analysis of circadian and ultradian behavioral rhythms. 昼夜节律和超昼夜行为节律的小波分析。
Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2013-07-01 DOI: 10.1186/1740-3391-11-5
Tanya L Leise

: We review time-frequency methods that can be useful in quantifying circadian and ultradian patterns in behavioral records. These records typically exhibit details that may not be captured through commonly used measures such as activity onset and so may require alternative approaches. For instance, activity may involve multiple bouts that vary in duration and magnitude within a day, or may exhibit day-to-day changes in period and in ultradian activity patterns. The discrete Fourier transform and other types of periodograms can estimate the period of a circadian rhythm, but we show that they can fail to correctly assess ultradian periods. In addition, such methods cannot detect changes in the period over time. Time-frequency methods that can localize frequency estimates in time are more appropriate for analysis of ultradian periods and of fluctuations in the period. The continuous wavelet transform offers a method for determining instantaneous frequency with good resolution in both time and frequency, capable of detecting changes in circadian period over the course of several days and in ultradian period within a given day. The discrete wavelet transform decomposes a time series into components associated with distinct frequency bands, thereby facilitating the removal of noise and trend or the isolation of a particular frequency band of interest. To demonstrate the wavelet-based analysis, we apply the transforms to a numerically-generated example and also to a variety of hamster behavioral records. When used appropriately, wavelet transforms can reveal patterns that are not easily extracted using other methods of analysis in common use, but they must be applied and interpreted with care.

我们回顾了可用于量化行为记录中的昼夜节律和超昼夜模式的时频方法。这些记录典型地展示了一些细节,这些细节可能无法通过常用的度量(如活动开始)获得,因此可能需要其他方法。例如,活动可能涉及在一天内持续时间和强度变化的多次发作,或者可能在周期和超活动模式中表现出每天的变化。离散傅里叶变换和其他类型的周期图可以估计昼夜节律的周期,但我们表明它们不能正确评估超周期。此外,这种方法不能检测到时间的变化。能够及时定位频率估计的时频方法更适合于分析超周期和周期内的波动。连续小波变换提供了一种确定瞬时频率的方法,在时间和频率上都具有良好的分辨率,能够检测几天内的昼夜节律周期变化和给定一天内的超昼夜周期变化。离散小波变换将时间序列分解成与不同频带相关的分量,从而有助于去除噪声和趋势或隔离感兴趣的特定频带。为了演示基于小波的分析,我们将变换应用于数值生成的示例以及各种仓鼠行为记录。如果使用得当,小波变换可以揭示用其他常用分析方法不容易提取的模式,但必须谨慎应用和解释它们。
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引用次数: 76
期刊
Journal of Circadian Rhythms
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