Volume 6; Issue 12

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PLoS Computational Biology
Volume 6; Issue 12

PLoS Computational Biology

Volume 6; Issue 12

1

Phase-Locked Signals Elucidate Circuit Architecture of an Oscillatory Pathway

Jovic, Andreja, Howell, Bryan, Cote, Michelle, Wade, Susan M., Mehta, Khamir, Miyawaki, Atsushi, Neubig, Richard R., Linderman, Jennifer J., Takayama, Shuichi, Gross, David

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 543 KB

english, 2010

2

Gene Expression Network Reconstruction by Convex Feature Selection when Incorporating Genetic Perturbations

Logsdon, Benjamin A., Mezey, Jason, Reed, Jennifer L.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 995 KB

english, 2010

3

Axial and Radial Forces of Cross-Bridges Depend on Lattice Spacing

Williams, C. David, Regnier, Michael, Daniel, Thomas L., McCulloch, Andrew D.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 560 KB

english, 2010

4

Rhythmic Dynamics and Synchronization via Dimensionality Reduction: Application to Human Gait

Zhang, Jie, Zhang, Kai, Feng, Jianfeng, Small, Michael, Kurths, Jürgen

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1000 KB

english, 2010

5

Encoding of Spatio-Temporal Input Characteristics by a CA1 Pyramidal Neuron Model

Pissadaki, Eleftheria Kyriaki, Sidiropoulou, Kyriaki, Reczko, Martin, Poirazi, Panayiota, Graham, Lyle J.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.56 MB

english, 2010

6

Structure Learning in Human Sequential Decision-Making

Acuña, Daniel E., Schrater, Paul, Behrens, Tim

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 798 KB

english, 2010

7

The Evolutionary Analysis of Emerging Low Frequency HIV-1 CXCR4 Using Variants through Time—An Ultra-Deep Approach

Archer, John, Rambaut, Andrew, Taillon, Bruce E., Harrigan, P. Richard, Lewis, Marilyn, Robertson, David L., Kosakovsky Pond, Sergei L.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.32 MB

english, 2010

8

A Minimal Model of Metabolism-Based Chemotaxis

Egbert, Matthew D., Barandiaran, Xabier E., Di Paolo, Ezequiel A., Rao, Christopher V.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.29 MB

english, 2010

9

A Scalable Approach for Discovering Conserved Active Subnetworks across Species

Deshpande, Raamesh, Sharma, Shikha, Verfaillie, Catherine M., Hu, Wei-Shou, Myers, Chad L., Bonneau, Richard

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 881 KB

english, 2010

10

Widespread Compensatory Evolution Conserves DNA-Encoded Nucleosome Organization in Yeast

Kenigsberg, Ephraim, Bar, Amir, Segal, Eran, Tanay, Amos, Blanchette, Mathieu

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.52 MB

english, 2010

11

Incremental Mutual Information: A New Method for Characterizing the Strength and Dynamics of Connections in Neuronal Circuits

Singh, Abhinav, Lesica, Nicholas A., Latham, Peter E.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 739 KB

english, 2010

12

How Noisy Adaptation of Neurons Shapes Interspike Interval Histograms and Correlations

Schwalger, Tilo, Fisch, Karin, Benda, Jan, Lindner, Benjamin, Latham, Peter E.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.19 MB

english, 2010

13

Cholera- and Anthrax-Like Toxins Are among Several New ADP-Ribosyltransferases

Fieldhouse, Robert J., Turgeon, Zachari, White, Dawn, Merrill, A. Rod, Elofsson, Arne

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 5.08 MB

english, 2010

14

Combining Network Modeling and Gene Expression Microarray Analysis to Explore the Dynamics of Th1 and Th2 Cell Regulation

Pedicini, Marco, Barrenäs, Fredrik, Clancy, Trevor, Castiglione, Filippo, Hovig, Eivind, Kanduri, Kartiek, Santoni, Daniele, Benson, Mikael, Bonneau, Richard

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 371 KB

english, 2010

15

Assessing Computational Methods of Cis-Regulatory Module Prediction

Su, Jing, Teichmann, Sarah A., Down, Thomas A., Leslie, Christina

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.16 MB

english, 2010

16

Modeling Mechanisms of In Vivo Variability in Methotrexate Accumulation and Folate Pathway Inhibition in Acute Lymphoblastic Leukemia Cells

Panetta, John C., Sparreboom, Alex, Pui, Ching-Hon, Relling, Mary V., Evans, William E., Papin, Jason A.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 896 KB

english, 2010

17

Gambling in the Visual Periphery: A Conjoint-Measurement Analysis of Human Ability to Judge Visual Uncertainty

Zhang, Hang, Morvan, Camille, Maloney, Laurence T., Friston, Karl J.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 642 KB

english, 2010

18

Sequence-Based Prediction for Vaccine Strain Selection and Identification of Antigenic Variability in Foot-and-Mouth Disease Virus

Reeve, Richard, Blignaut, Belinda, Esterhuysen, Jan J., Opperman, Pamela, Matthews, Louise, Fry, Elizabeth E., de Beer, Tjaart A. P., Theron, Jacques, Rieder, Elizabeth, Vosloo, Wilna, O'Neill, Hester

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 997 KB

english, 2010

19

Mapping Dynamic Histone Acetylation Patterns to Gene Expression in Nanog-Depleted Murine Embryonic Stem Cells

Markowetz, Florian, Mulder, Klaas W., Airoldi, Edoardo M., Lemischka, Ihor R., Troyanskaya, Olga G., Ioshikhes, Ilya

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.45 MB

english, 2010

20

Mathematical Model of a Cell Size Checkpoint

Vilela, Marco, Morgan, Jeffrey J., Lindahl, Paul A., Papin, Jason A.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 685 KB

english, 2010

21

A Systems Model for Immune Cell Interactions Unravels the Mechanism of Inflammation in Human Skin

Valeyev, Najl V., Hundhausen, Christian, Umezawa, Yoshinori, Kotov, Nikolay V., Williams, Gareth, Clop, Alex, Ainali, Crysanthi, Ouzounis, Christos, Tsoka, Sophia, Nestle, Frank O., Androulakis, Ioann

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 4.52 MB

english, 2010

22

Identifying a High Fraction of the Human Genome to be under Selective Constraint Using GERP++

Davydov, Eugene V., Goode, David L., Sirota, Marina, Cooper, Gregory M., Sidow, Arend, Batzoglou, Serafim, Wasserman, Wyeth W.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.39 MB

english, 2010

23

Modeling the Evolution of Regulatory Elements by Simultaneous Detection and Alignment with Phylogenetic Pair HMMs

Majoros, William H., Ohler, Uwe, Wasserman, Wyeth W.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1009 KB

english, 2010

24

Kinetics of Rhodopsin Deactivation and Its Role in Regulating Recovery and Reproducibility of Rod Photoresponse

Caruso, Giovanni, Bisegna, Paolo, Lenoci, Leonardo, Andreucci, Daniele, Gurevich, Vsevolod V., Hamm, Heidi E., DiBenedetto, Emmanuele, Ranganathan, Rama

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 681 KB

english, 2010

25

Determinants of Heterogeneity, Excitation and Conduction in the Sinoatrial Node: A Model Study

Oren, Ronit V., Clancy, Colleen E., Giles, Wayne

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 3.38 MB

english, 2010

26

Modeling Conformational Ensembles of Slow Functional Motions in Pin1-WW

Morcos, Faruck, Chatterjee, Santanu, McClendon, Christopher L., Brenner, Paul R., López-Rendón, Roberto, Zintsmaster, John, Ercsey-Ravasz, Maria, Sweet, Christopher R., Jacobson, Matthew P., Peng, Jef

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.16 MB

english, 2010

27

Self-Organized Criticality in Developing Neuronal Networks

Tetzlaff, Christian, Okujeni, Samora, Egert, Ulrich, Wörgötter, Florentin, Butz, Markus, Friston, Karl J.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 2.65 MB

english, 2010

28

Little Italy: An Agent-Based Approach to the Estimation of Contact Patterns- Fitting Predicted Matrices to Serological Data

Iozzi, Fabrizio, Trusiano, Francesco, Chinazzi, Matteo, Billari, Francesco C., Zagheni, Emilio, Merler, Stefano, Ajelli, Marco, Del Fava, Emanuele, Manfredi, Piero, Ferguson, Neil M.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 597 KB

english, 2010

29

Spatial Pattern Switching Enables Cyclic Evolution in Spatial Epidemics

Boerlijst, Maarten Chris, van Ballegooijen, Willem Marijn, Tanaka, Mark M.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.31 MB

english, 2010

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