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Advanced and metastatic estrogen receptor‐positive (ER+) breast cancers are often endocrine resistant. However, endocrine therapy remains the primary treatment for all advanced ER+ breast cancers. Treatment options that may benefit resistant cancers, such as add‐on drugs that target resistance pathways or switching to chemotherapy, are only available after progression on endocrine therapy. Here we developed an endocrine therapy prognostic model for early and advanced ER+ breast cancers. The endocrine resistance (ENDORSE) model is composed of two components, each based on the empirical cumulative distribution function of ranked expression of gene signatures. These signatures include a feature set associated with long‐term survival outcomes on endocrine therapy selected using lasso‐regularized Cox regression and a pathway‐based curated set of genes expressed in response to estrogen. We extensively validated ENDORSE in multiple ER+ clinical trial datasets and demonstrated superior and consistent performance of the model over clinical covariates, proliferation markers, and multiple published signatures. Finally, genomic and pathway analyses in patient data revealed possible mechanisms that may help develop rational stratification strategies for endocrine‐resistant ER+ breast cancer patients. 相似文献
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Chixiang Chen Tonghui Yu Biyi Shen Ming Wang 《Biometrical journal. Biometrische Zeitschrift》2023,65(3):2100326
The accelerated failure time (AFT) model and Cox proportional hazards (PH) model are broadly used for survival endpoints of primary interest. However, the estimation efficiency from those models can be further enhanced by incorporating the information from secondary outcomes that are increasingly available and highly correlated with primary outcomes. Those secondary outcomes could be longitudinal laboratory measures collected from doctor visits or cross-sectional disease-relevant variables, which are believed to contain extra information related to primary survival endpoints to a certain extent. In this paper, we develop a two-stage estimation framework to combine a survival model with a secondary model that contains secondary outcomes, named as the empirical-likelihood-based weighting (ELW), which comprises two weighting schemes accommodated to the AFT model (ELW-AFT) and the Cox PH model (ELW-Cox), respectively. This innovative framework is flexibly adaptive to secondary outcomes with complex data features, and it leads to more efficient parameter estimation in the survival model even if the secondary model is misspecified. Extensive simulation studies showcase more efficiency gain from ELW compared to conventional approaches, and an application in the Atherosclerosis Risk in Communities study also demonstrates the superiority of ELW by successfully detecting risk factors at the time of hospitalization for acute myocardial infarction. 相似文献
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M. Borges M. L. M. Costa E. R. Sujii M. das G. Cavalcanti G. F. Redígolo I. S. Resck E. F. Vilela 《Physiological Entomology》1999,24(3):227-233
The egg parasitoid, Telenomus podisi, was shown to recognize its host, Euschistus heros, through both chemical and physical cues. These were determined in short-range bioassays. The cues comprised fertile and infertile host eggs, egg extracts, crude extracts of adult males and females and successive dilutions of the synthetic racemic mixture of methyl 2,6,10-trimethyltridecanoate, a male-produced pheromone of E. heros. Some of the treatments used induced a selection process in T. podisi, through host recognition behaviour, indicating a consistent response of this species to E. heros. The possibility that some of these compounds could be exploited as long-range kairomones, by T. podisi, is discussed. Using GC analysis, an unidentified compound (Rt 24.8 min), possibly from the egg adhesive material, was detected from E. heros egg extracts. Its retention time compared to the methyl 2,6,10-trimethyltridecanoate showed a lower volatility, suggesting that the egg adhesive may act as a short-range kairomone. Physical cues appeared to be an important component in the host selection process by T. podisi. The parasitoid discriminated infertile eggs which are differently shaped and smaller than fertile eggs. 相似文献
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Folefac D. Atem Roland A. Matsouaka Vincent E. Zimmern 《Biometrical journal. Biometrische Zeitschrift》2019,61(4):1020-1032
This paper deals with a Cox proportional hazards regression model, where some covariates of interest are randomly right‐censored. While methods for censored outcomes have become ubiquitous in the literature, methods for censored covariates have thus far received little attention and, for the most part, dealt with the issue of limit‐of‐detection. For randomly censored covariates, an often‐used method is the inefficient complete‐case analysis (CCA) which consists in deleting censored observations in the data analysis. When censoring is not completely independent, the CCA leads to biased and spurious results. Methods for missing covariate data, including type I and type II covariate censoring as well as limit‐of‐detection do not readily apply due to the fundamentally different nature of randomly censored covariates. We develop a novel method for censored covariates using a conditional mean imputation based on either Kaplan–Meier estimates or a Cox proportional hazards model to estimate the effects of these covariates on a time‐to‐event outcome. We evaluate the performance of the proposed method through simulation studies and show that it provides good bias reduction and statistical efficiency. Finally, we illustrate the method using data from the Framingham Heart Study to assess the relationship between offspring and parental age of onset of cardiovascular events. 相似文献
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Disease registries, surveillance data, and other datasets with extremely large sample sizes become increasingly available in providing population-based information on disease incidence, survival probability, or other important public health characteristics. Such information can be leveraged in studies that collect detailed measurements but with smaller sample sizes. In contrast to recent proposals that formulate additional information as constraints in optimization problems, we develop a general framework to construct simple estimators that update the usual regression estimators with some functionals of data that incorporate the additional information. We consider general settings that incorporate nuisance parameters in the auxiliary information, non-i.i.d. data such as those from case-control studies, and semiparametric models with infinite-dimensional parameters common in survival analysis. Details of several important data and sampling settings are provided with numerical examples. 相似文献
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《Animal : an international journal of animal bioscience》2020,14(6):1111-1119
The objectives of this study were to analyse the differences in the genetic determination of functional longevity in five Spanish lines of rabbits and to check how different systematic factors might affect this genetic determination. Four of the lines were maternal (lines A, V, H and LP), these lines were established selecting base generation animals according to different criteria, but in the subsequent generations all of them were selected for litter size at weaning. The other is the paternal line R, this line was constituted by selecting animals with an outstanding daily growth rate. The trait analysed, length of productive life, was the time in days between the date of the first positive pregnancy test and the date of culling or death of a doe. Four models extended from the Cox proportional hazard model were used to analyse data of each line separately and jointly. The complete model (Model 1) included the fixed effect of year-season (YS) combination, positive palpation order (OPP), that is, reproductive cycle, physiological status of the doe (PS) at service and number of kits born alive (NBA) in each kindling as time-dependent factors. The inbreeding coefficient was fitted as a continuous covariate and the animal’s additive genetic effect was also fitted to the model (Model 1). The other models were identical to Model 1 but excluding OPP (Model 2) or PS (Model 3) or NBA (Model 4), which were explored to assess the consequence on additive variance estimates of not correcting for these animal-dependent factors. Estimated effective heritabilities of longevity were 0.07 ± 0.03, 0.03 ± 0.02, 0.14 ± 0.09, 0.05 ± 0.04, 0.02 ± 0.01 and 0.04 ± 0.01 for lines A, V, H, LP, R and for the merged data set, respectively. Removing the PS from the model led to an increase in the estimated additive genetic variance in all lines (0.17 ± 0.05, 0.05 ± 0.03, 0.29 ± 0.19, 0.29 ± 0.20, 0.07 ± 0.04 and 0.05 ± 0.02 for lines A, V, H, LP, R and the merged data set, respectively). The highest hazard of death and/or culling was observed during the first two parities and decreased as the order of parity progressed. Does non-pregnant-non-lactating had the highest risk of death or culling. The does that had zero kits born alive incurred the highest risk, and this risk decreased as the NBA increased. In conclusion, the consideration of longevity as selection criterion for the studied rabbit lines is not recommended. 相似文献
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Time allocation of the parasitoidAphidius colemani (Hymenoptera: Aphidiidae) foraging forAphis gossypii (Homoptera: Aphidae) on cucumber leaves 总被引:1,自引:0,他引:1
M. J. van Steenis K. A. M. H. El-Khawass L. Hemerik J. C. van Lenteren 《Journal of Insect Behavior》1996,9(2):283-295
The time allocation of individualAphidius colemani female parasitoids foraging forAphis gossypii nymphs on cucumber leaves has been investigated. Apart from experiences on the current leaf (such as density of hosts on the current leaf, density of hosts on a neighboring leaf and encounters with hosts on the current leaf), the effect of previous leaf visits on the time allocation was studied. Behavioral records were analyzed by means of the proportional hazards model, to determine the tendency of leaving the current leaf. The leaving tendency decreased only on leaves with a high host density (100 aphids), thus increasing the giving up time since the latest encounter. Rejection of aphids had no influence on the leaving tendency. To assess the effect of the number of hosts encountered on the leaving tendency, we considered three classes: 0–30 encounters, 31–100 encounters, and 100 or more encounters with hosts. The effect of the number of hosts encountered differed at different aphid densities. When fewer than 10 aphids were present the leaving tendency was much greater after 30 encounters than beforehand. At a density of 100 aphids the leaving tendency was lower than at the other aphid densities and increased only after 100 encounters. The density of hosts on a neighboring leaf, ranging from 0 to 100 hosts, had a negligible effect on the leaving tendency. Repeated visits to leaves with 10 unparasitized aphids resulted in an increase in the leaving tendency after 10 visits. It is argued that the parasitoids have some innate expectancy of host availability and that they concentrate on high-density patches. 相似文献
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Zeyu Yang Anwei Liu Qiao Xiong Yongping Xue Fei Liu Shuxiong Zeng Zhensheng Zhang Yunfei li Yinghao Sun Chuanliang Xu 《Journal of cellular physiology》2019,234(10):18763-18772
DNA methylation can regulate gene expression and is pivotal in the occurrence and development of bladder cancer. In this study, we analyzed whole-genome DNA methylation on the basis of data from The Cancer Genome Atlas to select epigenetic biomarkers predictive of survival and further understand the molecular mechanisms underlying methylation patterns in bladder cancer. We identified 540 differentially methylated genes between tumor and normal tissues, including a number of independent prognostic factors based on univariate analysis. Genes (MIR6732, SOWAHC, SERPINI1, OR10W1, OR7G3, AIM1, and ZFAND5) were integrated to establish a risk model for prognostic assessment based on multivariate Cox analysis. The methylation of SOWAHC was negatively correlated with its messenger RNA expression, and together these were significantly correlated with prognosis. This study took advantage of high-throughput data mining to provide new bioinformatics evidence and ideas for further study into the pathogenesis and prognosis of bladder cancer. 相似文献
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Dilek Pandir Recep Sahingoz Fahriye Sumer Ercan 《Biocontrol Science and Technology》2013,23(12):1402-1411
This study investigated the effect of strong magnetic fields as insecticidal activity on Ephestia kuehniella (Zeller) (Lepidoptera: Pyralidae) larvae and eggs at different stages of development and their preference by the egg parasitoid, Trichogramma embryophagum Hartig (Hymenoptera: Trichogrammatidae). Eggs ranging in age from 24-h to 48-h and 72-h-old and larvae (1 to 2 days) were exposed to 1.4 Tesla (T) magnetic fields from a DC power supply at 50 Hz for different time periods (3, 6, 12, 24, 48 and 72 h). Twelve hours of exposure at 1.4 T was toxic to 24-h-old eggs of E. kuehniella. The 72-h-old host eggs treated with 1.4 T for 6–72 h were not significantly preferred by T. embryophagum. The magnetic field was toxic to 24-h-old eggs of E. kuehniella exposed to 1.4 T for 12. The treatment of magnetic fields on the 72-h-old host egg with 1.4 T at 6–72 h was not significantly preferred by T. embryophagum. Magnetization of 24-h-old eggs of E. kuehniella for 3 h could be effectively used with T. embryophagum as sterilised host eggs. These eggs were markedly preferred by T. embryophagum. The LT50 and LT99 values of magnetic fields at different egg stages of E. kuehniella, and larvae were measured. A level of 1.4 T at 72 h completely prevented the development of the larvae. There was no significant effect on larval survival at 1.4 T at 48 and 72 h. Increasing magnetic fields exposure times for eggs that were 24-h, 48-h and 72-h-old prevented larval emergence and increased their mortality rate. Consequently, magnetic fields could be used in controlling stored-product pest eggs and larvae of E. kuehniella. 相似文献
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Erica S. Dunayer Maura Tyrrell Krishna N. Balasubramaniam Carol M. Berman 《American journal of primatology》2019,81(4)
Primatologists have long focused on grooming exchanges to examine aspects of social relationships, co‐operation, and social cognition. One particular interest is the extent to which reciprocating grooming partners time match, and the time frame over which they do so. Conclusions about time matching vary across species. Generally, researchers focus on the duration of pauses between grooming episodes that involve a switch in partner roles and choose a cut‐off point to distinguish short from longer‐term reciprocation. Problematically, researchers have made inconsistent choices about cut‐offs. Such methodological variations are potentially concerning, as it is unclear whether inconsistent conclusions about short‐term time matching are attributable to species/ecological differences, or are due in part to methodological inconsistency. We ask whether various criteria for separating short versus long‐term reciprocation influence conclusions about short‐term time matching using data from free‐ranging rhesus ( Macaca mulatta) and captive‐crested macaques ( Macaca nigra). We compare several commonly used cut‐offs to ones generated by the currently preferred approach—survival analysis. Crested macaques displayed a mild degree of time matching regardless of the cutoff used. For rhesus macaques, whereas most cut‐offs yielded similar degrees of time matching as the one derived from survival analysis, very short ones significantly underestimated both the degree of time matching and the influence of rank distance on time matching. Although researchers may have some flexibility in their choice of cut‐offs, we suggest that they employ caution by using survival analysis when possible, and when not possible, by avoiding very short time windows. 相似文献
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Joseph P McElroy Wuyan Zhang Kenneth J Koehler Susan J Lamont Jack CM Dekkers 《遗传、选种与进化》2006,38(6):637-655
Survival traits and selective genotyping datasets are typically not normally distributed, thus common models used to identify QTL may not be statistically appropriate for their analysis. The objective of the present study was to compare models for identification of QTL associated with survival traits, in particular when combined with selective genotyping. Data were simulated to model the survival distribution of a population of chickens challenged with Marek disease virus. Cox proportional hazards (CPH), linear regression (LR), and Weibull models were compared for their appropriateness to analyze the data, ability to identify associations of marker alleles with survival, and estimation of effects when all individuals were genotyped (full genotyping) and when selective genotyping was used. Little difference in power was found between the CPH and the LR model for low censoring cases for both full and selective genotyping. The simulated data were not transformed to follow a Weibull distribution and, as a result, the Weibull model generally resulted in less power than the other two models and overestimated effects. Effect estimates from LR and CPH were unbiased when all individuals were genotyped, but overestimated when selective genotyping was used. Thus, LR is preferred for analyzing survival data when the amount of censoring is low because of ease of implementation and interpretation. Including phenotypic data of non-genotyped individuals in selective genotyping analysis increased power, but resulted in LR having an inflated false positive rate, and therefore the CPH model is preferred for this scenario, although transformation of the data may also make the Weibull model appropriate for this case. The results from the research presented herein are directly applicable to interval mapping analyses. 相似文献
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We propose a constrained maximum partial likelihood estimator for dimension reduction in integrative (e.g., pan-cancer) survival analysis with high-dimensional predictors. We assume that for each population in the study, the hazard function follows a distinct Cox proportional hazards model. To borrow information across populations, we assume that each of the hazard functions depend only on a small number of linear combinations of the predictors (i.e., “factors”). We estimate these linear combinations using an algorithm based on “distance-to-set” penalties. This allows us to impose both low-rankness and sparsity on the regression coefficient matrix estimator. We derive asymptotic results that reveal that our estimator is more efficient than fitting a separate proportional hazards model for each population. Numerical experiments suggest that our method outperforms competitors under various data generating models. We use our method to perform a pan-cancer survival analysis relating protein expression to survival across 18 distinct cancer types. Our approach identifies six linear combinations, depending on only 20 proteins, which explain survival across the cancer types. Finally, to validate our fitted model, we show that our estimated factors can lead to better prediction than competitors on four external datasets. 相似文献
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Abstract. Superparasitism in gregarious wasps occurs with the deposition of a clutch of eggs by a female into a host already parasitized by itself or a conspecific female. This review synthesizes and interprets the available results in the literature reported from field studies, and from behavioural and physiological investigations. To study superparasitism at the ecosystem level, methodological issues have to be solved to determine threshold values beyond which multiple offspring can be indisputably classified as originating from superparasitism. This life strategy is then discussed from the parasitoid's perspective, considering time and egg limitation, host discrimination, clutch size, offspring body size and sex ratio, as well as development time and survival rate of offspring, with special emphasis on physiological facilitation and constraints. Then, superparasitism in gregarious species is evaluated from the host's angle, addressing host survivorship and development, host food consumption and growth. Although superparasitism may be beneficial for either the first or the superparasitizing female, depending on the system, it is detrimental for both of them under conditions of extreme superparasitism. Recent methodological and experimental advances encourage further studies on the adaptive host choice under field and laboratory conditions, as well as on mechanisms underlying success of the first or the superparasitizing female and their progeny. 相似文献