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  1. Article ; Online: Combinatorial Libraries of Metal-Ligand Assemblies with an Encapsulated Guest Molecule Coordination Number Incommensurate Cluster Formation, Part 17. Financial support of this work was provided by NSF CHE-9709621 and a NATO-NSF exchange grant SRG 951516. We thank the Miller Foundation for a fellowship to M.Z. Part 16: R. M. Yeh, M. Ziegler, D. W. Johnson, A. J. Terpin, K. N. Raymond, Inorg. Chem. 2001, in press.

    Ziegler, Marco / Miranda, J. J. / Andersen, Ulla N. / Johnson, Darren W. / Leary, Julie A. / Raymond, Kenneth N.

    Angewandte Chemie (International ed. in English)

    2001  Volume 40, Issue 4, Page(s) 733–736

    Language English
    Publishing date 2001-02-16
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 2011836-3
    ISSN 1521-3773 ; 1433-7851
    ISSN (online) 1521-3773
    ISSN 1433-7851
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Resolution and Kinetic Stability of a Chiral Supramolecular Assembly Made of Labile Components Coordination Number Incommensurate Cluster Formation, Part 18. Financial support of this work was provided by NSF CHE-9709621 and by NSF and NATO-NSF exchange grants INT-9603212 and SRG 951516, respectively. We thank the Alexander-von-Humboldt Foundation for a Fellowship to A.T., and a Humboldt Research Award for Senior U.S. Scientists to K.R., and the Miller Foundation for a fellowship to M.Z. The authors gratefully acknowledge the assistance of Dr. F. J. Hollander and Dr. D. L. Caulder in selecting and mounting a suitable single crystal, and Prof. Julie A. Leary, Dr. Ulla N. Andersen, and J. J. Miranda for measuring mass spectra. Part 17: M. Ziegler, J. J. Miranda, U. N. Andersen, D. W. Johnson, J. A. Leary, K. N. Raymond, Angew. Chem., in press.

    Terpin, Andreas J. / Ziegler, Marco / Johnson, Darren W. / Raymond, Kenneth N.

    Angewandte Chemie (International ed. in English)

    2001  Volume 40, Issue 1, Page(s) 157–160

    Language English
    Publishing date 2001-01-05
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 2011836-3
    ISSN 1521-3773 ; 1433-7851
    ISSN (online) 1521-3773
    ISSN 1433-7851
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Population genetic simulation: Benchmarking frameworks for non-standard models of natural selection.

    Johnson, Olivia L / Tobler, Raymond / Schmidt, Joshua M / Huber, Christian D

    Molecular ecology resources

    2024  Volume 24, Issue 3, Page(s) e13930

    Abstract: Population genetic simulation has emerged as a common tool for investigating increasingly complex evolutionary and demographic models. Software capable of handling high-level model complexity has recently been developed, and the advancement of tree ... ...

    Abstract Population genetic simulation has emerged as a common tool for investigating increasingly complex evolutionary and demographic models. Software capable of handling high-level model complexity has recently been developed, and the advancement of tree sequence recording now allows simulations to merge the efficiency and genealogical insight of coalescent simulations with the flexibility of forward simulations. However, frameworks utilizing these features have not yet been compared and benchmarked. Here, we evaluate various simulation workflows using the coalescent simulator msprime and the forward simulator SLiM, to assess resource efficiency and determine an optimal simulation framework. Three aspects were evaluated: (1) the burn-in, to establish an equilibrium level of neutral diversity in the population; (2) the forward simulation, in which temporally fluctuating selection is acting; and (3) the final computation of summary statistics. We provide typical memory and computation time requirements for each step. We find that the fastest framework, a combination of coalescent and forward simulation with tree sequence recording, increases simulation speed by over twenty times compared to classical forward simulations without tree sequence recording, although it does require six times more memory. Overall, using efficient simulation workflows can lead to a substantial improvement when modelling complex evolutionary scenarios-although the optimal framework ultimately depends on the available computational resources.
    MeSH term(s) Benchmarking ; Computer Simulation ; Genetics, Population ; Software ; Selection, Genetic ; Models, Genetic
    Language English
    Publishing date 2024-01-21
    Publishing country England
    Document type Journal Article
    ZDB-ID 2406833-0
    ISSN 1755-0998 ; 1755-098X
    ISSN (online) 1755-0998
    ISSN 1755-098X
    DOI 10.1111/1755-0998.13930
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Fluctuating selection and the determinants of genetic variation.

    Johnson, Olivia L / Tobler, Raymond / Schmidt, Joshua M / Huber, Christian D

    Trends in genetics : TIG

    2023  Volume 39, Issue 6, Page(s) 491–504

    Abstract: Recent studies of cosmopolitan Drosophila populations have found hundreds to thousands of genetic loci with seasonally fluctuating allele frequencies, bringing temporally fluctuating selection to the forefront of the historical debate surrounding the ... ...

    Abstract Recent studies of cosmopolitan Drosophila populations have found hundreds to thousands of genetic loci with seasonally fluctuating allele frequencies, bringing temporally fluctuating selection to the forefront of the historical debate surrounding the maintenance of genetic variation in natural populations. Numerous mechanisms have been explored in this longstanding area of research, but these exciting empirical findings have prompted several recent theoretical and experimental studies that seek to better understand the drivers, dynamics, and genome-wide influence of fluctuating selection. In this review, we evaluate the latest evidence for multilocus fluctuating selection in Drosophila and other taxa, highlighting the role of potential genetic and ecological mechanisms in maintaining these loci and their impacts on neutral genetic variation.
    MeSH term(s) Genetic Variation ; Animals ; Drosophila melanogaster/genetics ; Humans ; Seasons ; Adaptation, Physiological ; Selection, Genetic ; Genome
    Language English
    Publishing date 2023-03-06
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 619240-3
    ISSN 1362-4555 ; 0168-9525 ; 0168-9479
    ISSN (online) 1362-4555
    ISSN 0168-9525 ; 0168-9479
    DOI 10.1016/j.tig.2023.02.004
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Dexamethasone in the management of covid -19.

    Johnson, Raymond M / Vinetz, Joseph M

    BMJ (Clinical research ed.)

    2020  Volume 370, Page(s) m2648

    MeSH term(s) Age Factors ; Betacoronavirus ; Coronavirus Infections/drug therapy ; Dexamethasone/therapeutic use ; Glucocorticoids/therapeutic use ; Humans ; Pandemics ; Pneumonia, Viral/drug therapy ; Randomized Controlled Trials as Topic
    Chemical Substances Glucocorticoids ; Dexamethasone (7S5I7G3JQL)
    Keywords covid19
    Language English
    Publishing date 2020-07-03
    Publishing country England
    Document type Editorial
    ZDB-ID 1362901-3
    ISSN 1756-1833 ; 0959-8154 ; 0959-8146 ; 0959-8138 ; 0959-535X ; 1759-2151
    ISSN (online) 1756-1833
    ISSN 0959-8154 ; 0959-8146 ; 0959-8138 ; 0959-535X ; 1759-2151
    DOI 10.1136/bmj.m2648
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Book ; Online: Dexamethasone in the management of covid -19

    Johnson, Raymond M / Vinetz, Joseph M

    2020  

    Keywords EDITORIALS ; covid19
    Language English
    Publishing date 2020-07-03 07:41:13.0
    Publisher BMJ Publishing Group Ltd
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  7. Article ; Online: Dexamethasone in the management of covid -19

    Johnson, Raymond M / Vinetz, Joseph M

    BMJ

    2020  , Page(s) m2648

    Keywords covid19
    Language English
    Publisher BMJ
    Publishing country uk
    Document type Article ; Online
    ZDB-ID 1362901-3
    ISSN 1756-1833 ; 0959-8154 ; 0959-8146 ; 0959-8138 ; 0959-535X ; 1759-2151
    ISSN (online) 1756-1833
    ISSN 0959-8154 ; 0959-8146 ; 0959-8138 ; 0959-535X ; 1759-2151
    DOI 10.1136/bmj.m2648
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  8. Article ; Online: Developmental Milestone Attainment in US Children Before and During the COVID-19 Pandemic.

    Johnson, Sara B / Kuehn, Molly / Lambert, Jennifer O / Spin, J Paul / Klein, Lauren M / Howard, Barbara / Sturner, Raymond / Perrin, Eliana M

    JAMA pediatrics

    2024  

    Abstract: Importance: Restrictions related to the COVID-19 pandemic disrupted the lives of young children, but the association between the pandemic and any changes in early childhood developmental milestone achievement in the US remains unclear.: Objectives: ... ...

    Abstract Importance: Restrictions related to the COVID-19 pandemic disrupted the lives of young children, but the association between the pandemic and any changes in early childhood developmental milestone achievement in the US remains unclear.
    Objectives: To determine the association between the COVID-19 pandemic and changes in developmental screening scores among US children aged 0 to 5 years and to investigate whether caregivers self-reported more worries about their children or concerns about children's behavior during the pandemic, regardless of milestone achievement.
    Design, setting, and participants: This was a cohort study using an interrupted time series analysis comparing prepandemic (March 1, 2018, to February 29, 2020), interruption (March 1 to May 31, 2020), and intrapandemic (June 1, 2020, to May 30, 2022) periods among 50 205 children (randomly sampled from a population of 502 052 children) aged 0 to 5 years whose parents or caregivers completed developmental screening at pediatric visits at US pediatric primary care practices participating in a web-based clinical process support system.
    Exposure: COVID-19 pandemic period.
    Main outcomes and measures: Age-standardized Ages and Stages Questionnaire, Third Edition (ASQ) domain scores (communication, personal-social, problem-solving, gross motor, fine motor), and rate of caregivers' concerns about the child's behavior or worries about the child as measured on the ASQ.
    Results: A total of 50 205 children (25 852 [51.5%] male; mean [SD] age, 18.6 [16.0] months) and 134 342 ASQ observations were included. In adjusted models, significant age-specific mean score decreases from prepandemic to intrapandemic were observed in communication (-0.029; 95% CI, -0.041 to -0.017), problem-solving (-0.018; 95% CI, -0.030 to -0.006), and personal-social (-0.016; 95% CI, -0.028 to -0.004) domains. There were no changes in fine or gross motor domains prepandemic to intrapandemic. For infants aged 0 to 12 months, similar effect sizes were observed but only for communication (-0.027; 95% CI, -0.044 to -0.011) and problem-solving (-0.018; 95% CI, -0.035 to -0.001). After accounting for age-standardized ASQ scores, caregiver worries about the child increased slightly in the intrapandemic period compared with the prepandemic period (rate ratio, 1.088; 95% CI, 1.036-1.143), but there were no changes in caregiver concerns about the child's behavior. While changes in developmental screening scores were modest (2%-3%), nationwide, this could translate to more than 1500 additional recommended developmental referrals over baseline each month.
    Conclusions and relevance: Modest changes in developmental screening scores are reassuring in the short term but may tax an already overburdened developmental behavioral pediatrics infrastructure. Continued attention to developmental surveillance is critical since the long-term population- and individual-level implications of these changes are unclear.
    Language English
    Publishing date 2024-04-22
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2701223-2
    ISSN 2168-6211 ; 2168-6203
    ISSN (online) 2168-6211
    ISSN 2168-6203
    DOI 10.1001/jamapediatrics.2024.0683
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article ; Online: Combining Cellular Immunology With RNAseq to Identify Novel Chlamydia T-Cell Subset Signatures.

    Johnson, Raymond M / Asashima, Hiromitsu / Mohanty, Subhasis / Shaw, Albert C

    The Journal of infectious diseases

    2022  Volume 225, Issue 11, Page(s) 2033–2042

    Abstract: Chlamydia trachomatis serovars A-L cause important diseases of the eyes and reproductive tract by infecting epithelium lining those organs. A major hurdle for vaccine trials is finding a surrogate biomarker for protective immunity. Investigational data ... ...

    Abstract Chlamydia trachomatis serovars A-L cause important diseases of the eyes and reproductive tract by infecting epithelium lining those organs. A major hurdle for vaccine trials is finding a surrogate biomarker for protective immunity. Investigational data argues for T-cell biomarker(s) reflecting mucosal adaption, cytokine polarization, B-cell help, antibacterial effector mechanisms, or some combination thereof. A human investigation and 2 mouse studies link IL-13 to protection from infection/immunopathology. We performed RNAseq on T cells resident in spleens and genital tracts of naturally immune mice. CD4 signatures were consistent with helper function that differed by site including a genital tract-specific Fgl2 signal. The genital tract CD8 signature featured IL-10 and promotion of healing/scarring with a unique transcription of granzyme A. The RNAseq data was used to refine previously published CD4γ13 and CD8γ13 transcriptomes derived from protective T-cell clones, potentially identifying practicable T-cell subset signatures for assessing Chlamydia vaccine candidates.
    MeSH term(s) Animals ; B-Lymphocytes ; CD4-Positive T-Lymphocytes ; Chlamydia Infections/microbiology ; Chlamydia trachomatis ; Genitalia/pathology ; Mice ; Mice, Inbred C57BL ; T-Lymphocyte Subsets
    Language English
    Publishing date 2022-02-24
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 3019-3
    ISSN 1537-6613 ; 0022-1899
    ISSN (online) 1537-6613
    ISSN 0022-1899
    DOI 10.1093/infdis/jiac051
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