keyword
MENU ▼
Read by QxMD icon Read
search

Bayesian probability

keyword
https://www.readbyqxmd.com/read/28546227/keyboard-a-novel-bayesian-toxicity-probability-interval-design-for-phase-i-clinical-trials
#1
Fangrong Yan, Sumithra J Mandrekar, Ying Yuan
The primary objective of phase I oncology trials is to find the maximum tolerated dose (MTD). The 3+3 design is easy to implement but performs poorly in finding the MTD. A newer design, such as the modified toxicity probability interval (mTPI) design, provides better accuracy to identify the MTD but tends to overdose patients. We propose the keyboard design, an intuitive Bayesian design that conducts dose escalation and de-escalation based on whether the strongest key, defined as the dosing interval that most likely contains the current dose, is below or above the target dosing interval...
May 25, 2017: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/28542457/genet-specific-dna-methylation-probabilities-detected-in-a-spatial-epigenetic-analysis-of-a-clonal-plant-population
#2
Kiwako S Araki, Takuya Kubo, Hiroshi Kudoh
In sessile organisms such as plants, spatial genetic structures of populations show long-lasting patterns. These structures have been analyzed across diverse taxa to understand the processes that determine the genetic makeup of organismal populations. For many sessile organisms that mainly propagate via clonal spread, epigenetic status can vary between clonal individuals in the absence of genetic changes. However, fewer previous studies have explored the epigenetic properties in comparison to the genetic properties of natural plant populations...
2017: PloS One
https://www.readbyqxmd.com/read/28542369/trends-in-spatial-patterns-of-heavy-metal-deposition-on-national-park-service-lands-along-the-red-dog-mine-haul-road-alaska-2001-2006
#3
Peter N Neitlich, Jay M Ver Hoef, Shanti D Berryman, Anaka Mines, Linda H Geiser, Linda M Hasselbach, Alyssa E Shiel
Spatial patterns of Zn, Pb and Cd deposition in Cape Krusenstern National Monument (CAKR), Alaska, adjacent to the Red Dog Mine haul road, were characterized in 2001 and 2006 using Hylocomium moss tissue as a biomonitor. Elevated concentrations of Cd, Pb, and Zn in moss tissue decreased logarithmically away from the haul road and the marine port. The metals concentrations in the two years were compared using Bayesian posterior predictions on a new sampling grid to which both data sets were fit. Posterior predictions were simulated 200 times both on a coarse grid of 2,357 points and by distance-based strata including subsets of these points...
2017: PloS One
https://www.readbyqxmd.com/read/28536804/modeling-dynamic-contrast-enhanced-mri-data-with-a-constrained-local-aif
#4
Chong Duan, Jesper F Kallehauge, Carlos J Pérez-Torres, G Larry Bretthorst, Scott C Beeman, Kari Tanderup, Joseph J H Ackerman, Joel R Garbow
PURPOSE: This study aims to develop a constrained local arterial input function (cL-AIF) to improve quantitative analysis of dynamic contrast-enhanced (DCE)-magnetic resonance imaging (MRI) data by accounting for the contrast-agent bolus amplitude error in the voxel-specific AIF. PROCEDURES: Bayesian probability theory-based parameter estimation and model selection were used to compare tracer kinetic modeling employing either the measured remote-AIF (R-AIF, i.e...
May 23, 2017: Molecular Imaging and Biology: MIB: the Official Publication of the Academy of Molecular Imaging
https://www.readbyqxmd.com/read/28536034/can-natural-selection-encode-bayesian-priors
#5
Juan Camilo Ramírez, James A R Marshall
The evolutionary success of many organisms depends on their ability to make decisions based on estimates of the state of their environment (e.g., predation risk) from uncertain information. These decision problems have optimal solutions and individuals in nature are expected to evolve the behavioural mechanisms to make decisions as if using the optimal solutions. Bayesian inference is the optimal method to produce estimates from uncertain data, thus natural selection is expected to favour individuals with the behavioural mechanisms to make decisions as if they were computing Bayesian estimates in typically-experienced environments, although this does not necessarily imply that favoured decision-makers do perform Bayesian computations exactly...
May 20, 2017: Journal of Theoretical Biology
https://www.readbyqxmd.com/read/28533955/among-site-variability-in-the-stochastic-dynamics-of-east-african-coral-reefs
#6
Katherine A Allen, John F Bruno, Fiona Chong, Damian Clancy, Tim R McClanahan, Matthew Spencer, Kamila Żychaluk
Coral reefs are dynamic systems whose composition is highly influenced by unpredictable biotic and abiotic factors. Understanding the spatial scale at which long-term predictions of reef composition can be made will be crucial for guiding conservation efforts. Using a 22-year time series of benthic composition data from 20 reefs on the Kenyan and Tanzanian coast, we developed Bayesian vector autoregressive state-space models for reef dynamics, incorporating among-site variability, and quantified their long-term behaviour...
2017: PeerJ
https://www.readbyqxmd.com/read/28528816/vertical-transmission-of-microcystins-to-nile-crocodile-crocodylus-niloticus-eggs
#7
Alukhethi Singo, Jan G Myburgh, Peter N Laver, Elizabeth A Venter, Gezina C H Ferreira, Gertruida M Rösemann, Christo J Botha
Cyanobacteria or blue green algae are known for their extensive and highly visible blooms in eutrophic, stagnant freshwater bodies. Climate change and global warming have also contributed to a rise in toxic cyanobacterial blooms. One of the most important cyanobacteria is Microcystis aeruginosa, which can synthesize various microcystins that can affect the health of terrestrial and aquatic animals. Commercial Nile crocodile (Crocodylus niloticus) farming in South Africa is based on keeping breeders (adult males and females) in big dams on farms (captive-bred approach)...
May 18, 2017: Toxicon: Official Journal of the International Society on Toxinology
https://www.readbyqxmd.com/read/28528587/persistent-infections-support-maintenance-of-a-coronavirus-in-a-population-of-australian-bats-myotis-macropus
#8
J Jeong, C S Smith, A J Peel, R K Plowright, D H Kerlin, J McBroom, H McCallum
Understanding viral transmission dynamics within populations of reservoir hosts can facilitate greater knowledge of the spillover of emerging infectious diseases. While bat-borne viruses are of concern to public health, investigations into their dynamics have been limited by a lack of longitudinal data from individual bats. Here, we examine capture-mark-recapture (CMR) data from a species of Australian bat (Myotis macropus) infected with a putative novel Alphacoronavirus within a Bayesian framework. Then, we developed epidemic models to estimate the effect of persistently infectious individuals (which shed viruses for extensive periods) on the probability of viral maintenance within the study population...
May 22, 2017: Epidemiology and Infection
https://www.readbyqxmd.com/read/28526731/validated-bayesian-differentiation-of-causative-and-passenger-mutations
#9
Frederick R Cross, Michal Breker, Kristi Lieberman
In many contexts, the problem arises of determining which of many candidate mutations is the most likely to be causative for some phenotype. It is desirable to have a way to evaluate this probability that relies as little as possible on previous knowledge, to avoid bias against discovering new genes or functions. We are isolating mutants with blocked cell cycle progression in Chlamydomonas, and determining mutant genome sequences. Due to the intensity of UV mutagenesis required for efficient mutant collection, the mutants contain multiple mutations altering coding sequence...
May 19, 2017: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/28524851/extended-fisheries-recovery-timelines-in-a-changing-environment
#10
Gregory L Britten, Michael Dowd, Lisa Kanary, Boris Worm
Rebuilding depleted fish stocks is an international policy goal and a 2020 Aichi target under the Convention on Biological Diversity. However, stock productivity may shift with future climate change, with unknown consequences for sustainable harvesting, biomass targets and recovery timelines. Here we develop a stochastic modelling framework to characterize variability in the intrinsic productivity parameter (r) and carrying capacity (K) for 276 global fish stocks worldwide. We use models of dynamic stock productivity fitted via Bayesian inference to forecast rebuilding timelines for depleted stocks...
May 19, 2017: Nature Communications
https://www.readbyqxmd.com/read/28520893/using-bayesian-modeling-in-frequentist-adaptive-enrichment-designs
#11
Noah Simon, Richard Simon
Our increased understanding of the mechanistic heterogeneity of diseases has pushed the development of targeted therapeutics. We do not expect all patients with a given disease to benefit from a targeted drug; only those in the target population. That is, those with sufficient dysregulation in the biomolecular pathway targeted by treatment. However, due to complexity of the pathway, and/or technical issues with our characterizing assay, it is often hard to characterize the target population until well into large-scale clinical trials...
May 17, 2017: Biostatistics
https://www.readbyqxmd.com/read/28515201/pre-versus-post-mass-extinction-divergence-of-mesozoic-marine-reptiles-dictated-by-time-scale-dependence-of-evolutionary-rates
#12
Ryosuke Motani, Da-Yong Jiang, Andrea Tintori, Cheng Ji, Jian-Dong Huang
The fossil record of a major clade often starts after a mass extinction even though evolutionary rates, molecular or morphological, suggest its pre-extinction emergence (e.g. squamates, placentals and teleosts). The discrepancy is larger for older clades, and the presence of a time-scale-dependent methodological bias has been suggested, yet it has been difficult to avoid the bias using Bayesian phylogenetic methods. This paradox raises the question of whether ecological vacancies, such as those after mass extinctions, prompt the radiations...
May 17, 2017: Proceedings. Biological Sciences
https://www.readbyqxmd.com/read/28512374/description-of-enchodorus-yeatsi-n-sp-dorylaimida-nordiidae-from-southern-iran-and-its-molecular-phylogenetic-study
#13
Majid Pedram
Enchodorus yeatsi n. sp., a new species of the rare genus Enchodorus is described and illustrated based on its morphological and molecular characters. It was recovered from southern Iran. Females of the new species are characterized by having 1,511.3- to 1,792.5-µm long slender body, angular lip region having prominent papillae, 12- to 13-µm long odontostyle, double guiding ring, simple rod-like odontophore, didelphic-amphidelphic reproductive system, and 102- to 160-µm long elongate-conoid tail with rounded tip...
March 2017: Journal of Nematology
https://www.readbyqxmd.com/read/28511958/selection-of-discriminant-mid-infrared-wavenumbers-by-combining-a-na%C3%A3-ve-bayesian-classifier-and-a-genetic-algorithm-application-to-the-evaluation-of-lignocellulosic-biomass-biodegradation
#14
REVIEW
Abbas Rammal, Eric Perrin, Valeriu Vrabie, Rabih Assaf, Hassan Fenniri
Infrared spectroscopy provides useful information on the molecular compositions of biological systems related to molecular vibrations, overtones, and combinations of fundamental vibrations. Mid-infrared (MIR) spectroscopy is sensitive to organic and mineral components and has attracted growing interest in the development of biomarkers related to intrinsic characteristics of lignocellulose biomass. However, not all spectral information is valuable for biomarker construction or for applying analysis methods such as classification...
May 13, 2017: Mathematical Biosciences
https://www.readbyqxmd.com/read/28508154/estimating-loss-of-brucella-abortus-antibodies-from-age-specific-serological-data-in-elk
#15
J A Benavides, D Caillaud, B M Scurlock, E J Maichak, W H Edwards, P C Cross
Serological data are one of the primary sources of information for disease monitoring in wildlife. However, the duration of the seropositive status of exposed individuals is almost always unknown for many free-ranging host species. Directly estimating rates of antibody loss typically requires difficult longitudinal sampling of individuals following seroconversion. Instead, we propose a Bayesian statistical approach linking age and serological data to a mechanistic epidemiological model to infer brucellosis infection, the probability of antibody loss, and recovery rates of elk (Cervus canadensis) in the Greater Yellowstone Ecosystem...
May 15, 2017: EcoHealth
https://www.readbyqxmd.com/read/28507269/randomized-multicenter-trial-of-artss-2-argatroban-with-recombinant-tissue-plasminogen-activator-for-acute-stroke
#16
Andrew D Barreto, Gary A Ford, Loren Shen, Claudia Pedroza, Jon Tyson, Chunyan Cai, Mohammad H Rahbar, James C Grotta
BACKGROUND AND PURPOSE: We conducted a randomized exploratory study to assess safety and the probability of a favorable outcome with adjunctive argatroban, a direct thrombin-inhibitor, administered to recombinant tissue-type plasminogen activator (r-tPA)-treated ischemic stroke patients. METHODS: Patients treated with standard-dose r-tPA, not receiving endovascular therapy, were randomized to receive no argatroban or argatroban (100 μg/kg bolus) followed by infusion of either 1 (low dose) or 3 μg/kg per minute (high dose) for 48 hours...
June 2017: Stroke; a Journal of Cerebral Circulation
https://www.readbyqxmd.com/read/28504529/the-cause-of-category-based-distortions-in-spatial-memory-a-distribution-analysis
#17
Cristina Sampaio, Ranxiao Frances Wang
Recall of remembered locations reliably reflects a compromise between a target's true position and its region's prototypical position. The effect is quite robust, and a standard interpretation for these data is that the metric and categorical codings blend in a Bayesian combinatory fashion. However, there has been no direct experimental evidence that the 2 codings are actually combined. That is, at least 2 mechanisms can produce biased mean responses: (a) people may in fact take a weighted average of the metric and categorical representations, but (b) these 2 codings may instead compete for response, each winning with a certain probability...
May 15, 2017: Journal of Experimental Psychology. Learning, Memory, and Cognition
https://www.readbyqxmd.com/read/28503526/be-seeded-or-not-be-seeded-a-study-with-olympic-judo-athletes
#18
Leandro Marques Guilheiro, Emerson Franchini
The main purpose of the present study was to calculate the probability-based on a Bayesian approach-to win a medal in the Olympic Games given the athlete is seeded and to verify if the number one ranked athlete has any advantage compared to other seeded athletes concerning his/her chances to be Olympic champion. For this, data from athletes who took part in the London 2012 and Rio 2016 Olympic Games were considered. For males the probability of seeded athletes to win a medal was 41.1% and 42.9%, while for females it was 35...
April 2017: Journal of Exercise Rehabilitation
https://www.readbyqxmd.com/read/28502760/patterns-of-gestational-weight-gain-and-birthweight-outcomes-in-the-eunice-kennedy-shriver-national-institute-of-child-health-and-human-development-fetal-growth-studies-singletons-a-prospective-study
#19
Sarah J Pugh, Paul S Albert, Sungduk Kim, William Grobman, Stefanie N Hinkle, Roger B Newman, Deborah A Wing, Katherine L Grantz
BACKGROUND: Inadequate or excessive total gestational weight gain is associated with increased risks of small- and large-for-gestational-age births, respectively, but evidence is sparse regarding overall and trimester-specific patterns of gestational weight gain in relation to these risks. Characterizing the interrelationship between patterns of gestational weight gain across trimesters can reveal whether the trajectory of gestational weight gain in the first trimester sets the path for gestational weight gain in subsequent trimesters, thereby serving as an early marker for at-risk pregnancies...
May 11, 2017: American Journal of Obstetrics and Gynecology
https://www.readbyqxmd.com/read/28498501/ppar-gamma-agonist-pioglitazone-modifies-craving-intensity-and-brain-white-matter-integrity-in-patients-with-primary-cocaine-use-disorder-a-double-blind-randomized-controlled-pilot-trial
#20
Joy M Schmitz, Charles E Green, Khader M Hasan, Jessica Vincent, Robert Suchting, Michael F Weaver, F Gerard Moeller, Ponnada A Narayana, Kathryn A Cunningham, Kelly T Dineley, Scott D Lane
BACKGROUND AND AIMS: Pioglitazone (PIO), a potent agonist of PPAR-gamma, is a promising candidate treatment for cocaine use disorder (CUD). We tested the effects of PIO on targeted mechanisms relevant to CUD: cocaine craving and brain white matter (WM) integrity. Feasibility, medication compliance, and tolerability were evaluated. DESIGN: Two-arm double-blind randomized controlled proof-of-concept pilot trial of PIO or placebo (PLC). SETTING: Single-site outpatient treatment research clinic in Houston, Texas, USA...
May 12, 2017: Addiction
keyword
keyword
76672
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"