Matematičeskaâ biologiâ i bioinformatika, Tome 7 (2012)

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Development of Information and Communication Technologies in Pushchino Research Center of the Russian Academy of Sciences

V. D. Lakhno ; E. A. Isaev ; V. D. Pugachev ; A. Yu. Zaitsev ; N. S. Fialko ; S. D. Rykunov ; M. N. Ustinin

p. 529-544

L-MOLKERN: a~Simulation Package for Polarizable Free-Energy Calculations

Eduard S. Fomin ; Nikolay A. Alemasov

p. 398-409

Informational Support of the Breeding Experiment in Wheat in the WheatPGE System

M. A. Genaev ; A. V. Doroshkov ; T. A. Pshenichnikova ; E. V. Morozova ; A. V. Simonov ; D. A. Afonnikov

p. 410-424

TGP --- the Database on Promoters for Plant Transgenesis

Olga G. Smirnova ; Dmitriy A. Rasskazov ; Dmitriy A. Afonnikov ; Alexey V. Kochetov

p. 444-460

Searching Pair Points of Triplet Periodicity Phase Shifts in the Genes of 17 Bacterial Genomes

Valentina M. Pugacheva ; Alexander E. Korotkov ; Eugene V. Korotkov

p. 461-475

Search for Extended Repeats in Genomes Based on the Spectral-Analytical Method

Anton Pankratov ; Maxim Pyatkov ; Ruslan Tetuev ; Nafisa Nazipova ; Florents F. Dedus

p. 476-492

Elements of RNA Secondary Structures and Their Classification

E. F. Baulin ; T. V. Astakhova ; M. A. Roytberg

p. 567-571

The Application of Model Reduction Methods to the Construction of the Composite Model of Apoptotic Pathways

Elena O. Kutumova ; Andrey Y. Zinovyev ; Ruslan N. Sharipov ; Fedor A. Kolpakov

p. 572-588

Comparative Analysis of Individual Domains of Hoc Proteins in Subfamily \emph{Teequatrovirinae} Bacteriophages

Andrey A. Zimin ; Galina V. Mikoulinskaia ; Lira F. Nigmatullina ; Nafisa N. Nazipova

p. 611-631

A review of computational models of neuronal cultures \emph{in vitro}

Konstantin V. Anokhin ; Mikhail S. Burtsev ; Viachesav A. Ilyin ; Ilya I. Kiselev ; Konstantin A. Kukin ; Konstantin V. Lakhman ; Alexander V. Paraskevov ; Roman B. Rybka ; Alexander G. Sboev ; Nikolay V. Tverdokhlebov

p. 372-397

Agent-Based Models: Approaches and Applicability to Epidemiology

Konstantin K. Avilov ; Oleg Yu. Solovey

p. 425-443

RISM integral equation theory in study of thermodynamics of self-assembling ionic peptides

E. V. Sobolev ; A. V. Danilkovich ; D. A. Tikhonov

p. 493-507

Mathematical Modeling of Photosynthetic Electron Transport Chain Considering Spatial Heterogeneity of the Thylakoid Membrane

S. S. Makarov ; E. A. Grachev ; T. K. Antal

p. 508-528

Experimental model of neuronal network learning in dissociated hippocampal cultures

A. S. Pimashkin ; A. A. Gladkov ; I. V. Mukhina ; M. S. Burtsev ; V. A. Ilyin ; V. B. Kazantsev

p. 545-553

A Mathematical Model for Evolution of Human Functional Disorders Influenced by Environment Factors

Petr V. Trusov ; Nina V. Zaitseva ; Dmitriy A. Kiryanov ; Marat R. Kamaltdinov ; Mihail Ju. Cinker ; Vladimir M. Chigvintsev ; Dmitriy V. Lanin

p. 589-610

Models of Control and Spread of HIV-infection

Ekaterina Nosova

p. 632-675

The Model of Interaction Between Learning and Evolutionary Optimization

Vladimir G. Red'ko

p. 676-691

The Use of Refmac Crystallographic Refinement Program for Detection of Alternative Conformations in Biological Macromolecules

Oleg V. Sobolev ; Vladimir Yu. Lunin

p. 692-702

Modular Modeling of the Human Cardiovascular System

I. N. Kiselev ; B. V. Semisalov ; E. A. Biberdorf ; R. N. Sharipov ; A. M. Blokhin ; F. A. Kolpakov

p. 703-736

Setting Up the Nonlinear Model of Experimental Data From DNA Microarrays

E. A. Riabenko

p. 554-566

Sommaire du Fascicule no. 1

Reduction of the model of CD95-induced apoptosis

E. O. Kutumova

p. 139-151

Mathematical model of spatial encoding in hippocampal formation. I.~Grid cells neurodynamics

V. D. Tsukerman ; Z. S. Eremenko ; O. V. Karimova ; A. A. Sazykin ; S. V. Kulakov

p. 206-243

The behavior of model organisms that have natural needs and motivations

A. G. Koval' ; V. G. Red'ko

p. 266-273

Environment influence on the phytoplankton distribution in a basin

A. I. Abakumov ; Yu. G. Izrailsky

p. 274-283

Decision support system at diagnostics and treatment of a human musculoskeletal device

T. A. Patrina ; A. V. Anosov

p. 257-265

Rank-scaled metric clustering of amino-acid sequences

V. Strijov ; M. P. Kuznetsov ; K. V. Rudakov

p. 345-359

2nd National conference with invited foreign participants ``Mathematical Modeling in Ecology. EcoMatMod-2011''

A. S. Komarov ; L. G. Khanina

p. 1-3

Mathematical models in the theory of biological populations and communities (sources and first results)

R. A. Poluektov

p. 4-8

On the impact of quality of life to biosphere dynamics

S. I. Bartsev ; Yu. D. Ivanova ; A. L. Schcemel

p. 9-18

Neural network analysis of interdependences of the top-soil parameters

S. I. Bartsev ; A. A. Pochekutov ; I. V. Priputina

p. 19-29

Is it possible to prevent the ``Tragedy of Common Resource''?

F. S. Berezovskaya ; I. G. Kareva ; G. P. Karev

p. 30-44

Research of the model of heat and moisture transfer in a soil-plant system

A. V. Vorotyntsev

p. 45-53

Models of tree dynamics and tree community dynamics: progressing from two-dimensional to three-dimensional models

V. V. Galitskii

p. 54-80

Determination of gas exchange on the border between ecosystem and atmosphere: inverse modeling

M. V. Glagolev ; A. F. Sabrekov

p. 81-101

Constant of climate sensitivity in global models: overrating with feedback control and numerical evaluations on basis of paleoclimatic data

A. V. Karnaukhov ; E. V. Karnaukhova

p. 102-111

Numerical modeling of the hydrophysical influence effects on the phytoplankton distribution

A. V. Kartushinskii

p. 112-124

Numerical-analytical study of the tree growth model under light competition

A. N. Kolobov

p. 125-138

Dynamics of a distribution of ecological niches in plant communities at succession

A. S. Komarov ; E. V. Zubkova

p. 152-161

Modeling of the soil organic matter dynamics and the soil nutrients in mineral soil and forest floor

A. S. Komarov ; Yu. S. Khoraskina ; S. S. Bykhovets ; M. G. Bezrukova ; O. G. Chertov

p. 162-176

Nonlinear general laws of creation of biosphere elemental composition

V. D. Korzh

p. 177-181

Two approaches to mathematical modelling of processes in laboratory microecosystems: views from inside and outside

L. M. Mironenko

p. 182-196

An estimation of moisture availability influence on daytime variability of photosynthesis-light curves

A. G. Molchanov

p. 197-205

Modeling the dynamics of population, evaluation and comparative analysis of the demographic parameters of moose in the Russia and Finland using long-term monitoring data

V. G. Petrosyan ; N. N. Dergunova ; S. A. Bessonov ; A. V. Omelchenko

p. 244-256

Evaporation of forest ecosystems in the Central part of European Russia during the Holocene

A. V. Olchev ; E. Yu. Novenko

p. 284-298

Investigation of the properties of spatially homogeneous mathematical model of the four-component plankton system

K. A. Podgornyi

p. 299-321

Application of Monte-Carlo method for predicting permissible loads of air pollutants on forest ecosystems

I. V. Priputina ; I. Yu. Averkieva ; A. V. Tankanag

p. 322-333

Web-based information system on distribution of rare lichen {\it Lobaria pulmonaria\/} (L.) Hoffm.\ in Russia

M. P. Shashkov ; N. V. Ivanova

p. 334-344

Mathematical modeling of soil humus loss

N. N. Semenova ; N. E. Orlova

p. 360-371

Sommaire du Fascicule no. 2