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1

Curvature in metabolic scaling: A reply to MacKay

Eric J. Deeds, Van Savage, Walter Fontana

Journal:

Journal of Theoretical Biology

Year:

2011

Language:

english

File:

PDF, 94 KB

english, 2011

2

Curvature in metabolic scaling

Kolokotrones, Tom, Van Savage,, Deeds, Eric J., Fontana, Walter

Journal:

Year:

2010

Language:

english

File:

PDF, 343 KB

english, 2010

3

Sizing Up Allometric Scaling Theory

Savage, Van M., Deeds, Eric J., Fontana, Walter, Enquist, Brian J.

Journal:

PLoS Computational Biology

Year:

2008

Language:

english

File:

PDF, 428 KB

english, 2008

4

Pajatambo: An 18th Century Roadside Structure in Peru

Colleen M. Beck, Eric E. Deeds, Shelia Pozorski and Thomas Pozorski

Journal:

Historical Archaeology

Year:

1983

Language:

english

File:

PDF, 2.40 MB

english, 1983

5

Electron tomography of the Maurer's cleft organelles of Plasmodium falciparum-infected erythrocytes reveals novel structural features

Eric Hanssen, Rachid Sougrat, Sarah Frankland, Samantha Deed, Nectarios Klonis, Jennifer Lippincott-Schwartz, Leann Tilley

Journal:

Molecular Microbiology

Year:

2008

Language:

english

File:

PDF, 905 KB

english, 2008

6

Whole cell imaging reveals novel modular features of the exomembrane system of the malaria parasite, Plasmodium falciparum

Eric Hanssen, Peter Carlton, Samantha Deed, Nectarios Klonis, John Sedat, Joe DeRisi, Leann Tilley

Journal:

International Journal for Parasitology

Year:

2010

Language:

english

File:

PDF, 746 KB

english, 2010

7

Proteomic Traces of Speciation

Eric J. Deeds, Boris Shakhnovich, Eugene I. Shakhnovich

Journal:

Journal of Molecular Biology

Year:

2004

Language:

english

File:

PDF, 651 KB

english, 2004

8

Cryo transmission X-ray imaging of the malaria parasite, P. falciparum

Eric Hanssen, Christian Knoechel, Nectarios Klonis, Nurhidanatasha Abu-Bakar, Samantha Deed, Mark LeGros, Carolyn Larabell, Leann Tilley

Journal:

Journal of Structural Biology

Year:

2011

Language:

english

File:

PDF, 900 KB

english, 2011

9

Hematin−Hematin Self-Association States Involved in the Formation and Reactivity of the Malaria Parasite Pigment, Hemozoin

Klonis, Nectarios, Dilanian, Ruben, Hanssen, Eric, Darmanin, Connie, Streltsov, Victor, Deed, Samantha, Quiney, Harry, Tilley, Leann

Journal:

Year:

2010

Language:

english

File:

PDF, 3.52 MB

english, 2010

10

Protein Evolution within a Structural Space

Deeds, Eric J., Dokholyan, Nikolay V., Shakhnovich, Eugene I.

Journal:

Biophysical Journal

Year:

2003

Language:

english

File:

PDF, 276 KB

english, 2003

11

The Emergence of Scaling in Sequence-Based Physical Models of Protein Evolution

Deeds, Eric J., Shakhnovich, Eugene I.

Journal:

Biophysical Journal

Year:

2005

Language:

english

File:

PDF, 201 KB

english, 2005

12

Crosstalk and Competition in Signaling Networks

Rowland, Michael A., Fontana, Walter, Deeds, Eric J.

Journal:

Biophysical Journal

Year:

2012

Language:

english

File:

PDF, 785 KB

english, 2012

13

Structural Properties of Non-Traditional Drug Targets Present New Challenges for Virtual Screening

Gowthaman, Ragul, Deeds, Eric J., Karanicolas, John

Journal:

Journal of Chemical Information and Modeling

Year:

2013

Language:

english

File:

PDF, 1.31 MB

english, 2013

14

The Evolution of Crosstalk in Signaling Networks

Deeds, Eric J., Rowland, Michael A.

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 57 KB

english, 2014

15

Crosstalk and the Evolution of Specificity in Two-Component Signaling

Rowland, Michael A., Deeds, Eric J.

Journal:

Biophysical Journal

Year:

2014

Language:

english

File:

PDF, 38 KB

english, 2014

16

Micellar Solubilization of Unsaturated Hydrocarbon Concentrations As Evaluated by Semiequilibrium Dialysis

Rouse, Joseph D., Sabatini, David A., Deeds, Neil E., Brown, R. Eric., Harwell, Jeffrey H.

Journal:

Environmental Science & Technology

Year:

1995

Language:

english

File:

PDF, 636 KB

english, 1995

17

Semiconservative replication in the quasispecies model

Tannenbaum, Emmanuel, Deeds, Eric J., Shakhnovich, Eugene I.

Journal:

Physical Review E

Year:

2004

Language:

english

File:

PDF, 225 KB

english, 2004

18

Equilibrium Distribution of Mutators in the Single Fitness Peak Model

Tannenbaum, Emmanuel, Deeds, Eric J., Shakhnovich, Eugene I.

Journal:

Physical Review Letters

Year:

2003

Language:

english

File:

PDF, 103 KB

english, 2003

19

Phosphatase Specificity and Pathway Insulation in Signaling Networks

Rowland, Michael A., Harrison, Brian, Deeds, Eric J.

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 476 KB

english, 2015

20

Reviews

Zulawski, Ann, Andrien, Kenneth J., Rodríguez, Ligia, Pires, Maria Laura Bettencourt, Salomon, Frank, Deeds, Susan M., Ainsa, Fernando, Bono, Dianne M., Van Young, Eric, Haslip‐Viera, Gabriel, Martíne

Journal:

Colonial Latin American Review

Year:

1993

Language:

english

File:

PDF, 2.53 MB

english, 1993

21

Maturation of the proteasome core particle induces an affinity switch that controls regulatory particle association

Wani, Prashant S., Rowland, Michael A., Ondracek, Alex, Deeds, Eric J., Roelofs, Jeroen

Journal:

Nature Communications

Year:

2015

Language:

english

File:

PDF, 1.23 MB

english, 2015

22

Machines vs. Ensembles: Effective MAPK Signaling through Heterogeneous Sets of Protein Complexes

Suderman, Ryan, Deeds, Eric J., Dunbrack, Roland L.

Journal:

PLoS Computational Biology

Year:

2013

Language:

english

File:

PDF, 906 KB

english, 2013

23

Optimizing the Assembly of Stacked Rings

Briggs, Koan, Deeds, Eric J.

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 52 KB

english, 2015

24

Phenotypic Properties of Scaffold-Based Signaling Paradigms

Suderman, Ryan, Schauer, Addison, Deeds, Eric J.

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 41 KB

english, 2015

25

Fundamental trade-offs between information flow in single cells and cellular populations

Suderman, Ryan, Bachman, John A., Smith, Adam, Sorger, Peter K., Deeds, Eric J.

Journal:

Proceedings of the National Academy of Sciences

Year:

2017

Language:

english

File:

PDF, 958 KB

english, 2017

26

Chemical stability of the botanical drug substance Crofelemer: a model system for comparative characterization of complex mixture drugs

Hewarathna, Asha, Mozziconacci, Olivier, Nariya, Maulik K., Kleindl, Peter A., Xiong, Jian, Fisher, Adam C., Joshi, Sangeeta B., Middaugh, C. Russell, Forrest, M. Laird, Volkin, David B., Deeds, Eric

Journal:

Journal of Pharmaceutical Sciences

Year:

2017

Language:

english

File:

PDF, 1.55 MB

english, 2017

27

Crosstalk and the evolvability of intracellular communication

Rowland, Michael A., Greenbaum, Joseph M., Deeds, Eric J.

Journal:

Nature Communications

Year:

2017

Language:

english

File:

PDF, 495 KB

english, 2017

28

The botanical drug substance crofelemer as a model system for comparative characterization of complex mixture drugs

Kleindl, Peter A., Xiong, Jian, Hewarathna, Asha, Mozziconacci, Olivier, Nariya, Maulik K., Fisher, Adam C., Deeds, Eric J., Joshi, Sangeeta B., Middaugh, C. Russell, Schöneich, Christian, Volkin, Dav

Journal:

Journal of Pharmaceutical Sciences

Year:

2017

Language:

english

File:

PDF, 4.64 MB

english, 2017

29

Combinatorial Complexity and Compositional Drift in Protein Interaction Networks

Deeds, Eric J., Krivine, Jean, Feret, Jérôme, Danos, Vincent, Fontana, Walter, Parkinson, John

Journal:

Year:

2012

Language:

english

File:

PDF, 1.61 MB

english, 2012

30

Intrinsic limits of information transmission in biochemical signalling motifs

Suderman, Ryan, Deeds, Eric J.

Journal:

Interface Focus

Year:

2018

Language:

english

File:

PDF, 997 KB

english, 2018

31

Computational approaches to macromolecular interactions in the cell

Vakser, Ilya A, Deeds, Eric J

Journal:

Current Opinion in Structural Biology

Year:

2019

Language:

english

File:

PDF, 941 KB

english, 2019

32

Kinetic Trapping and Robustness in Proteasome Assembly

Kante, Anupama, Deeds, Eric J.

Journal:

Biophysical Journal

Year:

2019

Language:

english

File:

PDF, 40 KB

english, 2019

33

Signal integration and information transfer in an allosterically regulated network

Shockley, Erin M., Rouzer, Carol A., Marnett, Lawrence J., Deeds, Eric J., Lopez, Carlos F.

Journal:

npj Systems Biology and Applications

Year:

2019

Language:

english

File:

PDF, 1.58 MB

english, 2019

34

Differential Contributions of Actin and Myosin to the Physical Phenotypes and Invasion of Pancreatic Cancer Cells

Nguyen, Angelyn V., Trompetto, Brittany, Tan, Xing Haw Marvin, Scott, Michael B., Hu, Kenneth Hsueh-heng, Deeds, Eric, Butte, Manish J., Chiou, Pei Yu, Rowat, Amy C.

Journal:

Cellular and Molecular Bioengineering

Year:

2019

Language:

english

File:

PDF, 3.13 MB

english, 2019

35

Cooperativity in Proteasome Core Particle Maturation

Suppahia, Anjana, Itagi, Pushpa, Burris, Alicia, Kim, Faith Mi Ge, Vontz, Alexander, Kante, Anupama, Kim, Seonghoon, Im, Wonpil, Deeds, Eric J., Roelofs, Jeroen

Journal:

Year:

2020

File:

PDF, 18.68 MB

2020

36

Machine learning classification can reduce false positives in structure-based virtual screening

Adeshina, Yusuf O., Deeds, Eric J., Karanicolas, John

Journal:

Proceedings of the National Academy of Sciences

Year:

2020

File:

PDF, 1.46 MB

2020

37

Understanding Separation of Time Scales in Bacterial Proteasome Assembly

Itagi, Pushpa, Kante, Anupama, Suppahia, Anjana, Roelfs, Jeroen, Deeds, Eric J.

Journal:

Biophysical Journal

Year:

2020

File:

PDF, 43 KB

2020