Everything you always wanted to know about SDPD⋆ (⋆but were afraid to ask)

An overview of the smoothed dissipative particle dynamics (SDPD) method is presented in a format that tries to quickly answer questions that often arise among users and newcomers. It is hoped that the status of SDPD is clarified as a mesoscopic particle model and its potentials and limitations are highlighted, as compared with other methods

Multipolar Reactive DPD: A Novel Tool for Spatially Resolved Systems Biology

This article reports about a novel extension of dissipative particle dynamics (DPD) that allows the study of the collective dynamics of complex chemical and structural systems in a spatially resolved manner with a combinatorially complex variety of different system constituents. We show that introducing multipolar interactions between particles leads to extended membrane structures emerging in a self-organized manner and exhibiting both the necessary mechanical stability for transport and fluidity so as to provide a two-dimensional self-organizing dynamic reaction environment for kinetic studies in the context of cell biology. We further show that the emergent dynamics of extended membrane bound objects is in accordance with scaling laws imposed by physics.Comment: submitted to CMSB 0

Cumulative Prognostic Score Predicting Mortality in Patients Older Than 80 Years Admitted to the ICU.

OBJECTIVES: To develop a scoring system model that predicts mortality within 30 days of admission of patients older than 80 years admitted to intensive care units (ICUs). DESIGN: Prospective cohort study. SETTING: A total of 306 ICUs from 24 European countries. PARTICIPANTS: Older adults admitted to European ICUs (N = 3730; median age = 84 years [interquartile range = 81-87 y]; 51.8% male). MEASUREMENTS: Overall, 24 variables available during ICU admission were included as potential predictive variables. Multivariable logistic regression was used to identify independent predictors of 30-day mortality. Model sensitivity, specificity, and accuracy were evaluated with receiver operating characteristic curves. RESULTS: The 30-day-mortality was 1562 (41.9%). In multivariable analysis, these variables were selected as independent predictors of mortality: age, sex, ICU admission diagnosis, Clinical Frailty Scale, Sequential Organ Failure Score, invasive mechanical ventilation, and renal replacement therapy. The discrimination, accuracy, and calibration of the model were good: the area under the curve for a score of 10 or higher was .80, and the Brier score was .18. At a cut point of 10 or higher (75% of all patients), the model predicts 30-day mortality in 91.1% of all patients who die. CONCLUSION: A predictive model of cumulative events predicts 30-day mortality in patients older than 80 years admitted to ICUs. Future studies should include other potential predictor variables including functional status, presence of advance care plans, and assessment of each patient's decision-making capacity

Sepsis at ICU admission does not decrease 30-day survival in very old patients: a post-hoc analysis of the VIP1 multinational cohort study.

BACKGROUND: The number of intensive care patients aged ≥ 80 years (Very old Intensive Care Patients; VIPs) is growing. VIPs have high mortality and morbidity and the benefits of ICU admission are frequently questioned. Sepsis incidence has risen in recent years and identification of outcomes is of considerable public importance. We aimed to determine whether VIPs admitted for sepsis had different outcomes than those admitted for other acute reasons and identify potential prognostic factors for 30-day survival. RESULTS: This prospective study included VIPs with Sequential Organ Failure Assessment (SOFA) scores ≥ 2 acutely admitted to 307 ICUs in 21 European countries. Of 3869 acutely admitted VIPs, 493 (12.7%) [53.8% male, median age 83 (81-86) years] were admitted for sepsis. Sepsis was defined according to clinical criteria; suspected or demonstrated focus of infection and SOFA score ≥ 2 points. Compared to VIPs admitted for other acute reasons, VIPs admitted for sepsis were younger, had a higher SOFA score (9 vs. 7, p < 0.0001), required more vasoactive drugs [82.2% vs. 55.1%, p < 0.0001] and renal replacement therapies [17.4% vs. 9.9%; p < 0.0001], and had more life-sustaining treatment limitations [37.3% vs. 32.1%; p = 0.02]. Frailty was similar in both groups. Unadjusted 30-day survival was not significantly different between the two groups. After adjustment for age, gender, frailty, and SOFA score, sepsis had no impact on 30-day survival [HR 0.99 (95% CI 0.86-1.15), p = 0.917]. Inverse-probability weight (IPW)-adjusted survival curves for the first 30 days after ICU admission were similar for acute septic and non-septic patients [HR: 1.00 (95% CI 0.87-1.17), p = 0.95]. A matched-pair analysis in which patients with sepsis were matched with two control patients of the same gender with the same age, SOFA score, and level of frailty was also performed. A Cox proportional hazard regression model stratified on the matched pairs showed that 30-day survival was similar in both groups [57.2% (95% CI 52.7-60.7) vs. 57.1% (95% CI 53.7-60.1), p = 0.85]. CONCLUSIONS: After adjusting for organ dysfunction, sepsis at admission was not independently associated with decreased 30-day survival in this multinational study of 3869 VIPs. Age, frailty, and SOFA score were independently associated with survival

Relationship between the Clinical Frailty Scale and short-term mortality in patients ≥ 80 years old acutely admitted to the ICU: a prospective cohort study.

BACKGROUND: The Clinical Frailty Scale (CFS) is frequently used to measure frailty in critically ill adults. There is wide variation in the approach to analysing the relationship between the CFS score and mortality after admission to the ICU. This study aimed to evaluate the influence of modelling approach on the association between the CFS score and short-term mortality and quantify the prognostic value of frailty in this context. METHODS: We analysed data from two multicentre prospective cohort studies which enrolled intensive care unit patients ≥ 80 years old in 26 countries. The primary outcome was mortality within 30-days from admission to the ICU. Logistic regression models for both ICU and 30-day mortality included the CFS score as either a categorical, continuous or dichotomous variable and were adjusted for patient's age, sex, reason for admission to the ICU, and admission Sequential Organ Failure Assessment score. RESULTS: The median age in the sample of 7487 consecutive patients was 84 years (IQR 81-87). The highest fraction of new prognostic information from frailty in the context of 30-day mortality was observed when the CFS score was treated as either a categorical variable using all original levels of frailty or a nonlinear continuous variable and was equal to 9% using these modelling approaches (p < 0.001). The relationship between the CFS score and mortality was nonlinear (p < 0.01). CONCLUSION: Knowledge about a patient's frailty status adds a substantial amount of new prognostic information at the moment of admission to the ICU. Arbitrary simplification of the CFS score into fewer groups than originally intended leads to a loss of information and should be avoided. Trial registration NCT03134807 (VIP1), NCT03370692 (VIP2)

Modeling Deep Rooted Thrust Mechanism of Crustal Thickening in Eastern Tibet

International audienceTo test Eastern Tibet crustal thickening modes, we compare 2‐D numerical models of two emblematic end‐member models, with either an obstacle in the low viscosity lower crust or a thrust embedded in the high viscosity one. We show that the obstacle halts the viscous lower crustal flow potentially initiated by the weight of the high Central Tibet, generating a smooth exhumation gradient at the edge of the plateau, not observed in Eastern Tibet. On the contrary, including a low viscosity discontinuity in the upper crust, mimicking a shallow steep listric fault as inferred in the region, reproduces a sharper exhumation profile, as constrained from thermo‐kinematic inversions of thermochronological data, and the lack of foreland basin, as observed in the field. Moreover, such fault drives deformation throughout the entire crust, suggesting a deep crustal ductile shear zone limiting the more ductile deformation in the lower crust although no discontinuity is imposed

Using the level set method in geodynamical modeling of multi-material flows and Earth's free surface

The level set method allows for tracking material surfaces in 2-D and 3-D flow modeling and is well suited for applications of multi-material flow modeling. The level set method utilizes smooth level set functions to define material interfaces, which makes the method stable and free of oscillations that are typically observed in case step-like functions parameterize interfaces. By design the level set function is a signed distance function and gives for each point in the domain the exact distance to the interface as well as on which side it is located. In this paper we present four benchmarks which show the validity, accuracy and simplicity of using the level set method for multi-material flow modeling. The benchmarks are simplified setups of dynamical geophysical processes such as the Rayleigh-Taylor instability, post-glacial rebound, subduction and slab detachment. We also demonstrate the benefit of using the level set method for modeling a free surface with the sticky air approach. Our results show that the level set method allows for accurate material flow modeling and that the combination with the sticky air approach works well in mimicking Earth's free surface. Since the level set method tracks material interfaces instead of materials themselves, it has the advantage that the location of these interfaces is accurately known and that it represents a viable alternative to the more commonly used tracer method

Exhumation History Along the Muli Thrust—Implication for Crustal Thickening Mechanism in Eastern Tibet

Thrusting implication in the crustal thickening history of eastern Tibet is highly debated. The ∼250 km-long Muli thrust of the Yalong thrust belt in SE Tibet is a major Miocene structure with a pronounced topographic step (∼2,000 m). Using thermo-kinematic modeling based on thermochronology data, we constrain the crustal geometry of the thrust as being steep (>70°) at the surface, in agreement with field observations, and flattening at depth (≥20 km) on an intra-crustal décollement. Thrusting motion on the fault shows a velocity of 0.2 ± 0.06 km/Ma since 50 Ma, followed by an acceleration at a rate of 0.6 ± 0.08 km/Ma starting at 12.5 ± 1 Ma, yielding a total of ∼15 km of exhumed crust. Deeper, deformation may be localized through a ductile shear zone, and be related to the ∼15 km Moho step and shear wave velocity contrast imaged by tomography beneath the Yalong thrust belt

Exhumation History Along the Muli Thrust—Implication for Crustal Thickening Mechanism in Eastern Tibet

International audienceThe eastern margin of the world's largest and highest orogenic plateau, the Tibetan Plateau, shows contrasted edges, with a steep topographic gradient along the Longmen Shan (LMS) north of the Xianshuihe strike-slip fault (XF), and gentler slopes across the Yalong margin to the south (Figure 1a). The driving mechanism(s) leading to such contrasts between margins are still poorly understood and have given rise to end-member models of plateau growth with different crustal structures: either a weak lower crust localizing crustal thickening ("channel flow model," e.g., Clark & Royden, 2000), or a more rigid crust, with thickening that includes the upper crust, in a brittle manner ("stepwise model," Tapponnier et al., 2001). Those two end-member models can be tested by investigating the role of thrusting mechanisms in SE Tibet. At present, upper crustal deformation of the LMS is dominated by reverse faulting with a small component of right-lateral motion, as shown by recent earthquake focal mechanisms such as that of the 2008 Mw7.9 Wenchuan earthquake (e.g., de Michele et al., 2010; Fielding et al., 2013). This event ruptured two subparallel reverse structures, the Guanxian and Beichuan thrusts (Figure 1b), with steep shallow ramps (up to 70°) which root between 15 and 25 km-depth on a sub-horizontal décollement zone (e.g.