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  1. Article: Existence of Radial Global Smooth Solutions to the Pressureless Euler-Poisson Equations with Quadratic Confinement.

    Carrillo, José A / Shu, Ruiwen

    Archive for rational mechanics and analysis

    2023  Volume 247, Issue 4, Page(s) 73

    Abstract: We consider the pressureless Euler-Poisson equations with quadratic confinement. For spatial ... ...

    Abstract We consider the pressureless Euler-Poisson equations with quadratic confinement. For spatial dimension
    Language English
    Publishing date 2023-08-01
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 1458447-5
    ISSN 1432-0673 ; 0003-9527
    ISSN (online) 1432-0673
    ISSN 0003-9527
    DOI 10.1007/s00205-023-01905-5
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  2. Article: Genomic selection in United States dairy cattle.

    Wiggans, George R / Carrillo, José A

    Frontiers in genetics

    2022  Volume 13, Page(s) 994466

    Abstract: The genomic selection program for dairy cattle in the United States has doubled the rate of genetic gain. Since 2010, the average annual increase in net merit has been $85 compared to $40 during the previous 5 years. The number of genotypes has been ... ...

    Abstract The genomic selection program for dairy cattle in the United States has doubled the rate of genetic gain. Since 2010, the average annual increase in net merit has been $85 compared to $40 during the previous 5 years. The number of genotypes has been rapidly increasing both domestically and internationally and reached over 6.5 million in 2022 with 1,134,593 submitted in 2021. Evaluations are calculated for over 50 traits. Feed efficiency (residual feed intake), heifer and cow livability, age at first calving, six health traits, and gestation length have been added in recent years to represent the economic value of selection candidates more accurately; work is underway to develop evaluations for hoof health. Evaluations of animals with newly submitted genotypes are calculated weekly. In April 2019, evaluations were extended to crossbreds; to support that effort, evaluations are initially calculated on an all-breed base and then blended by an estimated breed composition. For animals that are less than 90% of one breed, the evaluation is calculated by weighting contributions of each of the five major dairy breeds evaluated (Ayrshire, Brown Swiss, Guernsey, Holstein, and Jersey) by the breed proportion. Nearly 200,000 animals received blended evaluations in July 2022. Pedigree is augmented by using haplotype matching to discover maternal grandsires and great-grandsires. Haplotype analysis is also used to discover undesirable recessive conditions. In many cases, the causative variant has been identified, and results from a gene test or inclusion on a genotyping chip improves the accuracy of those determinations for the current 27 conditions reported. Recently discovered recessive conditions include neuropathy with splayed forelimbs in Jerseys, early embryonic death in Holsteins, and curly calves in Ayrshires. Techniques have been developed to support rapid searches for parent-progeny relationships and identical genotypes among all likely genotypes, which substantially reduces processing time. Work continues on using sequence data to discover additional informative single nucleotide polymorphisms and to incorporate those previously discovered. Adoption of genotyping by sequencing is expected to improve flexibility of marker selection. The success of the Council on Dairy Cattle Breeding in conducting the genetic evaluation program is the result of close cooperation with industry and research groups, including the United States Department of Agriculture, breed associations, genotyping laboratories, and artificial-insemination organizations.
    Language English
    Publishing date 2022-09-09
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2606823-0
    ISSN 1664-8021
    ISSN 1664-8021
    DOI 10.3389/fgene.2022.994466
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  3. Article ; Online: Is re-radiation for glioblastoma after progression associated with increased survival: to treat or not to treat?

    Carrillo, Jose A / Kesari, Santosh

    Translational cancer research

    2022  Volume 8, Issue 1, Page(s) 4–6

    Language English
    Publishing date 2022-01-15
    Publishing country China
    Document type Editorial ; Comment
    ZDB-ID 2901601-0
    ISSN 2219-6803 ; 2218-676X
    ISSN (online) 2219-6803
    ISSN 2218-676X
    DOI 10.21037/tcr.2018.10.22
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  4. Article ; Online: Quantifying cell cycle regulation by tissue crowding.

    Falcó, Carles / Cohen, Daniel J / Carrillo, José A / Baker, Ruth E

    Biophysical journal

    2024  

    Abstract: The spatiotemporal coordination and regulation of cell proliferation is fundamental in many aspects of development and tissue maintenance. Cells have the ability to adapt their division rates in response to mechanical constraints, yet we do not fully ... ...

    Abstract The spatiotemporal coordination and regulation of cell proliferation is fundamental in many aspects of development and tissue maintenance. Cells have the ability to adapt their division rates in response to mechanical constraints, yet we do not fully understand how cell proliferation regulation impacts cell migration phenomena. Here, we present a minimal continuum model of cell migration with cell cycle dynamics, which includes density-dependent effects and hence can account for cell proliferation regulation. By combining minimal mathematical modelling, Bayesian inference, and recent experimental data, we quantify the impact of tissue crowding across different cell cycle stages in epithelial tissue expansion experiments. Our model suggests that cells sense local density and adapt cell cycle progression in response, during G1 and the combined S/G2/M phases, providing an explicit relationship between each cell cycle stage duration and local tissue density, which is consistent with several experimental observations. Finally, we compare our mathematical model predictions to different experiments studying cell cycle regulation and present a quantitative analysis on the impact of density-dependent regulation on cell migration patterns. Our work presents a systematic approach for investigating and analysing cell cycle data, providing mechanistic insights into how individual cells regulate proliferation, based on population-based experimental measurements.
    Language English
    Publishing date 2024-05-06
    Publishing country United States
    Document type Journal Article
    ZDB-ID 218078-9
    ISSN 1542-0086 ; 0006-3495
    ISSN (online) 1542-0086
    ISSN 0006-3495
    DOI 10.1016/j.bpj.2024.05.003
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 235: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)
    Zs.MO 2: Show issues

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  5. Article ; Online: Phase Transitions for Nonlinear Nonlocal Aggregation-Diffusion Equations.

    Carrillo, José A / Gvalani, Rishabh S

    Communications in mathematical physics

    2021  Volume 382, Issue 1, Page(s) 485–545

    Abstract: We are interested in studying the stationary solutions and phase transitions of aggregation equations with degenerate diffusion of porous medium-type, with ... ...

    Abstract We are interested in studying the stationary solutions and phase transitions of aggregation equations with degenerate diffusion of porous medium-type, with exponent
    Language English
    Publishing date 2021-02-14
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 220443-5
    ISSN 1432-0916 ; 0010-3616
    ISSN (online) 1432-0916
    ISSN 0010-3616
    DOI 10.1007/s00220-021-03977-4
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    In stock of ZB MED Bonn / Germany

    Z 66/179: Show issues
    Z COM 12: Show issues

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  6. Article: Mean-Field Limits: From Particle Descriptions to Macroscopic Equations.

    Carrillo, José A / Choi, Young-Pil

    Archive for rational mechanics and analysis

    2021  Volume 241, Issue 3, Page(s) 1529–1573

    Abstract: We rigorously derive pressureless Euler-type equations with nonlocal dissipative terms in velocity and aggregation equations with nonlocal velocity fields from Newton-type particle descriptions of swarming models with alignment interactions. Crucially, ... ...

    Abstract We rigorously derive pressureless Euler-type equations with nonlocal dissipative terms in velocity and aggregation equations with nonlocal velocity fields from Newton-type particle descriptions of swarming models with alignment interactions. Crucially, we make use of a discrete version of a modulated kinetic energy together with the bounded Lipschitz distance for measures in order to control terms in its time derivative due to the nonlocal interactions.
    Language English
    Publishing date 2021-06-01
    Publishing country Germany
    Document type Journal Article
    ZDB-ID 1458447-5
    ISSN 1432-0673 ; 0003-9527
    ISSN (online) 1432-0673
    ISSN 0003-9527
    DOI 10.1007/s00205-021-01676-x
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  7. Article ; Online: Quantifying tissue growth, shape and collision via continuum models and Bayesian inference.

    Falcó, Carles / Cohen, Daniel J / Carrillo, José A / Baker, Ruth E

    Journal of the Royal Society, Interface

    2023  Volume 20, Issue 204, Page(s) 20230184

    Abstract: Although tissues are usually studied in isolation, this situation rarely occurs in biology, as cells, tissues and organs coexist and interact across scales to determine both shape and function. Here, we take a quantitative approach combining data from ... ...

    Abstract Although tissues are usually studied in isolation, this situation rarely occurs in biology, as cells, tissues and organs coexist and interact across scales to determine both shape and function. Here, we take a quantitative approach combining data from recent experiments, mathematical modelling and Bayesian parameter inference, to describe the self-assembly of multiple epithelial sheets by growth and collision. We use two simple and well-studied continuum models, where cells move either randomly or following population pressure gradients. After suitable calibration, both models prove to be practically identifiable, and can reproduce the main features of single tissue expansions. However, our findings reveal that whenever tissue-tissue interactions become relevant, the random motion assumption can lead to unrealistic behaviour. Under this setting, a model accounting for population pressure from different cell populations is more appropriate and shows a better agreement with experimental measurements. Finally, we discuss how tissue shape and pressure affect multi-tissue collisions. Our work thus provides a systematic approach to quantify and predict complex tissue configurations with applications in the design of tissue composites and more generally in tissue engineering.
    MeSH term(s) Bayes Theorem ; Models, Theoretical ; Research Design ; Models, Biological
    Language English
    Publishing date 2023-07-19
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2156283-0
    ISSN 1742-5662 ; 1742-5689
    ISSN (online) 1742-5662
    ISSN 1742-5689
    DOI 10.1098/rsif.2023.0184
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  8. Article ; Online: Noise-driven bifurcations in a neural field system modelling networks of grid cells.

    Carrillo, José A / Holden, Helge / Solem, Susanne

    Journal of mathematical biology

    2022  Volume 85, Issue 4, Page(s) 42

    Abstract: The activity generated by an ensemble of neurons is affected by various noise sources. It is a well-recognised challenge to understand the effects of noise on the stability of such networks. We demonstrate that the patterns of activity generated by ... ...

    Abstract The activity generated by an ensemble of neurons is affected by various noise sources. It is a well-recognised challenge to understand the effects of noise on the stability of such networks. We demonstrate that the patterns of activity generated by networks of grid cells emerge from the instability of homogeneous activity for small levels of noise. This is carried out by analysing the robustness of network activity patterns with respect to noise in an upscaled noisy grid cell model in the form of a system of partial differential equations. Inhomogeneous network patterns are numerically understood as branches bifurcating from unstable homogeneous states for small noise levels. We show that there is a phase transition occurring as the level of noise decreases. Our numerical study also indicates the presence of hysteresis phenomena close to the precise critical noise value.
    MeSH term(s) Models, Neurological ; Neural Networks, Computer ; Neurons/physiology ; Noise
    Language English
    Publishing date 2022-09-27
    Publishing country Germany
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 187101-8
    ISSN 1432-1416 ; 0303-6812
    ISSN (online) 1432-1416
    ISSN 0303-6812
    DOI 10.1007/s00285-022-01811-6
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 1495: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)

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  9. Book ; Online: Mechanical constraints and cell cycle regulation in models of collective cell migration

    Falcó, Carles / Cohen, Daniel J. / Carrillo, José A. / Baker, Ruth E.

    2024  

    Abstract: The spatiotemporal coordination and regulation of cell proliferation is fundamental in many aspects of development and tissue maintenance. Cells have the ability to adapt their division rates in response to mechanical checkpoints, yet we do not fully ... ...

    Abstract The spatiotemporal coordination and regulation of cell proliferation is fundamental in many aspects of development and tissue maintenance. Cells have the ability to adapt their division rates in response to mechanical checkpoints, yet we do not fully understand how cell proliferation regulation impacts cell migration phenomena. Here, we present a minimal continuum model of cell migration with cell cycle dynamics, which includes mechanical constraints and hence can account for cell proliferation regulation. By combining minimal mathematical modelling, Bayesian inference, and recent experimental data, we quantify the impact of mechanical constraints across different cell cycle stages in epithelial tissue expansion experiments. Our model suggests that cells sense local density and adapt cell cycle progression in response, during G1 and the combined S/G2/M phases, providing an explicit relationship between each cell cycle stage duration and local tissue density, which is consistent with several experimental observations. Finally, we compare our mathematical model predictions to different experiments studying cell cycle regulation and present a quantitative analysis on the impact of mechanical constraints on cell migration patterns. Our work presents a systematic approach for investigating and analysing cell cycle data, providing mechanistic insights into how individual cells regulate proliferation, based on population-based experimental measurements.
    Keywords Quantitative Biology - Quantitative Methods ; Physics - Biological Physics
    Subject code 571 ; 612
    Publishing date 2024-01-16
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  10. Book ; Online: Quantifying tissue growth, shape and collision via continuum models and Bayesian inference

    Falcó, Carles / Cohen, Daniel J. / Carrillo, José A. / Baker, Ruth E.

    2023  

    Abstract: Although tissues are usually studied in isolation, this situation rarely occurs in biology, as cells, tissues, and organs, coexist and interact across scales to determine both shape and function. Here, we take a quantitative approach combining data from ... ...

    Abstract Although tissues are usually studied in isolation, this situation rarely occurs in biology, as cells, tissues, and organs, coexist and interact across scales to determine both shape and function. Here, we take a quantitative approach combining data from recent experiments, mathematical modelling, and Bayesian parameter inference, to describe the self-assembly of multiple epithelial sheets by growth and collision. We use two simple and well-studied continuum models, where cells move either randomly or following population pressure gradients. After suitable calibration, both models prove to be practically identifiable, and can reproduce the main features of single tissue expansions. However, our findings reveal that whenever tissue-tissue interactions become relevant, the random motion assumption can lead to unrealistic behaviour. Under this setting, a model accounting for population pressure from different cell populations is more appropriate and shows a better agreement with experimental measurements. Finally, we discuss how tissue shape and pressure affect multi-tissue collisions. Our work thus provides a systematic approach to quantify and predict complex tissue configurations with applications in the design of tissue composites and more generally in tissue engineering.
    Keywords Quantitative Biology - Tissues and Organs ; Nonlinear Sciences - Pattern Formation and Solitons ; Quantitative Biology - Quantitative Methods
    Subject code 612
    Publishing date 2023-02-06
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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