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Ensembl 2008

P. Flicek, B. L. Aken, K. Beal, B. Ballester, M. Caccamo, Y. Chen, L. Clarke, G. Coates, F. Cunningham, T. Cutts, T. Down, S. C. Dyer (+47 others)
2007 Nucleic Acids Research  
of protein-DNA interactions and the Ensembl regulatory build; support for customization of the Ensembl web interface through the addition of user accounts and user groups; and increased support for genome  ...  As of release 47 (October 2007), Ensembl fully supports 35 species, with preliminary support for six additional species. New species in the past year include platypus and horse.  ...  ACKNOWLEDGEMENTS The Ensembl project receives primary funding from the Wellcome Trust. Additional funding is provided by EMBL, NHGRI, NIH-NIAID, BBSRC, MRC and the European Union.  ... 
doi:10.1093/nar/gkm988 pmid:18000006 pmcid:PMC2238821 fatcat:pzl3e3ahrrb77as4eqynxux3dm

Generating entangled light with atomic ensembles [article]

Peng Li
2008 arXiv   pre-print
We consider ensembles of N ∼ 10 6 atoms.  ...  We propose a scheme for the generation of two-mode field squeezing in a resonator with atomic ensembles.  ... 
arXiv:0801.2488v3 fatcat:uvbilbqqcresfbulvkyiqz7nji

Complexity of hierarchical ensembles [article]

A.I. Olemskoi, S.V. Kokhan, V.I. Ostrik
2008 arXiv   pre-print
The latter is found explicitly for self-similar ensemble and generalized for arbitrary hierarchical trees.  ...  Time dependencies are found for both the probability distribution over ensemble states and the related complexity.  ...  Respectively, growth of the variance increases the disorder of statistical ensemble dramatically and the discrete nature of the ensemble becomes inessential.  ... 
arXiv:0712.0011v4 fatcat:7kk4jb3g7nfffb35xfu5h3jntm

Semicircle Law of Vandermonde Ensemble [article]

Da Xu, Lihe Wang
2008 arXiv   pre-print
integrals of fixed trace square ensemble Let's give a general definition of the ensemble on a homogeneous space. Definition 1.  ...  Figure 1 .Figure 2 . 12 Level density of fixed trace square ensemble N=10 Level density of fixed trace square ensemble N=50 Figure 3 . 3 Level density of fixed trace square ensemble N=100 Figure 4  ... 
arXiv:0804.2228v2 fatcat:qiijinjmhbawdg4f3xs64luu7a

Entropy of network ensembles

Ginestra Bianconi
2009 Physical Review E  
These ensembles are characterized by their entropy which evaluate the cardinality of networks in the ensemble.  ...  The general framework we present in this paper is able to describe microcanonical ensemble of networks as well as canonical or hidden variables network ensemble with significant implication for the formulation  ...  In [6] the entropy of an ensemble as the normalized logarithm of the number of networks in the ensemble was introduced.  ... 
doi:10.1103/physreve.79.036114 pmid:19392025 fatcat:gbwzcken3bbtrn4oar7fw2zoq4

Fluctuation-dissipation theorem for the microcanonical ensemble

Marcus V. S. Bonança
2008 Physical Review E  
A derivation of the Fluctuation-Dissipation Theorem for the microcanonical ensemble is presented using linear response theory.  ...  Therefore, the relation presented here between equilibrium fluctuations and response can have a very different physical nature from the usual one in the canonical ensemble.  ...  Of course one could argue that the equivalence of the ensembles in the thermodynamic limit would be the reason for focusing just in the canonical ensemble but recent developments have shown there are indeed  ... 
doi:10.1103/physreve.78.031107 pmid:18850993 fatcat:zo46bdlsajegpcetf7bvju3rmi

Spiked Models in Wishart Ensemble [article]

Dong Wang
2008 arXiv   pre-print
The spiked model is an important special case of the Wishart ensemble, and a natural generalization of the white Wishart ensemble.  ...  spiked population eigenvalue increases, and recognize the seemingly new limiting distribution on the critical point as the limiting distribution of the largest sample eigenvalue in the real white Wishart ensemble  ...  unitary ensemble (LUE) and the Laguerre symplectic ensemble (LSE).  ... 
arXiv:0804.0889v1 fatcat:mnwxuqll3zesfbf3iakrcb3pju

Sur les ensembles d'entiers reconnaissables [article]

Fabien Durand
2008 arXiv   pre-print
Récemment Hansel [Ha2] a prouvé un résultat très général sur la syndéticité des ensembles d'entiers reconnaissables.  ...  E ′ ) un ensemble d'entiers positifs U-reconnaissable (resp. V -reconnaissable) dontla suite caractéristique est x (resp. x ′ ).  ... 
arXiv:0801.0556v1 fatcat:i5oqovwzovc25mxqs7w4i52ute

Ensemble-Trees: Leveraging Ensemble Power Inside Decision Trees [chapter]

Albrecht Zimmermann
2008 Lecture Notes in Computer Science  
We propose the technique of Ensemble-Trees which uses ensembles of rules within the test nodes to reduce over-fitting and variance effects.  ...  On the other hand, decision trees show a tendency to lack stability given small changes in the data, whereas interpreting an ensemble of trees is challenging to comprehend.  ...  While the advantages of Ensemble-Trees are clear -no need for post-pruning, shallower trees with fewer nodes, and far easier interpretability than existing ensemble methods using decision trees as weak  ... 
doi:10.1007/978-3-540-88411-8_10 fatcat:6xxtx7ipknav5lpipgr4jcpxwe

Non-asymptotic thermodynamic ensembles

R. K. Niven
2009 Europhysics letters  
The analysis is therefore constructed on a microcanonical basis (systems of particles rather than ensembles of systems), but shares some element of the canonical ensemble.  ...  Further work is required on the non-asymptotic behaviour of systems with variable N (the grand canonical ensemble).  ... 
doi:10.1209/0295-5075/86/20010 fatcat:w6p5idjcdrf3doco2lh7tycv5u

Multimode Memories in Atomic Ensembles

J. Nunn, K. Reim, K. C. Lee, V. O. Lorenz, B. J. Sussman, I. A. Walmsley, D. Jaksch
2008 Physical Review Letters  
Here we compute the multimode capacity of a variety of quantum memory protocols based on light storage in ensembles of atoms.  ...  The probability that a 260502-1 Ó 2008 The American Physical Society single photon in mode k is stored by the memory is 2 k .  ...  z within the ensemble with amplitude BðzÞ [see Fig. 1(a) ].  ... 
doi:10.1103/physrevlett.101.260502 pmid:19113761 fatcat:pgldnt3g6zfrtfuj7cadzmb2s4

From Boltzmann-Gibbs ensemble to generalized ensembles [article]

Thomas Oikonomou
2011 arXiv   pre-print
These three ensembles are characterized by the conservation of their sizes.  ...  We reconsider the Boltzmann-Gibbs statistical ensemble in thermodynamics using the multinomial coefficient approach.  ...  the ensemble.  ... 
arXiv:0712.2310v3 fatcat:oibcjicp2bcmvf5z5oxouubt3y

Topological quantization of ensemble averages

Emil Prodan
2009 Journal of Physics A: Mathematical and Theoretical  
We define the current of a quantum observable and, under well defined conditions, we connect its ensemble average to the index of a Fredholm operator.  ...  [1] for continuum magnetic Shcroedinger opperators connects the problem of ensemble average of edge currents to powerful ideas in non-commutative geometry.  ...  difficult to understand is the quantization of macroscopic variables, quantization that takes place even at finite temperatures or at non-equilibrium, when the experimentally measured values are actually ensembles  ... 
doi:10.1088/1751-8113/42/6/065207 fatcat:wqv26h3lwfe2didhdojhhqe5aq

Universality in Complex Wishart ensembles: The 2 cut case [article]

M. Y. Mo
2008 arXiv   pre-print
We studied the universality of Wishart ensembles whose covariance matrix has 2 distinct eigenvalues.  ...  Stieltjes transform of the eigenvalue distribution In order to study the asymptotics of the correlation kernel, we would need to know the asymptotic eigenvalue distribution of the Wishart ensemble (1.3  ...  also [19] in which a different class of Σ N was studied) For theoretical reasons, the model studied in this paper is crucial in understanding of the phase transition behavior that occurs in Wishart ensembles  ... 
arXiv:0809.3750v2 fatcat:shqikudgyjgblbgi4b4n4g7vjq

Ensemble Control of Finite Dimensional Time-Varying Linear Systems [article]

Jr-Shin Li
2008 arXiv   pre-print
The existence of such a control raises fundamental questions of ensemble controllability.  ...  In addition, we study the problem of optimal ensemble control of harmonic oscillators to demonstrate our main results.  ...  Defineh n (s, t) = n i,j=1 October 28, 2008 DRAFT  ... 
arXiv:0810.5116v2 fatcat:zhuwaenz2ngqrp33wpf46h6pgq
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