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1

Population density approach for discrete mRNA distributions in generalized switching models for stochastic gene expression

Stinchcombe, Adam R., Peskin, Charles S., Tranchina, Daniel

Journal:

Physical Review E

Year:

2012

Language:

english

File:

PDF, 513 KB

english, 2012

2

[Part 2: Biological Sciences] || Linear Information Processing in the Retina: A Study of Horizontal Cell Responses

Daniel Tranchina, James Gordon, Robert Shapley and Jun-Ichi Toyoda

Journal:

Proceedings of the National Academy of Sciences

Year:

1981

Language:

english

File:

PDF, 670 KB

english, 1981

3

Recovery of Sparse Translation-Invariant Signals With Continuous Basis Pursuit

Ekanadham, Chaitanya, Tranchina, Daniel, Simoncelli, Eero P.

Journal:

IEEE Transactions on Signal Processing

Year:

2011

Language:

english

File:

PDF, 1.78 MB

english, 2011

4

Phototransduction in cones: An inverse problem in enzyme kinetics

James Sneyd, Daniel Tranchina

Journal:

Bulletin of Mathematical Biology

Year:

1989

Language:

english

File:

PDF, 1.78 MB

english, 1989

5

In SilicoEvaluation of Predicted Regulatory Interactions inArabidopsis thaliana

Damion Nero, Manpreet S Katari, Jonathan Kelfer, Daniel Tranchina, Gloria M Coruzzi

Journal:

BMC Bioinformatics

Year:

2009

Language:

english

File:

PDF, 487 KB

english, 2009

6

Phototransduction in cones: An inverse problem in enzyme kinetics

James Sneyd, Daniel Tranchina

Journal:

Bulletin of Mathematical Biology

Year:

1989

Language:

english

File:

PDF, 1.72 MB

english, 1989

7

How to See in the Dark: Photon Noise in Vision and Nuclear Medicine

CHARLES S. PESKIN, DANIEL TRANCHINA, DIANA M. HULL

Journal:

Annals of the New York Academy of Sciences

Year:

1984

Language:

english

File:

PDF, 1.63 MB

english, 1984

8

A unified framework and method for automatic neural spike identification

Ekanadham, Chaitanya, Tranchina, Daniel, Simoncelli, Eero P.

Journal:

Journal of Neuroscience Methods

Year:

2014

Language:

english

File:

PDF, 1.67 MB

english, 2014

9

Plasticity Regulators Modulate Specific Root Traits in Discrete Nitrogen Environments

Gifford, Miriam L., Banta, Joshua A., Katari, Manpreet S., Hulsmans, Jo, Chen, Lisa, Ristova, Daniela, Tranchina, Daniel, Purugganan, Michael D., Coruzzi, Gloria M., Birnbaum, Kenneth D., Bomblies, Ki

Journal:

Year:

2013

Language:

english

File:

PDF, 2.22 MB

english, 2013

10

Population density methods for stochastic neurons with realistic synaptic kinetics: Firing rate dynamics and fast computational methods

Apfaltrer, Felix, Ly, Cheng, Tranchina, Daniel

Journal:

Network Computation in Neural Systems

Year:

2006

Language:

english

File:

PDF, 969 KB

english, 2006

11

A Population Density Approach That Facilitates Large-Scale Modeling of Neural Networks: Analysis and an Application to Orientation Tuning

Duane Q. Nykamp, Daniel Tranchina

Journal:

Journal of Computational Neuroscience

Year:

2000

Language:

english

File:

PDF, 958 KB

english, 2000

12

An open system kinetic transport model for the hodgkin-huxley equations

Michael E. Starzak, Daniel A. Tranchina

Journal:

Journal of Theoretical Biology

Year:

1976

Language:

english

File:

PDF, 755 KB

english, 1976

13

A Systems Approach Uncovers Restrictions for Signal Interactions Regulating Genome-wide Responses to Nutritional Cues in Arabidopsis

Krouk, Gabriel, Tranchina, Daniel, Lejay, Laurence, Cruikshank, Alexis A., Shasha, Dennis, Coruzzi, Gloria M., Gutiérrez, Rodrigo A., Ranganathan, Rama

Journal:

PLoS Computational Biology

Year:

2009

Language:

english

File:

PDF, 724 KB

english, 2009

14

An alternating renewal process describes the buildup of perceptual segregation

Steele, Sara A., Tranchina, Daniel, Rinzel, John

Journal:

Frontiers in Computational Neuroscience

Year:

2015

Language:

english

File:

PDF, 2.21 MB

english, 2015

15

Background contrast modulates kinetics and lateral spread of responses to superimposed stimuli in outer retina

Reifsnider, Eric S., Tranchina, Daniel

Journal:

Visual Neuroscience

Year:

1995

Language:

english

File:

PDF, 2.23 MB

english, 1995

16

Fast neural network simulations with population density methods

Duane Q Nykamp, Daniel Tranchina

Journal:

Year:

2000

Language:

english

File:

PDF, 179 KB

english, 2000

17

Critical Analysis of Dimension Reduction by a Moment Closure Method in a Population Density Approach to Neural Network Modeling

Ly, Cheng, Tranchina, Daniel

Journal:

Neural Computation

Year:

2007

Language:

english

File:

PDF, 1.47 MB

english, 2007

18

Light adaptation in the primate retina: Analysis of changes in gain and dynamics of monkey retinal ganglion cells

Purpura, Keith, Tranchina, Daniel, Kaplan, Ehud, Shapley, Robert M.

Journal:

Visual Neuroscience

Year:

1990

Language:

english

File:

PDF, 1.72 MB

english, 1990

19

A complete statistical model for calibration of RNA-seq counts using external spike-ins and maximum likelihood theory

Athanasiadou, Rodoniki, Neymotin, Benjamin, Brandt, Nathan, Wang, Wei, Christiaen, Lionel, Gresham, David, Tranchina, Daniel, Zhou, Xiang

Journal:

PLoS Computational Biology

Year:

2019

Language:

english

File:

PDF, 3.41 MB

english, 2019

20

A system biology approach highlights a hormonal enhancer effect on regulation of genes in a nitrate responsive "biomodule"

Damion Nero, Gabriel Krouk, Daniel Tranchina, Gloria M Coruzzi

Journal:

BMC Systems Biology

Year:

2009

Language:

english

File:

PDF, 1.49 MB

english, 2009

21

Spike Train Statistics and Dynamics with Synaptic Input from any Renewal Process: A Population Density Approach

Ly, Cheng, Tranchina, Daniel

Journal:

Neural Computation

Year:

2009

Language:

english

File:

PDF, 1.84 MB

english, 2009

22

[IEEE ICASSP 2011 - 2011 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) - Prague, Czech Republic (2011.05.22-2011.05.27)] 2011 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) - Sparse decomposition of transformation-invariant signals with continuous basis pursuit

Ekanadham, Chaitanya, Tranchina, Daniel, Simoncelli, Eero P.

Year:

2011

Language:

english

File:

PDF, 409 KB

english, 2011

23

Light adaptation in the turtle retina: embedding a parametric family of linear models in a single nonlinear model

Tranchina, Daniel, Peskin, Charles S.

Journal:

Visual Neuroscience

Year:

1988

Language:

english

File:

PDF, 888 KB

english, 1988

24

Hypermutation in Shark Immunoglobulin Light Chain Genes Results in Contiguous Substitutions

Susan S. Lee, Daniel Tranchina, Yuko Ohta, Martin F. Flajnik, Ellen Hsu

Journal:

Year:

2002

Language:

english

File:

PDF, 293 KB

english, 2002

25

Stochastic mRNA Synthesis in Mammalian Cells

Raj, Arjun, Peskin, Charles S., Tranchina, Daniel, Vargas, Diana Y., Tyagi, Sanjay

Journal:

Year:

2006

Language:

english

File:

PDF, 692 KB

english, 2006

26

A comparison of release kinetics and glutamate receptor properties in shaping rod–cone differences in EPSC kinetics in the salamander retina

Lucia Cadetti, Daniel Tranchina, Wallace B. Thoreson

Journal:

The Journal of Physiology

Year:

2005

Language:

english

File:

PDF, 410 KB

english, 2005

27

A Population Density Approach That Facilitates Large-Scale Modeling of Neural Networks: Extension to Slow Inhibitory Synapses

Nykamp, Duane Q., Tranchina, Daniel

Journal:

Neural Computation

Year:

2001

File:

PDF, 2.22 MB

2001

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