Pub Date : 2021-11-10DOI: 10.14279/DEPOSITONCE-12635
Viola Priesemann, E. Bodenschatz, S. Ciesek, E. Grill, Emil N. Iftekhar, C. Karagiannidis, A. Karch, M. Kretzschmar, B. Lange, S. Muller, K. Nagel, A. Nassehi, M. W. Pletz, B. Prainsack, U. Protzer, L. E. Sander, A. Schuppert, Anita Schobel, K. Uberla, C. Watzl, Hajo Zeeb Max-Planck-Institut fur Dynamik und Selbstorganisation, Gottingen, Universitätsklinikum Frankfurt, Goethe-Universitat, M Frankfurt, Institut fur Medizinische Informationsverarbeitung, Biometrie und Epidemiologie, Ludwig-Maximilians-Universitat Munchen, Munchen, Lungenklinik Koln-Merheim, Universitat Witten Herdecke, Westfalische Wilhelms-Universitat Munster, Munster, University Medical Center Utrecht, Utrecht, Die Niederlande, Epidemiologie, Helmholtz-Zentrum fur Infektionsforschung, Braunschweig, Fachgebiet Verkehrssystemplanung und Verkehrstelematik, Technische Universitat Berlin, Berlin, Institut fur Soziologie, Institut fur Infektionsmedizin und Krankenhaushygiene, Universitätsklinikum Jena, Jena, Institut fur Politikwissenschaft, Un
In this position paper, a large group of interdisciplinary experts outlines response strategies against the spread of SARS-CoV-2 in the winter of 2021/2022 in Germany. We review the current state of the COVID-19 pandemic, from incidence and vaccination efficacy to hospital capacity. Building on this situation assessment, we illustrate various possible scenarios for the winter, and detail the mechanisms and effectiveness of the non-pharmaceutical interventions, vaccination, and booster. With this assessment, we want to provide orientation for decision makers about the progress and mitigation of COVID-19.
{"title":"Nachhaltige Strategien gegen die COVID-19-Pandemie in Deutschland im Winter 2021/2022","authors":"Viola Priesemann, E. Bodenschatz, S. Ciesek, E. Grill, Emil N. Iftekhar, C. Karagiannidis, A. Karch, M. Kretzschmar, B. Lange, S. Muller, K. Nagel, A. Nassehi, M. W. Pletz, B. Prainsack, U. Protzer, L. E. Sander, A. Schuppert, Anita Schobel, K. Uberla, C. Watzl, Hajo Zeeb Max-Planck-Institut fur Dynamik und Selbstorganisation, Gottingen, Universitätsklinikum Frankfurt, Goethe-Universitat, M Frankfurt, Institut fur Medizinische Informationsverarbeitung, Biometrie und Epidemiologie, Ludwig-Maximilians-Universitat Munchen, Munchen, Lungenklinik Koln-Merheim, Universitat Witten Herdecke, Westfalische Wilhelms-Universitat Munster, Munster, University Medical Center Utrecht, Utrecht, Die Niederlande, Epidemiologie, Helmholtz-Zentrum fur Infektionsforschung, Braunschweig, Fachgebiet Verkehrssystemplanung und Verkehrstelematik, Technische Universitat Berlin, Berlin, Institut fur Soziologie, Institut fur Infektionsmedizin und Krankenhaushygiene, Universitätsklinikum Jena, Jena, Institut fur Politikwissenschaft, Un","doi":"10.14279/DEPOSITONCE-12635","DOIUrl":"https://doi.org/10.14279/DEPOSITONCE-12635","url":null,"abstract":"In this position paper, a large group of interdisciplinary experts outlines response strategies against the spread of SARS-CoV-2 in the winter of 2021/2022 in Germany. We review the current state of the COVID-19 pandemic, from incidence and vaccination efficacy to hospital capacity. Building on this situation assessment, we illustrate various possible scenarios for the winter, and detail the mechanisms and effectiveness of the non-pharmaceutical interventions, vaccination, and booster. With this assessment, we want to provide orientation for decision makers about the progress and mitigation of COVID-19.","PeriodicalId":8460,"journal":{"name":"arXiv: Other Quantitative Biology","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-11-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"77189792","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2020-10-23DOI: 10.13140/RG.2.2.33735.73122
M. Dayer
The pandemic threat of COVID-19 with more than 37 million cases in which about 5 percent entering critical stage characterized by cytokine storm and hyperinflammatory condition, the state more often leads to admission to intensive care unit with rapid mortality. Janus kinase enzymes of Jak-1, Jak-2, Jak-3, and Tyk2 seem to be good targets for inhibition by medications to control cytokine storm in this context. In the present work, the inhibitory properties of different analgesic drugs on these targets are studied to assess their ability for clinical application from different points of view. Our docking results indicated that naproxen, methadone, and amitriptyline considering their higher binding energy, lower energy variance, and higher hydrophobicity, seem to express more inhibitory effects on Janus kinase enzymes than thats for approved inhibitors i.e. baricitinib and ruxolitinib. Accordingly, we suggest our wide list of candidate drugs including indomethacin, etodolac, buprenorphine, rofecoxib, duloxetine, valdecoxib, naproxen, methadone, and amitriptilin for clinical assessments for their usefulness in COVID-19 treatment, especially taking into account that up to now, there is no approved cure for this disease.
{"title":"Old Drugs for JAK-STAT Pathway Inhibition in COVID-19","authors":"M. Dayer","doi":"10.13140/RG.2.2.33735.73122","DOIUrl":"https://doi.org/10.13140/RG.2.2.33735.73122","url":null,"abstract":"The pandemic threat of COVID-19 with more than 37 million cases in which about 5 percent entering critical stage characterized by cytokine storm and hyperinflammatory condition, the state more often leads to admission to intensive care unit with rapid mortality. Janus kinase enzymes of Jak-1, Jak-2, Jak-3, and Tyk2 seem to be good targets for inhibition by medications to control cytokine storm in this context. In the present work, the inhibitory properties of different analgesic drugs on these targets are studied to assess their ability for clinical application from different points of view. Our docking results indicated that naproxen, methadone, and amitriptyline considering their higher binding energy, lower energy variance, and higher hydrophobicity, seem to express more inhibitory effects on Janus kinase enzymes than thats for approved inhibitors i.e. baricitinib and ruxolitinib. Accordingly, we suggest our wide list of candidate drugs including indomethacin, etodolac, buprenorphine, rofecoxib, duloxetine, valdecoxib, naproxen, methadone, and amitriptilin for clinical assessments for their usefulness in COVID-19 treatment, especially taking into account that up to now, there is no approved cure for this disease.","PeriodicalId":8460,"journal":{"name":"arXiv: Other Quantitative Biology","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2020-10-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"79511213","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Yu-Whuei Hu, Li-Shan Huang, E. Yeh, Mai He National Dong Hwa University, Hualian, Taiwan National Tsing Hua University, Hsinchu, Taiwan Amgen Inc. Thousand Oaks, Ca, Usa Department of PathologyImmunology, Washington University School of Medicine, S. Louis, Mo., Usa
Objective: Falun Gong (FLG) is a practice of mind and body focusing on moral character improvement along with meditative exercises. This 2002 pilot study explored perceived health status, medical resource utilization and related factors among Taiwanese FLG practitioners, compared to the general Taiwanese norm estimated by the 2001 National Health Interview Survey (NHIS). Methods: This cross-sectional, observational study was based on a voluntary, paper-based survey conducted from October 2002 to February 2003 using the same Taiwanese SF-36 instrument employed by the NHIS. Primary outcomes included eight SF-36 domain scores and the number of medical visits. One-sample t-tests, one-way ANOVA and multivariate linear regression analyses were performed. Results: The response rate was 75.6% (1,210/1,600). Compared to the norm, the study cohort had significantly higher scores in six of eight SF-36 domains across gender and age (p<0.05). Among those with chronic diseases, 70% to 89% reported their conditions either improved or cured. 74.2%, 79.2%, 83.3%, and 85.6% quitted alcohol drinking, smoking, chewing betel nuts, and gambling. 62.7% reported a reduced number of medical visits (mean=13.53 before; mean=5.87 after). Conclusions: In this subject cohort, practicing FLG led to higher perceived health scores and reduced health resource utilization compared to the norm.
{"title":"Healthcare Utilization and Perceived Health Status from Falun Gong Practitioners in Taiwan: A Pilot SF-36 Survey","authors":"Yu-Whuei Hu, Li-Shan Huang, E. Yeh, Mai He National Dong Hwa University, Hualian, Taiwan National Tsing Hua University, Hsinchu, Taiwan Amgen Inc. Thousand Oaks, Ca, Usa Department of PathologyImmunology, Washington University School of Medicine, S. Louis, Mo., Usa","doi":"10.2139/ssrn.3663179","DOIUrl":"https://doi.org/10.2139/ssrn.3663179","url":null,"abstract":"Objective: Falun Gong (FLG) is a practice of mind and body focusing on moral character improvement along with meditative exercises. This 2002 pilot study explored perceived health status, medical resource utilization and related factors among Taiwanese FLG practitioners, compared to the general Taiwanese norm estimated by the 2001 National Health Interview Survey (NHIS). Methods: This cross-sectional, observational study was based on a voluntary, paper-based survey conducted from October 2002 to February 2003 using the same Taiwanese SF-36 instrument employed by the NHIS. Primary outcomes included eight SF-36 domain scores and the number of medical visits. One-sample t-tests, one-way ANOVA and multivariate linear regression analyses were performed. Results: The response rate was 75.6% (1,210/1,600). Compared to the norm, the study cohort had significantly higher scores in six of eight SF-36 domains across gender and age (p<0.05). Among those with chronic diseases, 70% to 89% reported their conditions either improved or cured. 74.2%, 79.2%, 83.3%, and 85.6% quitted alcohol drinking, smoking, chewing betel nuts, and gambling. 62.7% reported a reduced number of medical visits (mean=13.53 before; mean=5.87 after). Conclusions: In this subject cohort, practicing FLG led to higher perceived health scores and reduced health resource utilization compared to the norm.","PeriodicalId":8460,"journal":{"name":"arXiv: Other Quantitative Biology","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2020-07-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"89341548","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2020-06-01DOI: 10.13140/RG.2.2.14683.00806
Shakeela Bibi, Javed Iqbal, Adnan Iftekhar, Mir Hassan
Biological data mainly comprises of Deoxyribonucleic acid (DNA) and protein sequences. These are the biomolecules which are present in all cells of human beings. Due to the self-replicating property of DNA, it is a key constitute of genetic material that exist in all breathingcreatures. This biomolecule (DNA) comprehends the genetic material obligatory for the operational and expansion of all personified lives. To save DNA data of single person we require 10CD-ROMs.Moreover, this size is increasing constantly, and more and more sequences are adding in the public databases. This abundant increase in the sequence data arise challenges in the precise information extraction from this data. Since many data analyzing and visualization tools do not support processing of this huge amount of data. To reduce the size of DNA and protein sequence, many scientists introduced various types of sequence compression algorithms such as compress or gzip, Context Tree Weighting (CTW), Lampel Ziv Welch (LZW), arithmetic coding, run-length encoding and substitution method etc. These techniques have sufficiently contributed to minimizing the volume of the biological datasets. On the other hand, traditional compression techniques are also not much suitable for the compression of these types of sequential data. In this paper, we have explored diverse types of techniques for compression of large amounts of DNA Sequence Data. In this paper, the analysis of techniques reveals that efficient techniques not only reduce the size of the sequence but also avoid any information loss. The review of existing studies also shows that compression of a DNA sequence is significant for understanding the critical characteristics of DNA data in addition to improving storage efficiency and data transmission. In addition, the compression of the protein sequence is a challenge for the research community. The major parameters for evaluation of these compression algorithms include compression ratio, running time complexity etc.
生物学数据主要包括脱氧核糖核酸(DNA)和蛋白质序列。这些是存在于人类所有细胞中的生物分子。由于DNA具有自我复制的特性，它是存在于所有呼吸生物体内的遗传物质的关键组成部分。这个生物分子(DNA)理解所有人格化生命的运作和扩展所必需的遗传物质。为了保存单个人的DNA数据，我们需要10cd - rom。而且这个规模还在不断增加，越来越多的序列被添加到公共数据库中。序列数据的大量增加给从这些数据中精确提取信息带来了挑战。由于许多数据分析和可视化工具不支持处理如此庞大的数据量。为了减小DNA和蛋白质序列的大小，许多科学家引入了各种类型的序列压缩算法，如compress或gzip、上下文树加权(Context Tree Weighting, CTW)、Lampel Ziv Welch (LZW)、算法编码、运行长度编码和替代法等。这些技术已充分有助于减少生物数据集的数量。另一方面，传统的压缩技术也不太适合压缩这些类型的顺序数据。在本文中，我们探讨了不同类型的技术压缩大量的DNA序列数据。本文通过对技术的分析表明，有效的技术不仅可以减小序列的大小，而且可以避免任何信息的丢失。对现有研究的回顾也表明，DNA序列压缩除了提高存储效率和数据传输外，对理解DNA数据的关键特征具有重要意义。此外，蛋白质序列的压缩是研究界面临的一个挑战。评价这些压缩算法的主要参数包括压缩比、运行时间复杂度等。
{"title":"Analysis of Compression Techniques for DNA Sequence Data","authors":"Shakeela Bibi, Javed Iqbal, Adnan Iftekhar, Mir Hassan","doi":"10.13140/RG.2.2.14683.00806","DOIUrl":"https://doi.org/10.13140/RG.2.2.14683.00806","url":null,"abstract":"Biological data mainly comprises of Deoxyribonucleic acid (DNA) and protein sequences. These are the biomolecules which are present in all cells of human beings. Due to the self-replicating property of DNA, it is a key constitute of genetic material that exist in all breathingcreatures. This biomolecule (DNA) comprehends the genetic material obligatory for the operational and expansion of all personified lives. To save DNA data of single person we require 10CD-ROMs.Moreover, this size is increasing constantly, and more and more sequences are adding in the public databases. This abundant increase in the sequence data arise challenges in the precise information extraction from this data. Since many data analyzing and visualization tools do not support processing of this huge amount of data. To reduce the size of DNA and protein sequence, many scientists introduced various types of sequence compression algorithms such as compress or gzip, Context Tree Weighting (CTW), Lampel Ziv Welch (LZW), arithmetic coding, run-length encoding and substitution method etc. These techniques have sufficiently contributed to minimizing the volume of the biological datasets. On the other hand, traditional compression techniques are also not much suitable for the compression of these types of sequential data. In this paper, we have explored diverse types of techniques for compression of large amounts of DNA Sequence Data. In this paper, the analysis of techniques reveals that efficient techniques not only reduce the size of the sequence but also avoid any information loss. The review of existing studies also shows that compression of a DNA sequence is significant for understanding the critical characteristics of DNA data in addition to improving storage efficiency and data transmission. In addition, the compression of the protein sequence is a challenge for the research community. The major parameters for evaluation of these compression algorithms include compression ratio, running time complexity etc.","PeriodicalId":8460,"journal":{"name":"arXiv: Other Quantitative Biology","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2020-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"86508552","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2020-05-18DOI: 10.6084/m9.figshare.11302706.v2
P. B. Grant, Todd R. Lewis, T. Laduke, C. Ryall
We document opportunistic foraging behavior by Caiman crocodilus in a post-inundation forest at Estacion Biologica Cano Palma, Costa Rica.
我们记录了凯门鳄在哥斯达黎加卡诺帕尔马的一个淹没后的森林中的机会主义觅食行为。
{"title":"Caiman crocodilus (Spectacled caiman). Opportunistic foraging","authors":"P. B. Grant, Todd R. Lewis, T. Laduke, C. Ryall","doi":"10.6084/m9.figshare.11302706.v2","DOIUrl":"https://doi.org/10.6084/m9.figshare.11302706.v2","url":null,"abstract":"We document opportunistic foraging behavior by Caiman crocodilus in a post-inundation forest at Estacion Biologica Cano Palma, Costa Rica.","PeriodicalId":8460,"journal":{"name":"arXiv: Other Quantitative Biology","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2020-05-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"85636623","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2020-03-05DOI: 10.20944/preprints202003.0438.v1
J. Monge-Nájera
Velvet worms, or onychophorans, include placental species and, as a phylum, have survived all mass extinctions since the Cambrian. They capture prey with an extraordinary adhesive net that appears in an instant. The first naturalist to formally mention them was Lansdown Guilding (1797-1831), a British priest from the Caribbean island of Saint Vincent. His life is as little known as the history of the field he initiated, onychophorology. This is the first general history of onychophorology, and I have divided it into half century periods. The beginning, 1826-1879, was defined by former students of great names in the history of biology, like Cuvier and von Baer. This generation included Milne-Edwars and Blanchard, and the greatest advances came from France, with smaller but still important contributions from England and Germany. In the 1880-1929 period, work concentrated in anatomy, behavior, biogeography and ecology, but of course the most important work was Bouvier’s mammoth monograph. The next half century, 1930-1979, was important for the discovery of Cambrian species; Vachon’s explanation of how ancient distribution defined the existence of two families; Pioneer DNA and electron microscopy from Brazil; and primitive attempts at systematics using embryology or isolated anatomical characteristics. Finally, the 1980-2020 period, with research centered in Australia, Brazil, Costa Rica and Germany, is marked by an evolutionary approach to everything, from body and behavior to distribution; for the solution of the old problem of how they form their adhesive net and how the glue works; the reconstruction of Cambrian onychophoran communities, the first experimental taphonomy; the first country-wide map of conservation status (from Costa Rica); the first model of why they survive in cities; the discovery of new phenomena like food hiding, parental feeding investment and ontogenetic diet shift; and for the birth of a new research branch, Onychophoran Ethnobiology, founded in 2015. While a few names appear often in the literature, most knowledge was produced by a mass of researchers who entered the field only briefly.
{"title":"History of Onychophorology, 1826-2020","authors":"J. Monge-Nájera","doi":"10.20944/preprints202003.0438.v1","DOIUrl":"https://doi.org/10.20944/preprints202003.0438.v1","url":null,"abstract":"Velvet worms, or onychophorans, include placental species and, as a phylum, have survived all mass extinctions since the Cambrian. They capture prey with an extraordinary adhesive net that appears in an instant. The first naturalist to formally mention them was Lansdown Guilding (1797-1831), a British priest from the Caribbean island of Saint Vincent. His life is as little known as the history of the field he initiated, onychophorology. This is the first general history of onychophorology, and I have divided it into half century periods. The beginning, 1826-1879, was defined by former students of great names in the history of biology, like Cuvier and von Baer. This generation included Milne-Edwars and Blanchard, and the greatest advances came from France, with smaller but still important contributions from England and Germany. In the 1880-1929 period, work concentrated in anatomy, behavior, biogeography and ecology, but of course the most important work was Bouvier’s mammoth monograph. The next half century, 1930-1979, was important for the discovery of Cambrian species; Vachon’s explanation of how ancient distribution defined the existence of two families; Pioneer DNA and electron microscopy from Brazil; and primitive attempts at systematics using embryology or isolated anatomical characteristics. Finally, the 1980-2020 period, with research centered in Australia, Brazil, Costa Rica and Germany, is marked by an evolutionary approach to everything, from body and behavior to distribution; for the solution of the old problem of how they form their adhesive net and how the glue works; the reconstruction of Cambrian onychophoran communities, the first experimental taphonomy; the first country-wide map of conservation status (from Costa Rica); the first model of why they survive in cities; the discovery of new phenomena like food hiding, parental feeding investment and ontogenetic diet shift; and for the birth of a new research branch, Onychophoran Ethnobiology, founded in 2015. While a few names appear often in the literature, most knowledge was produced by a mass of researchers who entered the field only briefly.","PeriodicalId":8460,"journal":{"name":"arXiv: Other Quantitative Biology","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2020-03-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"78057335","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2020-02-27DOI: 10.19080/JOJHA.2020.03.555602
A. Kholmanskiy, N. Zaytseva
The regularity of the distribution of chlorophylls content in a series of 30 cultivated plants and 75 steppe grasses was studied. The increased content of chlorophyll and magnesium in vegetables and grains compared with greens and steppe grasses is associated with more complex genetics of metabolism, which has stages of flowering and fruiting. The chlorophyll content increases with the use of LED phytoirradiators with an emission band coinciding with the first absorption band of chlorophyll. Industrial electromagnetic fields can affect the biosynthesis of pigments in deciduous trees, but cultivated herbaceous plants are not sensitive to them.
{"title":"Dependence of chlorophyll content in leaves from light regime, electromagnetic fields and plant species","authors":"A. Kholmanskiy, N. Zaytseva","doi":"10.19080/JOJHA.2020.03.555602","DOIUrl":"https://doi.org/10.19080/JOJHA.2020.03.555602","url":null,"abstract":"The regularity of the distribution of chlorophylls content in a series of 30 cultivated plants and 75 steppe grasses was studied. The increased content of chlorophyll and magnesium in vegetables and grains compared with greens and steppe grasses is associated with more complex genetics of metabolism, which has stages of flowering and fruiting. The chlorophyll content increases with the use of LED phytoirradiators with an emission band coinciding with the first absorption band of chlorophyll. Industrial electromagnetic fields can affect the biosynthesis of pigments in deciduous trees, but cultivated herbaceous plants are not sensitive to them.","PeriodicalId":8460,"journal":{"name":"arXiv: Other Quantitative Biology","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2020-02-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"84033479","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
J. de Pedro-Carracedo, D. Fuentes-Jiménez, A. Ugena, A. Gonzalez-Marcos
In the analysis of biological time series, the state space comprises a framework for the study of systems with presumably deterministic properties. However, a physiological experiment typically captures an observable, or, in other words, a series of scalar measurements that characterize the temporal response of the physiological system under study; the dynamic variables that make up the state of the system at any time are not available. Therefore, only from the acquired observations should state vectors reconstructed to emulate the different states of the underlying system. It is what is known as the reconstruction of the state space, called phase space in real-world signals, for now only satisfactorily resolved using the method of delays. Each state vector consists of m components, extracted from successive observations delayed a time t. The morphology of the geometric structure described by the state vectors, as well as their properties, depends on the chosen parameters t and m. The real dynamics of the system under study is subject to the correct determination of the parameters t and m. Only in this way can be deduced characteristics with true physical meaning, revealing aspects that reliably identify the dynamic complexity of the physiological system. The biological signal presented in this work, as a case study, is the PhotoPlethysmoGraphic (PPG) signal. We find that m is five for all the subjects analyzed and that t depends on the time interval in which it evaluates. The Henon map and the Lorenz flow are used to facilitate a more intuitive understanding of applied techniques.
{"title":"Phase Space Reconstruction from a Biological Time Series: A Photoplethysmographic Signal Case Study","authors":"J. de Pedro-Carracedo, D. Fuentes-Jiménez, A. Ugena, A. Gonzalez-Marcos","doi":"10.3390/app10041430","DOIUrl":"https://doi.org/10.3390/app10041430","url":null,"abstract":"In the analysis of biological time series, the state space comprises a framework for the study of systems with presumably deterministic properties. However, a physiological experiment typically captures an observable, or, in other words, a series of scalar measurements that characterize the temporal response of the physiological system under study; the dynamic variables that make up the state of the system at any time are not available. Therefore, only from the acquired observations should state vectors reconstructed to emulate the different states of the underlying system. It is what is known as the reconstruction of the state space, called phase space in real-world signals, for now only satisfactorily resolved using the method of delays. Each state vector consists of m components, extracted from successive observations delayed a time t. The morphology of the geometric structure described by the state vectors, as well as their properties, depends on the chosen parameters t and m. The real dynamics of the system under study is subject to the correct determination of the parameters t and m. Only in this way can be deduced characteristics with true physical meaning, revealing aspects that reliably identify the dynamic complexity of the physiological system. The biological signal presented in this work, as a case study, is the PhotoPlethysmoGraphic (PPG) signal. We find that m is five for all the subjects analyzed and that t depends on the time interval in which it evaluates. The Henon map and the Lorenz flow are used to facilitate a more intuitive understanding of applied techniques.","PeriodicalId":8460,"journal":{"name":"arXiv: Other Quantitative Biology","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2019-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"83780747","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2019-02-25DOI: 10.1016/bs.host.2017.05.003
A. Rao, R. Anderson
{"title":"Helminth Dynamics: Mean Number of Worms, Reproductive Rates","authors":"A. Rao, R. Anderson","doi":"10.1016/bs.host.2017.05.003","DOIUrl":"https://doi.org/10.1016/bs.host.2017.05.003","url":null,"abstract":"","PeriodicalId":8460,"journal":{"name":"arXiv: Other Quantitative Biology","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2019-02-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"76843837","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2019-02-06DOI: 10.31838/ijpr/2019.11.01.031
Fazlul Mkk, A. Najnin, Y. Farzana, M. Rashid, S. Deepthi, C. Srikumar, SS Rashid, Nazmul Mhm
Background: Pseudomonas aeruginosa has emerged as a significant opportunistic bacterial pathogen that causes nosocomial infections in healthcare settings resulting in treatment failure throughout the world. This study was carried out to compare the relatedness between virulence characteristics and β-lactamase encoding genes producing Pseudomonas aeruginosa. Methods: A total of 120 P. aeruginosa isolates were obtained from both paediatric and adult patients of Selayang Hospital, Kuala Lumpur, Malaysia. Phenotypic methods were used to detect various virulence factors (Phospholipase, Hemolysin, Gelatinase, DNAse, and Biofilm). All the isolates were evaluated for production of extended spectrum beta-lactamase (ESBL) as well as metallo β-lactamase (MBL) by Double-disk synergy test (DDST) and E-test while AmpC β-lactamase production was detected by disk antagonism test.
{"title":"Detection of virulence factors and β lactamase encoding genes among the clinical isolates of Pseudomonas aeruginosa","authors":"Fazlul Mkk, A. Najnin, Y. Farzana, M. Rashid, S. Deepthi, C. Srikumar, SS Rashid, Nazmul Mhm","doi":"10.31838/ijpr/2019.11.01.031","DOIUrl":"https://doi.org/10.31838/ijpr/2019.11.01.031","url":null,"abstract":"Background: Pseudomonas aeruginosa has emerged as a significant opportunistic bacterial pathogen that causes nosocomial infections in healthcare settings resulting in treatment failure throughout the world. This study was carried out to compare the relatedness between virulence characteristics and β-lactamase encoding genes producing Pseudomonas aeruginosa. \u0000Methods: A total of 120 P. aeruginosa isolates were obtained from both paediatric and adult patients of Selayang Hospital, Kuala Lumpur, Malaysia. Phenotypic methods were used to detect various virulence factors (Phospholipase, Hemolysin, Gelatinase, DNAse, and Biofilm). All the isolates were evaluated for production of extended spectrum beta-lactamase (ESBL) as well as metallo β-lactamase (MBL) by Double-disk synergy test (DDST) and E-test while AmpC β-lactamase production was detected by disk antagonism test.","PeriodicalId":8460,"journal":{"name":"arXiv: Other Quantitative Biology","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2019-02-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"76341478","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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