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steps be must these an independent to for generate run methods Consequently, sample. many

Consequently, these methods must be run for many steps to generate an independent sample.

this proposed In to this method paper a overcome is difficulty.

In this paper a method is proposed to overcome this difficulty.

between chains. This through exchanges chain auxiliary coarse accomplished full and is the the

This is accomplished through exchanges between the full chain and the auxiliary coarse chains.

real bandwidth selection in a of heterogeneous features. multidimensional becomes case challenge Automatic

Automatic bandwidth selection becomes a real challenge in case of multidimensional heterogeneous features.

to solution This this problem. a paper presents

This paper presents a solution to this problem.

partitioning A and filtering are shift mean pseudo introduced. balloon

A pseudo balloon mean shift filtering and partitioning are introduced.

of histories Genetic within homologous phylogenetic heterogeneous genes. can a recombination produce set

Genetic recombination can produce heterogeneous phylogenetic histories within a set of homologous genes.

Super-resolution in problem difficult important processing. but is image/video an

Super-resolution is an important but difficult problem in image/video processing.

single a on The difficult problem hand. with image only is substantially more low-resolution

The problem is substantially more difficult with only a single low-resolution image on hand.

systems Evolution space. described ideas dynamical by mental metric of is in

Evolution of ideas is described by dynamical systems in metric mental space.

robots. of such domestic be of Creation may improvement useful psycho-robots

Creation of such psycho-robots may be useful improvement of domestic robots.

working are simple domestic merely devices At (e.g. moment the robots

At the moment domestic robots are merely simple working devices (e.g.

marker a with gametes They preferrably male zygotes than having fuse different their to own.

They fuse to zygotes preferrably with male gametes having a different marker than their own.

are such features two dimensional where arise. high There situations

There are two situations where such high dimensional features arise.

features high-order arise interactions. High when we also dimensional consider

High dimensional features also arise when we consider high-order interactions.

increase considered. The parameters the exponentially will of with order number

The number of parameters will increase exponentially with the order considered.

order. number compressed highest The the have may considering of before parameters converged possible

The number of compressed parameters may have converged before considering the highest possible order.

apply method We sequence logistic prediction to models. logistic models compression and this classification

We apply this compression method to logistic sequence prediction models and logistic classification models.

use data test simulated our real and data both We both in methods chapters. to

We use both simulated data and real data to test our methods in both chapters.

is The analysis. explored proteins of usually via folding these kinetics mutational

The folding kinetics of these proteins is usually explored via mutational analysis.

of beta-hairpins native structure a WW two form beta-sheet. comprises three-stranded domains that The these

The native structure of these WW domains comprises two beta-hairpins that form a three-stranded beta-sheet.

problems. and the and We open literature answers some relevant partial provide survey many

We survey the relevant literature and provide some partial answers and many open problems.

sampling), significantly the test sampling). better control The performed (space-variant than (uniform group group

The test group (space-variant sampling), performed significantly better than the control group (uniform sampling).

to find the enhanced, was target. as speed The pointing the was accuracy

The pointing accuracy was enhanced, as was the speed to find the target.

estimators algorism its Y. were The related by suggested density super-parametric and

The super-parametric density estimators and its related algorism were suggested by Y.

examples, Before not can any we estimators. numerical of the applying to comment give

Before applying to numerical examples, we can not give any comment of the estimators.

are splines studied covering and Bezier windows as well. B-splines,

B-splines, Bezier splines and covering windows are studied as well.

results The show algorism that Y. by suggested

The results show that algorism suggested by Y.

endemic infection. the spread Susceptible-Infected-Susceptible study an of the of model We

We study the Susceptible-Infected-Susceptible model of the spread of an endemic infection.

global a optimization Simulated approaching popular a solution is for method the problem. of annealing

Simulated annealing is a popular method for approaching the solution of a global optimization problem.

the probabilistic of recognition the retrieval enables events. similar and It

It enables the recognition and the probabilistic retrieval of similar events.

model. a using inferred examples, a Bayesian probabilities and are network From Dirichlet these

From these examples, probabilities are inferred using a Bayesian network and a Dirichlet model.

user model a between enables links graph This interest patterns. similarity to specific to

This enables to links user interest to a specific similarity model between graph patterns.

a on experiments Few image proposed multi-spectral sequence recognition illustrate the spatio-temporal performed method. SPOT

Few experiments performed on a multi-spectral SPOT image sequence illustrate the proposed spatio-temporal recognition method.

chemical is mechanisms. physical, by biological It and ruled

It is ruled by physical, chemical and biological mechanisms.

this this task. for rules developed the paper We present in

We present in this paper the rules developed for this task.

measure has the classical been studied This problem. MAX-SAT on

This measure has been studied on the classical MAX-SAT problem.

we perform In study computational Majority cellular this (CAs) the task. automata that paper

In this paper we study cellular automata (CAs) that perform the computational Majority task.

searching of the quantify degree We statistically this in various difficulty of ways landscape.

We statistically quantify in various ways the degree of difficulty of searching this landscape.

we landscape So, go from the exploring the top.

So, we go exploring the landscape from the top.

subspace. of Then measure several we properties this

Then we measure several properties of this subspace.

a optimal is Otherwise the bound we solution. and gap'', ``duality on a there obtain

Otherwise there is a ``duality gap'', and we obtain a bound on the optimal solution.

programming techniques graphs. Thus, with applicable approach for convex dynamic optimization combines our thin

Thus, our approach combines convex optimization with dynamic programming techniques applicable for thin graphs.

(e.g. induced thin subgraphs We also a small consider of set to relaxations subgraphs,

We also consider relaxations to a set of small induced subgraphs, thin subgraphs (e.g.

cycles. tree by connected and a obtained ``unwinding'' loops),

loops), and a connected tree obtained by ``unwinding'' cycles.

that class of introduce variables. addition, In multiscale relaxations ``summary'' new a propose we

In addition, we propose a new class of multiscale relaxations that introduce ``summary'' variables.

concept several the landscape the deficiencies cloud argued of overcomes is It that fitness representation.

It is argued that the fitness cloud concept overcomes several deficiencies of the landscape representation.

on of demonstrate scientific several from this collections journals. abstracts algorithm We

We demonstrate this algorithm on collections of scientific abstracts from several journals.

sense known is as of This familiarity. recognition

This sense of recognition is known as familiarity.

networks undergo and rearrangements during diseases. stress Cellular

Cellular networks undergo rearrangements during stress and diseases.

the central position. proteasome preserve A such as basic functions, their few

A few basic functions, such as the proteasome preserve their central position.

such circuit rate-equations. cannot Therefore, deterministic the as be fully repressilator methods analyzed using

Therefore, the repressilator circuit cannot be fully analyzed using deterministic methods such as rate-equations.

of is a complex and elements gene regulatory The characterization very process. experimental resource-intensive

The experimental characterization of gene regulatory elements is a very complex and resource-intensive process.

intermediate neutral are trajectories evolutionary to The be steps selectively such in or likely deleterious.

The intermediate steps in such evolutionary trajectories are likely to be selectively neutral or deleterious.

and may be long times traits. such populations to required Therefore, evolve large

Therefore, large populations and long times may be required to evolve such traits.

this a We of test hypothesis population based model protein evolution. using

We test this hypothesis using a population based model of protein evolution.

a model of grained A structure-based is coarse used. protein

A structure-based coarse grained model of a protein is used.

large shear very Full at only occurs rates. unfolding

Full unfolding occurs only at very large shear rates.

along the human We behavior large-scale chromosomes. compositional explore nucleotide of strand asymmetries

We explore the large-scale behavior of nucleotide compositional strand asymmetries along human chromosomes.

in opens for This work crystallography. exciting work and RNA possibilities further modelling

This work opens exciting possibilities for further work in RNA modelling and crystallography.

al. prototypical review et of model we package Niesert the Here

Here we review the prototypical package model of Niesert et al.

emergence forces promote nature. modularity the in selective We the that investigate of

We investigate the selective forces that promote the emergence of modularity in nature.

question in concerns the arising This following biology. evolutionary article computational

This article concerns the following question arising in computational evolutionary biology.

triplet sets. in We this all also to article the apply results note weighted that

We note that all the results in this article also apply to weighted triplet sets.

its understood. are the well to and not However, relation behind complexification mechanisms the evolution

However, the mechanisms behind the complexification and its relation to evolution are not well understood.

mean to complexification different things different contexts. used in can Moreover be

Moreover complexification can be used to mean different things in different contexts.

longer Why than us? do live women

Why do women live longer than us?

so the Y for chromosome Why is men small?

Why is the Y chromosome for men so small?

the dangers marital are What of fidelity?

What are the dangers of marital fidelity?

of a data parameters generative the sequence. are abrupt in variations Changepoints

Changepoints are abrupt variations in the generative parameters of a data sequence.

on demonstrating the different data illustrate by this real-world algorithm sets. We modularity three

We illustrate this modularity by demonstrating the algorithm on three different real-world data sets.

of equations monolithic their sets progress. barrier to as construction a fundamental However, current presents

However, their current construction as monolithic sets of equations presents a fundamental barrier to progress.

in datatypes. turn rather These programs than be as require models represented to as

These in turn require models to be represented as programs rather than as datatypes.

support have to a developed computational infrastructure this. We

We have developed a computational infrastructure to support this.

this "infinite"-size finite- that and equally demonstrate on effective framework networks. is Furthermore, we

Furthermore, we demonstrate that this framework is equally effective on finite- and "infinite"-size networks.

modification of of is in regulation role recognized. The post-translational eukaryotic histones gene well

The role of post-translational modification of histones in eukaryotic gene regulation is well recognized.

be guiding in discussion in general. of the use could chromatin silencing model The on

The model could be of use in guiding the discussion on chromatin silencing in general.

estimate and used of collection to loop structural heterogeneity methods Both regions. ensemble are the

Both ensemble and collection methods are used to estimate the structural heterogeneity of loop regions.

speciation invasibility the to applied analysis is Pairwise process. illustrate

Pairwise invasibility analysis is applied to illustrate the speciation process.

discuss affects fluctuation diversity. also We how species

We also discuss how fluctuation affects species diversity.

Methods a discovery to network are problem a social node solve for presented.

Methods to solve a node discovery problem for a social network are presented.

to nodes nodes not which refer are directly. Covert observable the

Covert nodes refer to the nodes which are not observable directly.

illustration, polarity segment is gene an As the network analyzed.

As an illustration, the segment polarity gene network is analyzed.

in data Generating many essential is multivariate applications. Poisson

Generating multivariate Poisson data is essential in many applications.

computationally and for generating We multivariate appealing efficient propose a Poisson conceptually data. method

We propose a computationally efficient and conceptually appealing method for generating multivariate Poisson data.

we end with random asymmetric existing path-integral generalise replicator To this to approaches couplings. systems

To this end we generalise existing path-integral approaches to replicator systems with random asymmetric couplings.

can of onset be determined The self-consistently. instability

The onset of instability can be determined self-consistently.

is structural proteins local to for resolution in method similarities A presented. search atomic at

A method to search for local structural similarities in proteins at atomic resolution is presented.

architecture. on The robust evolve to mutants the depend to network known ability is

The ability to evolve robust mutants is known to depend on the network architecture.

the the Does behavior of networks? dynamical selection on global operate

Does selection operate on the global dynamical behavior of the networks?

kind by state-space What are structures selection? of favored

What kind of state-space structures are favored by selection?

we given paper this In minimum with structures stack-length. $k$-noncrossing enumerate RNA pseudoknot

In this paper we enumerate $k$-noncrossing RNA pseudoknot structures with given minimum stack-length.

interaction. in spots social predict relevant This to addresses empty problem a contribution

This contribution addresses a problem to predict relevant empty spots in social interaction.

Homogeneous underlying as the social a networks model interaction. studied and inhomogeneous are

Homogeneous and inhomogeneous networks are studied as a model underlying the social interaction.

problem. approach new A address to presented method predictor a the function is as heuristic

A heuristic predictor function approach is presented as a new method to address the problem.

homogeneous is a demonstrated over Simulation experiment network.

Simulation experiment is demonstrated over a homogeneous network.

the form of simulated test the from is communication. in generated baskets A data

A test data in the form of baskets is generated from the simulated communication.

membrane Intracellular are tool potential neuronal neurophysiology. in central of a recordings

Intracellular recordings of neuronal membrane potential are a central tool in neurophysiology.

are white this noise model using estimated The characteristics current of injection. first

The characteristics of this model are first estimated using white noise current injection.

accuracy. with demonstrate other techniques AEC yields it comparing Tests improved to that recordings

Tests comparing AEC to other techniques demonstrate that it yields recordings with improved accuracy.