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Author: Richard M. Murray

Rankings

  • All-time downloads: 56,026 (rank: 2,440 )
  • Categories:
    • bioengineering: 3,421 (rank: 437 (tie) )
    • evolutionary biology: 2,690 (rank: 1,586 )
    • synthetic biology: 43,964 (rank: 3 )
    • systems biology: 5,951 (rank: 555 )

Downloads per author, site-wide

Preprints

Resource usage and gene circuit performance characterization in a cell-free ?breadboard?

synthetic biology more details view paper
  • Downloaded 4,065 times
  • Download rankings, all-time:
    • Site-wide: 2,653
    • In synthetic biology: 24
  • Year to date:
    • Site-wide: 32,294
  • Since beginning of last month:
    • Site-wide: 61,673

Development of prokaryotic cell-free systems for synthetic biology

synthetic biology more details view paper
  • Downloaded 3,001 times
  • Download rankings, all-time:
    • Site-wide: 4,106
    • In synthetic biology: 38
  • Year to date:
    • Site-wide: 39,843
  • Since beginning of last month:
    • Site-wide: 28,692

A Scalable Formulation for Engineering Combination Therapies for Evolutionary Dynamics of Disease

evolutionary biology more details view paper
  • Downloaded 1,847 times
  • Download rankings, all-time:
    • Site-wide: 8,385
    • In evolutionary biology: 242
  • Year to date:
    • Site-wide: 81,456
  • Since beginning of last month:
    • Site-wide: 114,842

An analytical approach to bistable biological circuit discrimination using real algebraic geometry

systems biology more details view paper
  • Downloaded 1,817 times
  • Download rankings, all-time:
    • Site-wide: 8,593
    • In systems biology: 154
  • Year to date:
    • Site-wide: 40,835
  • Since beginning of last month:
    • Site-wide: 44,870

Design Space Exploration of the Violacein Pathway in Escherichia coli Based Transcription Translation Cell-Free System (TX-TL)

synthetic biology more details view paper
  • Downloaded 1,650 times
  • Download rankings, all-time:
    • Site-wide: 9,936
    • In synthetic biology: 101
  • Year to date:
    • Site-wide: 38,012
  • Since beginning of last month:
    • Site-wide: 37,393

Control of bacterial population density with population feedback and molecular sequestration

synthetic biology more details view paper
  • Downloaded 1,513 times
  • Download rankings, all-time:
    • Site-wide: 11,248
    • In synthetic biology: 120
  • Year to date:
    • Site-wide: 32,320
  • Since beginning of last month:
    • Site-wide: 33,387

Synthetic mammalian signaling circuits for robust cell population control

synthetic biology more details view paper
  • Downloaded 1,503 times
  • Download rankings, all-time:
    • Site-wide: 11,330
    • In synthetic biology: 121
  • Year to date:
    • Site-wide: 3,462
  • Since beginning of last month:
    • Site-wide: 3,448

Prototyping 1,4-butanediol (BDO) biosynthesis pathway in a cell-free transcription-translation (TX-TL) system

synthetic biology more details view paper
  • Downloaded 1,455 times
  • Download rankings, all-time:
    • Site-wide: 11,900
    • In synthetic biology: 128
  • Year to date:
    • Site-wide: 55,658
  • Since beginning of last month:
    • Site-wide: 37,126

Proof of concept continuous event logging in living cells

synthetic biology more details view paper
  • Downloaded 1,445 times
  • Download rankings, all-time:
    • Site-wide: 12,029
    • In synthetic biology: 131
  • Year to date:
    • Site-wide: 41,465
  • Since beginning of last month:
    • Site-wide: 48,136

Hard Limits And Performance Tradeoffs In A Class Of Sequestration Feedback Systems

systems biology more details view paper
  • Downloaded 1,365 times
  • Download rankings, all-time:
    • Site-wide: 13,153
    • In systems biology: 255
  • Year to date:
    • Site-wide: 59,176
  • Since beginning of last month:
    • Site-wide: 48,345

Design and implementation of a synthetic biomolecular concentration tracker

synthetic biology more details view paper
  • Downloaded 1,360 times
  • Download rankings, all-time:
    • Site-wide: 13,232
    • In synthetic biology: 152
  • Year to date:
    • Site-wide: 59,163
  • Since beginning of last month:
    • Site-wide: 117,013

Synthetic logic circuits using RNA aptamer against T7 RNA polymerase

synthetic biology more details view paper
  • Downloaded 1,342 times
  • Download rankings, all-time:
    • Site-wide: 13,487
    • In synthetic biology: 157
  • Year to date:
    • Site-wide: 64,819
  • Since beginning of last month:
    • Site-wide: 48,538

Fast and flexible simulation and parameter estimation for synthetic biology using bioscrape

synthetic biology more details view paper
  • Downloaded 1,306 times
  • Download rankings, all-time:
    • Site-wide: 14,059
    • In synthetic biology: 166
  • Year to date:
    • Site-wide: 23,508
  • Since beginning of last month:
    • Site-wide: 30,058

The Effect of Compositional Context on Synthetic Gene Networks

synthetic biology more details view paper
  • Downloaded 1,239 times
  • Download rankings, all-time:
    • Site-wide: 15,239
    • In synthetic biology: 186
  • Year to date:
    • Site-wide: 62,727
  • Since beginning of last month:
    • Site-wide: 83,186

A cell-free framework for biological systems engineering

synthetic biology more details view paper
  • Downloaded 1,166 times
  • Download rankings, all-time:
    • Site-wide: 16,683
    • In synthetic biology: 204
  • Year to date:
    • Site-wide: 112,013
  • Since beginning of last month:
    • Site-wide: 91,793

Design of a Toolbox of RNA Thermometers

synthetic biology more details view paper
  • Downloaded 1,050 times
  • Download rankings, all-time:
    • Site-wide: 19,483
    • In synthetic biology: 248
  • Year to date:
    • Site-wide: 95,712
  • Since beginning of last month:
    • Site-wide: 100,633

A population-based temporal logic gate for timing and recording chemical events

synthetic biology more details view paper
  • Downloaded 991 times
  • Download rankings, all-time:
    • Site-wide: 21,135
    • In synthetic biology: 270
  • Year to date:
    • Site-wide: 84,564
  • Since beginning of last month:
    • Site-wide: 86,042

Characterizing and Prototyping Genetic Networks with Cell-Free Transcription-Translation Reactions

synthetic biology more details view paper
  • Downloaded 925 times
  • Download rankings, all-time:
    • Site-wide: 23,379
    • In synthetic biology: 301
  • Year to date:
    • Site-wide: 86,339
  • Since beginning of last month:
    • Site-wide: 117,021

Engineering Transcriptional Regulator Effector Specificity using Computational Design and In Vitro Rapid Prototyping: Developing a Vanillin Sensor

synthetic biology more details view paper
  • Downloaded 918 times
  • Download rankings, all-time:
    • Site-wide: 23,669
    • In synthetic biology: 305
  • Year to date:
    • Site-wide: 91,451
  • Since beginning of last month:
    • Site-wide: 100,613

Modeling Dynamic Transcriptional Circuits with CRISPRi

synthetic biology more details view paper
  • Downloaded 869 times
  • Download rankings, all-time:
    • Site-wide: 25,573
    • In synthetic biology: 333
  • Year to date:
    • Site-wide: 84,050
  • Since beginning of last month:
    • Site-wide: 83,129

System-level studies of a cell-free transcription-translation platform for metabolic engineering

bioengineering more details view paper
  • Downloaded 852 times
  • Download rankings, all-time:
    • Site-wide: 26,273
    • In bioengineering: 447
  • Year to date:
    • Site-wide: 93,589
  • Since beginning of last month:
    • Site-wide: 86,543

Population diversification in a yeast metabolic program promotes anticipation of environmental shifts

systems biology more details view paper
  • Downloaded 842 times
  • Download rankings, all-time:
    • Site-wide: 26,714
    • In systems biology: 569
  • Year to date:
    • Site-wide: 105,200
  • Since beginning of last month:
    • Site-wide: 84,217

Control of density and composition in an engineered two-member bacterial community

synthetic biology more details view paper
  • Downloaded 825 times
  • Download rankings, all-time:
    • Site-wide: 27,487
    • In synthetic biology: 356
  • Year to date:
    • Site-wide: 53,669
  • Since beginning of last month:
    • Site-wide: 51,915

Designing Robustness to Temperature in a Feedforward Loop Circuit

synthetic biology more details view paper
  • Downloaded 793 times
  • Download rankings, all-time:
    • Site-wide: 29,055
    • In synthetic biology: 380
  • Year to date:
    • Site-wide: 88,415
  • Since beginning of last month:
    • Site-wide: 74,474

Expressing Biologically Active Membrane Proteins in a Cell-Free Transcription-Translation Platform

bioengineering more details view paper
  • Downloaded 782 times
  • Download rankings, all-time:
    • Site-wide: 29,605
    • In bioengineering: 516
  • Year to date:
    • Site-wide: 86,445
  • Since beginning of last month:
    • Site-wide: 85,993

Length and time scales of cell-cell signaling circuits in agar

synthetic biology more details view paper
  • Downloaded 777 times
  • Download rankings, all-time:
    • Site-wide: 29,909
    • In synthetic biology: 388
  • Year to date:
    • Site-wide: 74,407
  • Since beginning of last month:
    • Site-wide: 91,756

Role of interaction network topology in controlling microbial population in consortia

synthetic biology more details view paper
  • Downloaded 764 times
  • Download rankings, all-time:
    • Site-wide: 30,626
    • In synthetic biology: 396
  • Year to date:
    • Site-wide: 80,670
  • Since beginning of last month:
    • Site-wide: 66,769

Negative autoregulation matches production and demand in synthetic transcriptional networks

synthetic biology more details view paper
  • Downloaded 748 times
  • Download rankings, all-time:
    • Site-wide: 31,544
    • In synthetic biology: 407
  • Year to date:
    • Site-wide: 62,747
  • Since beginning of last month:
    • Site-wide: 91,803

Cell-free and in vivo characterization of Lux, Las, and Rpa quorum activation systems in E. coli

synthetic biology more details view paper
  • Downloaded 707 times
  • Download rankings, all-time:
    • Site-wide: 34,066
    • In synthetic biology: 434
  • Year to date:
    • Site-wide: 93,488
  • Since beginning of last month:
    • Site-wide: 74,468

Population regulation in microbial consortia using dual feedback control

synthetic biology more details view paper
  • Downloaded 693 times
  • Download rankings, all-time:
    • Site-wide: 35,022
    • In synthetic biology: 451
  • Year to date:
    • Site-wide: 128,288
  • Since beginning of last month:
    • Site-wide: 117,061

Single day construction of multi-gene circuits with 3G assembly

bioengineering more details view paper
  • Downloaded 683 times
  • Download rankings, all-time:
    • Site-wide: 35,731
    • In bioengineering: 646
  • Year to date:
    • Site-wide: 104,073
  • Since beginning of last month:
    • Site-wide: 91,854

Modeling predicts that CRISPR-based activators, unlike CRISPR-based repressors, scale well with increasing gRNA competition and dCas9 bottlenecking

synthetic biology more details view paper
  • Downloaded 658 times
  • Download rankings, all-time:
    • Site-wide: 37,546
    • In synthetic biology: 477
  • Year to date:
    • Site-wide: 109,104
  • Since beginning of last month:
    • Site-wide: 84,735

Long-distance communication in synthetic bacterial consortia through active signal propagation

synthetic biology more details view paper
  • Downloaded 648 times
  • Download rankings, all-time:
    • Site-wide: 38,257
    • In synthetic biology: 484
  • Year to date:
    • Site-wide: 52,219
  • Since beginning of last month:
    • Site-wide: 61,729

Finding analytic stationary solutions to the chemical master equation by gluing state spaces at one or two states recursively

systems biology more details view paper
  • Downloaded 648 times
  • Download rankings, all-time:
    • Site-wide: 38,270
    • In systems biology: 874
  • Year to date:
    • Site-wide: 84,771
  • Since beginning of last month:
    • Site-wide: 84,866

Tunable integrase-mediated differentiation facilitates improved output of burdensome functions in E. coli

synthetic biology more details view paper
  • Downloaded 616 times
  • Download rankings, all-time:
    • Site-wide: 40,801
    • In synthetic biology: 514
  • Year to date:
    • Site-wide: 64,958
  • Since beginning of last month:
    • Site-wide: 80,862

Repressing Integrase attachment site operation with CRISPR-Cas9 in E. coli

synthetic biology more details view paper
  • Downloaded 594 times
  • Download rankings, all-time:
    • Site-wide: 42,701
    • In synthetic biology: 530
  • Year to date:
    • Site-wide: 128,320
  • Since beginning of last month:
    • Site-wide: 106,068

Design Guidelines For Sequestration Feedback Networks

synthetic biology more details view paper
  • Downloaded 590 times
  • Download rankings, all-time:
    • Site-wide: 43,126
    • In synthetic biology: 533
  • Year to date:
    • Site-wide: 99,969
  • Since beginning of last month:
    • Site-wide: 93,578

Context Dependence of Biological Circuits

synthetic biology more details view paper
  • Downloaded 587 times
  • Download rankings, all-time:
    • Site-wide: 43,399
    • In synthetic biology: 539
  • Year to date:
    • Site-wide: 67,101
  • Since beginning of last month:
    • Site-wide: 51,506

Synthesizing Combination Therapies for Evolutionary Dynamics of Disease for Nonlinear Pharmacodynamics

evolutionary biology more details view paper
  • Downloaded 586 times
  • Download rankings, all-time:
    • Site-wide: 43,479
    • In evolutionary biology: 2,285
  • Year to date:
    • Site-wide: 78,021
  • Since beginning of last month:
    • Site-wide: 66,879

Prototyping And Implementation Of A Novel Feedforward Loop In A Cell-Free Transcription-Translation System And Cells

bioengineering more details view paper
  • Downloaded 580 times
  • Download rankings, all-time:
    • Site-wide: 43,994
    • In bioengineering: 798
  • Year to date:
    • Site-wide: 72,082
  • Since beginning of last month:
    • Site-wide: 61,679

Rapidly characterizing the fast dynamics of RNA genetic circuitry with cell-free transcription-translation (TX-TL) systems

synthetic biology more details view paper
  • Downloaded 556 times
  • Download rankings, all-time:
    • Site-wide: 46,404
    • In synthetic biology: 575
  • Year to date:
    • Site-wide: 131,321
  • Since beginning of last month:
    • Site-wide: 124,502

Protein degradation in a TX-TL cell-free expression system using ClpXP protease

synthetic biology more details view paper
  • Downloaded 545 times
  • Download rankings, all-time:
    • Site-wide: 47,559
    • In synthetic biology: 587
  • Year to date:
    • Site-wide: 98,996
  • Since beginning of last month:
    • Site-wide: 100,616

Engineering pulsatile communication in bacterial consortia

synthetic biology more details view paper
  • Downloaded 538 times
  • Download rankings, all-time:
    • Site-wide: 48,305
    • In synthetic biology: 592
  • Year to date:
    • Site-wide: 129,387
  • Since beginning of last month:
    • Site-wide: 124,487

Implementation and System Identification of a Phosphorylation-Based Insulator in a Cell-Free Transcription-Translation System

bioengineering more details view paper
  • Downloaded 524 times
  • Download rankings, all-time:
    • Site-wide: 49,752
    • In bioengineering: 921
  • Year to date:
    • Site-wide: 84,808
  • Since beginning of last month:
    • Site-wide: 66,514

An automated model reduction tool to guide the design and analysis of synthetic biological circuits

synthetic biology more details view paper
  • Downloaded 523 times
  • Download rankings, all-time:
    • Site-wide: 49,864
    • In synthetic biology: 609
  • Year to date:
    • Site-wide: 81,310
  • Since beginning of last month:
    • Site-wide: 70,205

The effects of time-varying temperature on delays in genetic networks

systems biology more details view paper
  • Downloaded 514 times
  • Download rankings, all-time:
    • Site-wide: 50,880
    • In systems biology: 1,191
  • Year to date:
    • Site-wide: 99,192
  • Since beginning of last month:
    • Site-wide: 106,291

Cooperation Enhances Robustness of Coexistence in Spatially Structured Consortia

synthetic biology more details view paper
  • Downloaded 512 times
  • Download rankings, all-time:
    • Site-wide: 51,171
    • In synthetic biology: 627
  • Year to date:
    • Site-wide: 72,017
  • Since beginning of last month:
    • Site-wide: 74,861

Design of a genetic layered feedback controller in synthetic biological circuitry

synthetic biology more details view paper
  • Downloaded 481 times
  • Download rankings, all-time:
    • Site-wide: 55,030
    • In synthetic biology: 657
  • Year to date:
    • Site-wide: 56,643
  • Since beginning of last month:
    • Site-wide: 39,368

Bacterial Controller Aided Wound Healing: A Case Study in Dynamical Population Controller Design

synthetic biology more details view paper
  • Downloaded 480 times
  • Download rankings, all-time:
    • Site-wide: 55,088
    • In synthetic biology: 660
  • Year to date:
    • Site-wide: 74,007
  • Since beginning of last month:
    • Site-wide: 48,628

A geometric and structural approach to the analysis and design of biological circuit dynamics: a theory tailored for synthetic biology

synthetic biology more details view paper
  • Downloaded 469 times
  • Download rankings, all-time:
    • Site-wide: 56,469
    • In synthetic biology: 678
  • Year to date:
    • Site-wide: 92,424
  • Since beginning of last month:
    • Site-wide: 78,618

Negative Feedback Facilitates Temperature Robustness in Biomolecular Circuit Dynamics

systems biology more details view paper
  • Downloaded 455 times
  • Download rankings, all-time:
    • Site-wide: 58,389
    • In systems biology: 1,397
  • Year to date:
    • Site-wide: 117,918
  • Since beginning of last month:
    • Site-wide: 116,723

A MATLAB Toolbox for Modeling Genetic Circuits in Cell-Free Systems

synthetic biology more details view paper
  • Downloaded 451 times
  • Download rankings, all-time:
    • Site-wide: 58,850
    • In synthetic biology: 699
  • Year to date:
    • Site-wide: 32,708
  • Since beginning of last month:
    • Site-wide: 34,282

A Method for Cost-Effective and Rapid Characterization of Engineered T7-based Transcription Factors by Cell-Free Protein Synthesis Reveals Insights into the Regulation of T7 RNA Polymerase-Driven Expression

synthetic biology more details view paper
  • Downloaded 451 times
  • Download rankings, all-time:
    • Site-wide: 58,940
    • In synthetic biology: 698
  • Year to date:
    • Site-wide: 86,524
  • Since beginning of last month:
    • Site-wide: 69,766

Model Reduction Tools For Phenomenological Modeling of Input-Controlled Biological Circuits

synthetic biology more details view paper
  • Downloaded 449 times
  • Download rankings, all-time:
    • Site-wide: 59,110
    • In synthetic biology: 706
  • Year to date:
    • Site-wide: 63,478
  • Since beginning of last month:
    • Site-wide: 47,485

The role of single occupancy effects on integrase dynamics in a cell-free system

synthetic biology more details view paper
  • Downloaded 443 times
  • Download rankings, all-time:
    • Site-wide: 60,044
    • In synthetic biology: 715
  • Year to date:
    • Site-wide: 125,793
  • Since beginning of last month:
    • Site-wide: 106,075

Addressable, "Packet-Based" Intercellular Communication through Plasmid Conjugation

synthetic biology more details view paper
  • Downloaded 424 times
  • Download rankings, all-time:
    • Site-wide: 62,875
    • In synthetic biology: 737
  • Year to date:
    • Site-wide: 122,423
  • Since beginning of last month:
    • Site-wide: 126,872

Engineering Logical Inflammation Sensing Circuit for Modulating Gut Conditions

synthetic biology more details view paper
  • Downloaded 412 times
  • Download rankings, all-time:
    • Site-wide: 64,610
    • In synthetic biology: 750
  • Year to date:
    • Site-wide: 19,013
  • Since beginning of last month:
    • Site-wide: 24,770

BioCRNpyler: Compiling Chemical Reaction Networks from Biomolecular Parts in Diverse Contexts

synthetic biology more details view paper
  • Downloaded 376 times
  • Download rankings, all-time:
    • Site-wide: 70,380
    • In synthetic biology: 796
  • Year to date:
    • Site-wide: 42,506
  • Since beginning of last month:
    • Site-wide: 63,170

Layered Feedback Control Improves Robust Functionality across Heterogeneous Cell Populations

synthetic biology more details view paper
  • Downloaded 373 times
  • Download rankings, all-time:
    • Site-wide: 70,935
    • In synthetic biology: 801
  • Year to date:
    • Site-wide: 51,362
  • Since beginning of last month:
    • Site-wide: 38,300

A Bayesian approach to inferring chemical signal timing and amplitude in a temporal logic gate using the cell population distributional response

synthetic biology more details view paper
  • Downloaded 321 times
  • Download rankings, all-time:
    • Site-wide: 80,515
    • In synthetic biology: 868
  • Year to date:
    • Site-wide: 128,481
  • Since beginning of last month:
    • Site-wide: 124,492

Theoretical Design of Paradoxical Signaling-Based Synthetic Population Control Circuit in E. coli

systems biology more details view paper
  • Downloaded 310 times
  • Download rankings, all-time:
    • Site-wide: 82,815
    • In systems biology: 1,979
  • Year to date:
    • Site-wide: 60,004
  • Since beginning of last month:
    • Site-wide: 43,505

Assessment of Robustness to Temperature in a Negative Feedback Loop and a Feedforward Loop

synthetic biology more details view paper
  • Downloaded 276 times
  • Download rankings, all-time:
    • Site-wide: 90,024
    • In synthetic biology: 924
  • Year to date:
    • Site-wide: 130,745
  • Since beginning of last month:
    • Site-wide: 131,590

Bistable State Switch Enables Ultrasensitive Feedback Control in Heterogeneous Microbial Populations

synthetic biology more details view paper
  • Downloaded 271 times
  • Download rankings, all-time:
    • Site-wide: 91,084
    • In synthetic biology: 934
  • Year to date:
    • Site-wide: 33,917
  • Since beginning of last month:
    • Site-wide: 26,515

Quantitative characterization of random partitioning in the evolution of plasmid-encoded traits

evolutionary biology more details view paper
  • Downloaded 257 times
  • Download rankings, all-time:
    • Site-wide: 94,238
    • In evolutionary biology: 5,036
  • Year to date:
    • Site-wide: 95,345
  • Since beginning of last month:
    • Site-wide: 83,461

Discovery of Dynamical Network Models for Genetic Circuits from Time-Series Data with Incomplete Measurements

synthetic biology more details view paper
  • Downloaded 219 times
  • Download rankings, all-time:
    • Site-wide: 102,436
    • In synthetic biology: 976
  • Year to date:
    • Site-wide: 9,218
  • Since beginning of last month:
    • Site-wide: 2,440

Construction of an inducible amyloid expression circuit in Bacillus megaterium: A case study with CsgA and TasA

synthetic biology more details view paper
  • Downloaded 210 times
  • Download rankings, all-time:
    • Site-wide: 104,590
    • In synthetic biology: 982
  • Year to date:
    • Site-wide: 100,575
  • Since beginning of last month:
    • Site-wide: 120,905

A two-state ribosome and protein model can robustly capture the chemical reaction dynamics of gene expression

synthetic biology more details view paper
  • Downloaded 193 times
  • Download rankings, all-time:
    • Site-wide: 108,240
    • In synthetic biology: 990
  • Year to date:
    • Site-wide: 60,022
  • Since beginning of last month:
    • Site-wide: 50,197

Analysis of Circuits for Dosage Control in Microbial Populations

synthetic biology more details view paper
  • Downloaded 193 times
  • Download rankings, all-time:
    • Site-wide: 108,220
    • In synthetic biology: 991
  • Year to date:
    • Site-wide: 29,990
  • Since beginning of last month:
    • Site-wide: 90,087

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