Search results for " selection"
showing 10 items of 1271 documents
Model-Based Transfer Entropy Analysis of Brain-Body Interactions with Penalized regression techniques
2020
The human body can be seen as a functional network depicting the dynamical interactions between different organ systems. This exchange of information is often evaluated with information-theoretic approaches which comprise the use of vector autoregressive (VAR) and state space (SS) models, normally identified with the Ordinary Least Squares (OLS). However, the number of time series to be included in the model is strictly related to the length of data recorded thus limiting the use of the classical approach. In this work, a new method based on penalized regressions, the so-called LASSO, was compared with OLS on physiological time-series extracted from 18 subjects during different stress condi…
NATURAL SELECTION AND THE ORGAN-SPECIFIC DIFFERENTIATION OF HIV-1 V3 HYPERVARIABLE REGION
2004
The existence of organ-specific HIV-1 populations within infected hosts has been studied for many years; nonetheless results reported by different authors are somewhat discrepant. To tackle this problem, we used a population genetics approach to analyze previously published data from the V3 hypervariable region of the envelope env gene. Our results are compatible with a population subdivision by organs in 95% of individuals analyzed at autopsy. In addition, populations infecting the nervous system and testicles clearly appear as differentiated subsets of the so-called macrophage-tropic variants. Liver and kidney may harbor differentiated populations as well. Although it is widely accepted t…
The fitness effects of synonymous mutations in DNA and RNA viruses.
2011
Despite being silent with respect to protein sequence, synonymous nucleotide substitutions can be targeted by natural selection directly at the DNA or RNA level. However, there has been no systematic assessment of how frequent this type of selection is. Here, we have constructed 53 single random synonymous substitution mutants of the bacteriophages Qb and UX174 by site-directed mutagenesis and assayed their fitness. Analysis of this mutant collection and of previous studies undertaken with a variety of single-stranded (ss) viruses demonstrates that selection at synonymous sites is stronger in RNA viruses than in DNA viruses. We estimate that this type of selection contributes approximately …
Propagation pattern analysis during atrial fibrillation based on sparse modeling.
2012
In this study, sparse modeling is introduced for the estimation of propagation patterns in intracardiac atrial fibrillation (AF) signals. The estimation is based on the partial directed coherence function, derived from fitting a multivariate autoregressive model to the observed signal using least-squares (LS) estimation. The propagation pattern analysis incorporates prior information on sparse coupling as well as the distance between the recording sites. Two optimization methods are employed for estimation of the model parameters, namely, the adaptive group least absolute selection and shrinkage operator (aLASSO), and a novel method named the distance-adaptive group LASSO (dLASSO). Using si…
Site selection for the new generation of giant neutrino detectors
2012
The main findings of the LAGUNA Design Study are briefly discussed. Construction of giant underground detectors is technically feasible at several sites. Physics factors will dominate in the site selection.
isotracer: An R package for the analysis of tracer addition experiments
2021
AbstractTracer addition experiments, particularly using isotopic tracers, are becoming increasingly important in a variety of studies aiming at characterizing the flows of molecules or nutrients at different levels of biological organization, from the cellular and tissue levels, to the organismal and ecosystem levels.We present an approach based on Hidden Markov Models (HMM) to estimate nutrient flow parameters across a network, and its implementation in the R package isotracer.The isotracer package is capable of handling a variety of tracer study designs, including continuous tracer drips, pulse experiments, and pulse-chase experiments. It can also take into account tracer decay when radio…
Sex Loss in Monogonont Rotifers
2009
Monogonont rotifers are small, aquatic invertebrates capable of asexual and sexual reproduction. Sexual reproduction is required to produce diapausing eggs, which are able to survive adverse periods that typically occur every year. Their cyclically parthenogenetic life-cycle is believed to retain the advantages of recombination while minimizing the cost of sex. However, this life cycle is also thought to be unstable due to periodic loss of sexual reproduction by directional selection. Explaining the evolutionary dynamics of the monogonont rotifer life cycle is important for understanding how cyclical parthenogenesis is maintained, and for comparing monogononts with their close relatives, th…
Extra-pair paternity and male characteristics in the pied flycatcher
1995
The pied flycatcher (Ficedula hypoleuca) is sexually dichromatic with extreme variation in male plumage coloration. The benefit for males of having black plumage is controversial, and few studies have found evidence for a sexual selection benefit of being black rather than brown. However, blacker males may be better able to achieve extra-pair fertilizations (EPFs), which may be an important component of sexual selection. We studied the role of EPFs in sexual selection in the pied flycatcher by establishing a set-up where two males with different back coloration (blacker vs browner) bred simultaneously near each other. DNA fingerprinting analysis revealed that 11% of offspring resulted from …
The GiSAS study: Rationale and design of a pragmatic randomized controlled trial on aripiprazole, olanzapine and haloperidol in the long-term treatme…
2011
Given the controversy about the comparative efficacy of first- compared with second-generation antipsychotics in the treatment of schizophrenia, more large-scale evidence is needed to guide clinicians in their prescriptions. Most randomized controlled trials (RCTs) were conducted in centers of excellence on highly selected samples, poorly representative of real-world patients, and often suffered conflicts of interest as they were sponsored by drug companies. The primary aim of the present study is to compare the effectiveness of haloperidol, olanzapine and aripiprazole in a representative sample of schizophrenia patients. The GiSAS trial is an open-label, independent, pragmatic RCT in Itali…
Epidoxorubicin and double biochemical 5-fluorouracil modulation with folinic acid and human lymphoblastoid interferon in advanced gastric carcinoma: …
1996
In our previous randomized trial of advanced gastric cancer patients, the addition of epirubicin (EPI) to 5-fluorouracil (FU) with folinic acid (FA) resulted in an improved response rate and survival in the responder patients. Preclinical studies also showed an enhancement of FU and anthracyclines with interferon. To evaluate the possibility of human lymphoblastoid interferon (IFN) to enhance the therapeutic activity of the FA-FU + EPI combination regimen, 39 advanced gastric cancer patients received: FU at 375 mg/m2 i.v. immediately after FA (l-isomer form) at 100 mg/m2 i.v. for 5 consecutive days; EPI at 60 mg/m2 i.v. on day 1, and IFN 3 MU s.c. for 7 consecutive days, starting 2 days bef…