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Research Output 1997 2019

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2019

Cofilin-Mediated Actin Stress Response Is Maladaptive in Heat-Stressed Embryos

Figard, L., Zheng, L., Biel, N., Xue, Z., Seede, H., Coleman, S., Golding, I. & Sokac, A. M., Mar 26 2019, In : Cell Reports. 26, 13, p. 3493-3501.e4

Research output: Contribution to journalArticle

Open Access
Actin Depolymerizing Factors
Actins
Embryonic Structures
Hot Temperature
Morphogenesis
2017

The transcription fidelity factor GreA impedes DNA break repair

Sivaramakrishnan, P., Sepúlveda, L. A., Halliday, J. A., Liu, J., Núñez, M. A. B., Golding, I., Rosenberg, S. M. & Herman, C., Oct 12 2017, In : Nature. 550, 7675, p. 214-218 5 p.

Research output: Contribution to journalArticle

DNA Breaks
DNA-Directed RNA Polymerases
DNA Repair
Transcription Factors
Recombinational DNA Repair
2016

Measurement of gene regulation in individual cells reveals rapid switching between promoter states

Sepúlveda, L. A., Xu, H., Zhang, J., Wang, M. & Golding, I., Mar 11 2016, In : Science. 351, 6278, p. 1218-1222 5 p.

Research output: Contribution to journalArticle

Open Access
Genes
Transcription Factors
Lysogeny
Bacteriophage lambda
Messenger RNA

Membrane Supply and Demand Regulates F-Actin in a Cell Surface Reservoir

Figard, L., Wang, M., Zheng, L., Golding, I. & Sokac, A. M., May 9 2016, In : Developmental cell. 37, 3, p. 267-278 12 p.

Research output: Contribution to journalArticle

Open Access
Actins
Membranes
Exocytosis
Microvilli
Mechanical Stress

Single-cell analysis of transcription kinetics across the cell cycle

Skinner, S. O., Xu, H., Nagarkar-Jaiswal, S., Freire, P. R., Zwaka, T. P. & Golding, I., Jan 29 2016, In : eLife. 5, JANUARY2016, e12175.

Research output: Contribution to journalArticle

Open Access
Single-Cell Analysis
Transcription
Cell Cycle
Genes
Cells

Single-Cell Studies of Phage λ: Hidden Treasures under Occam's Rug

Golding, I., Sep 29 2016, In : Annual Review of Virology. 3, p. 453-472 20 p.

Research output: Contribution to journalArticle

Bacteriophages
Life Cycle Stages
Molecular Biology

Stochastic Kinetics of Nascent RNA

Xu, H., Skinner, S. O., Sokac, A. M. & Golding, I., Sep 13 2016, In : Physical review letters. 117, 12, 128101.

Research output: Contribution to journalArticle

Open Access
kinetics
cells
genes
discontinuity
2015

Combining protein and mRNA quantification to decipher transcriptional regulation

Xu, H., Sepúlveda, L. A., Figard, L., Sokac, A. M. & Golding, I., Jul 30 2015, In : Nature Methods. 12, 8, p. 739-742 4 p.

Research output: Contribution to journalArticle

Transcription Factors
Messenger RNA
Proteins
Fluorescence In Situ Hybridization
Image analysis

Determination of in vivo target search kinetics of regulatory noncoding RNA

Fei, J., Singh, D., Zhang, Q., Park, S., Balasubramanian, D., Golding, I., Vanderpool, C. & Ha, T., Mar 20 2015, In : Science. 347, 6228, p. 1371-1374 4 p.

Research output: Contribution to journalArticle

Untranslated RNA
Messenger RNA
Base Pairing
Bacterial RNA
Biological Phenomena

DksA involvement in transcription fidelity buffers stochastic epigenetic change

Satory, D., Gordon, A. J. E., Wang, M., Halliday, J. A., Golding, I. & Herman, C., Jan 1 2015, In : Nucleic acids research. 43, 21, p. 10190-10199 10 p.

Research output: Contribution to journalArticle

Open Access
Operon
Epigenomics
Buffers
Transcription Factors
DNA-Directed RNA Polymerases

The spliceosome is a therapeutic vulnerability in MYC-driven cancer

Hsu, T. Y. T., Simon, L. M., Neill, N. J., Marcotte, R., Sayad, A., Bland, C. S., Echeverria, G. V., Sun, T., Kurley, S. J., Tyagi, S., Karlin, K. L., Dominguez-Vidaña, R., Hartman, J. D., Renwick, A., Scorsone, K., Bernardi, R. J., Skinner, S. O., Jain, A., Orellana, M., Lagisetti, C. & 9 others, Golding, I., Jung, S. Y., Neilson, J. R., Zhang, X. H. F., Cooper, T. A., Webb, T. R., Neel, B. G., Shaw, C. A. & Westbrook, T. F., Sep 17 2015, In : Nature. 525, 7569, p. 384-388 5 p.

Research output: Contribution to journalArticle

Spliceosomes
RNA Precursors
Neoplasms
Therapeutics
Lethal Genes
2014

A nutrient-tunable bistable switch controls motility in Salmonella enterica serovar Typhimurium

Koirala, S., Mears, P., Sim, M., Golding, I., Chemla, Y. R., Aldridge, P. D. & Rao, C. V., Aug 26 2014, In : mBio. 5, 5, e01611-14.

Research output: Contribution to journalArticle

Salmonella enterica
Food
Bacteria
Flagella
Growth

Escherichia coli swimming is robust against variations in flagellar number

Mears, P. J., Koirala, S., Rao, C. V., Golding, I. & Chemla, Y. R., Feb 11 2014, In : eLife. 2014, 3, e01916.

Research output: Contribution to journalArticle

Flagella
Escherichia coli
Chemotaxis
Swimming

Removal of 8-oxo-GTP by MutT hydrolase is not a major contributor to transcriptional fidelity

Gordon, A. J. E., Satory, D., Wang, M., Halliday, J. A., Golding, I. & Herman, C., Oct 29 2014, In : Nucleic acids research. 42, 19, p. 12015-12026 12 p.

Research output: Contribution to journalArticle

Open Access
Hydrolases
RNA
Galactosidases
DNA
Epigenomics

Revisiting bistability in the lysis/lysogeny circuit of bacteriophage lambda

Bednarz, M., Halliday, J. A., Herman, C. & Golding, I., Jun 25 2014, In : PloS one. 9, 6, e100876.

Research output: Contribution to journalArticle

Open Access
Lysogeny
lysogeny
Bacteriophage lambda
Bacteriophages
bacteriophages
2013

Measuring mRNA copy number in individual Escherichia coli cells using single-molecule fluorescent in situ hybridization

Skinner, S. O., Sepúlveda, L. A., Xu, H. & Golding, I., Jun 1 2013, In : Nature Protocols. 8, 6, p. 1100-1113 14 p.

Research output: Contribution to journalArticle

Fluorescence In Situ Hybridization
Escherichia coli
Messenger RNA
Molecules
Genes

The Maternal-to-Zygotic Transition Targets Actin to Promote Robustness during Morphogenesis

Zheng, L., Sepúlveda, L. A., Lua, R. C., Lichtarge, O., Golding, I. & Sokac, A. M., Nov 1 2013, In : PLoS genetics. 9, 11, e1003901.

Research output: Contribution to journalArticle

Open Access
morphogenesis
Morphogenesis
actin
Actins
embryo

The plasma membrane flattens out to fuel cell-surface growth during drosophila cellularization

Figard, L., Xu, H., Garcia, H. G., Golding, I. & Sokac, A. M., Dec 23 2013, In : Developmental cell. 27, 6, p. 648-655 8 p.

Research output: Contribution to journalArticle

Open Access
Cell membranes
Drosophila
Fuel cells
Cell Membrane
Membranes
2012

A SUMOylation-dependent transcriptional subprogram is required for Myc-driven tumorigenesis

Kessler, J. D., Kahle, K. T., Sun, T., Meerbrey, K. L., Schlabach, M. R., Schmitt, E. M., Skinner, S. O., Xu, Q., Li, M. Z., Hartman, Z. C., Rao, M., Yu, P., Dominguez-Vidana, R., Liang, A. C., Solimini, N. L., Bernardi, R. J., Yu, B., Hsu, T., Golding, I., Luo, J. & 7 others, Osborne, C. K., Creighton, C. J., Hilsenbeck, S. G., Schiff, R., Shaw, C. A., Elledge, S. J. & Westbrook, T. F., Jan 20 2012, In : Science. 335, 6066, p. 348-353 6 p.

Research output: Contribution to journalArticle

Sumoylation
Carcinogenesis
Neoplasms
Lethal Genes
Synthetic Genes

Chemotactic adaptation kinetics of individual Escherichia coli cells

Min, T. L., Mears, P. J., Golding, I. & Chemla, Y. R., Jun 19 2012, In : Proceedings of the National Academy of Sciences of the United States of America. 109, 25, p. 9869-9874 6 p.

Research output: Contribution to journalArticle

Escherichia coli
Optical Tweezers
Chemotactic Factors
Chemotaxis
Bacteria

Visualizing Escherichia coli sub-cellular structure using sparse deconvolution spatial light interference tomography

Mir, M., Babacan, S. D., Bednarz, M., Do, M. N., Golding, I. & Popescu, G., Jun 28 2012, In : PloS one. 7, 6, e39816.

Research output: Contribution to journalArticle

Light interference
cell structures
tomography
Deconvolution
Cellular Structures
2011

Decision making in living cells: Lessons from a simple system

Golding, I., Jun 9 2011, In : Annual Review of Biophysics. 40, 1, p. 63-80 18 p.

Research output: Contribution to journalArticle

Life Cycle Stages
Life cycle
Decision Making
Decision making
Cells

Following cell-fate in E. coli after infection by phage lambda

Zeng, L. & Golding, I., Oct 2011, In : Journal of Visualized Experiments. 56, e3363.

Research output: Contribution to journalArticle

Open Access
Bacteriophage lambda
Escherichia coli Infections
Bacteriophages
Escherichia coli
Infection

General properties of transcriptional time series in Escherichia coli

So, L. H., Ghosh, A., Zong, C., Sepúlveda, L. A., Segev, R. & Golding, I., Jun 1 2011, In : Nature Genetics. 43, 6, p. 554-560 7 p.

Research output: Contribution to journalArticle

Escherichia coli
Messenger RNA
Gene Expression
Fluorescence In Situ Hybridization
Genes

Optical measurement of cycle-dependent cell growth

Mir, M., Wang, Z., Shen, Z., Bednarz, M., Bashir, R., Golding, I., Prasanth, S. G. & Popescu, G., Aug 9 2011, In : Proceedings of the National Academy of Sciences of the United States of America. 108, 32, p. 13124-13129 6 p.

Research output: Contribution to journalArticle

Cell Cycle
Growth
Interference Microscopy
Cell Size
Light

Single-virus tracking reveals a spatial receptor-dependent search mechanism

Rothenberg, E., Sepúlveda, L. A., Skinner, S. O., Zeng, L., Selvin, P. R. & Golding, I., Jan 1 2011, In : Biophysical journal. 100, 12, p. 2875-2882 8 p.

Research output: Contribution to journalArticle

Viruses
Virus Attachment
Virus Receptors
Viral Genome
Virus Diseases

Two-photon 3D fiona of individual quantum dots in an aqueous environment

Zhang, R., Rothenberg, E., Fruhwirth, G., Simonson, P. D., Ye, F., Golding, I., Ng, T., Lopes, W. & Selvin, P. R., Oct 12 2011, In : Nano Letters. 11, 10, p. 4074-4078 5 p.

Research output: Contribution to journalArticle

Semiconductor quantum dots
Photons
quantum dots
Microscopic examination
photons
2010

Decision Making at a Subcellular Level Determines the Outcome of Bacteriophage Infection

Zeng, L., Skinner, S. O., Zong, C., Sippy, J., Feiss, M. & Golding, I., May 1 2010, In : Cell. 141, 4, p. 682-691 10 p.

Research output: Contribution to journalArticle

Open Access
Bacteriophages
Viruses
Decision Making
Decision making
Infection

FliZ induces a kinetic switch in flagellar gene expression

Saini, S., Koirala, S., Floess, E., Mears, P. J., Chemla, Y. R., Golding, I., Aldridge, C., Aldridge, P. D. & Rao, C. V., Dec 1 2010, In : Journal of bacteriology. 192, 24, p. 6477-6481 5 p.

Research output: Contribution to journalArticle

Gene Expression
Salmonella enterica

Lysogen stability is determined by the frequency of activity bursts from the fate-determining gene

Zong, C., So, L. H., Sepúlveda, L. A., Skinner, S. O. & Golding, I., Dec 13 2010, In : Molecular Systems Biology. 6, 440.

Research output: Contribution to journalArticle

Open Access
Burst
Genes
Gene
Cell
Gene expression
2009

High-resolution, long-term characterization of bacterial motility using optical tweezers

Min, T. L., Mears, P. J., Chubiz, L. M., Rao, C. V., Golding, I. & Chemla, Y. R., Oct 1 2009, In : Nature Methods. 6, 11, p. 831-835 5 p.

Research output: Contribution to journalArticle

Optical Tweezers
Optical tweezers
Assays
Cell Migration Assays
Controlled Environment

Quantitative transcription factor binding kinetics at the single-molecule level

Wang, Y., Guo, L., Golding, I., Cox, E. C. & Ong, N. P., Jan 21 2009, In : Biophysical journal. 96, 2, p. 609-620 12 p.

Research output: Contribution to journalArticle

Open Access
Transcription Factors
DNA
Fluorescence Microscopy
Bacteriophages
failure modes
Failure Mode
Escherichia Coli
Proof by induction
redundant components
2006

Physical nature of bacterial cytoplasm

Golding, I. & Cox, E. C., Mar 20 2006, In : Physical review letters. 96, 9, 098102.

Research output: Contribution to journalArticle

cytoplasm
crowding
gene expression
cells
molecules
2005

Population fitness and the regulation of Escherichia coli genes by bacterial viruses

Chen, Y., Golding, I., Sawai, S., Guo, L. & Cox, E. C., Jul 2005, In : PLoS biology. 3, 7, p. 1276-1282 7 p., e229.

Research output: Contribution to journalArticle

Open Access
Bacterial Genes
Bacteriophages
bacteriophages
Escherichia coli
Genes

Real-time kinetics of gene activity in individual bacteria

Golding, I., Paulsson, J., Zawilski, S. M. & Cox, E. C., Dec 16 2005, In : Cell. 123, 6, p. 1025-1036 12 p.

Research output: Contribution to journalArticle

Open Access
Bacteria
Genes
Messenger RNA
Kinetics
Cells

Single-molecule studies of repressor-DNA interactions show long-range interactions

Wang, Y. M., Tegenfeldt, J. O., Reisner, W., Riehn, R., Guan, X. J., Guo, L., Golding, I., Cox, E. C., Sturm, J. & Austin, R. H., Jul 12 2005, In : Proceedings of the National Academy of Sciences of the United States of America. 102, 28, p. 9796-9801 6 p.

Research output: Contribution to journalArticle

Open Access
Repressor Proteins
DNA
Photons
Bacteriophages
Proteins
2004

Autoimmunity as an immune defense against degenerative processes: A primary mathematical model illustrating the bright side of autoimmunity

Nevo, U., Golding, I., Neumann, A. U., Schwartz, M. & Akselrod, S., Apr 21 2004, In : Journal of Theoretical Biology. 227, 4, p. 583-592 10 p.

Research output: Contribution to journalArticle

Autoimmunity
autoimmunity
Theoretical Models
mathematical models
Mathematical Model

RNA dynamics in live Escherichia coli cells

Golding, I. & Cox, E. C., Aug 3 2004, In : Proceedings of the National Academy of Sciences of the United States of America. 101, 31, p. 11310-11315 6 p.

Research output: Contribution to journalArticle

Open Access
RNA
Escherichia coli
Polymers
Messenger RNA
DNA
2003

Bursts of sectors in expanding bacterial colonies as a possible model for tumor growth and metastases

Ron, I. G., Golding, I., Lifsitz-Mercer, B. & Ben-Jacob, E., Mar 15 2003, In : Physica A: Statistical Mechanics and its Applications. 320, p. 485-496 12 p.

Research output: Contribution to journalArticle

Metastasis
Tumor Growth
metastasis
Burst
bursts
2002

Morphological characterization of in vitro neuronal networks

Shefi, O., Golding, I., Segev, R., Ben-Jacob, E. & Ayali, A., Aug 14 2002, In : Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics. 66, 2

Research output: Contribution to journalArticle

Neuronal Network
Clustering Coefficient
Small-world Network
Growth Process
Path Length
2001

A quantitative study of the dynamics of adaptive mutation appearance

Golding, I., Drossel, B., Shapira, Y. & Ben-Jacob, E., May 1 2001, In : Physica A: Statistical Mechanics and its Applications. 294, 1-2, p. 195-212 18 p.

Research output: Contribution to journalArticle

mutations
Mutation
Experiment
concentrating
Dynamical Model

Biofluiddynamics of lubricating bacteria

Cohen, I., Golding, I., Ron, I. G. & Ben-Jacob, E., Nov 25 2001, In : Mathematical Methods in the Applied Sciences. 24, 17-18, p. 1429-1468 40 p.

Research output: Contribution to journalArticle

Bacteria
Branching
Reaction-diffusion Model
Vortex flow
Vortex
2000

Bacterial cooperative organization under antibiotic stress

Ben-Jacob, E., Cohen, I., Golding, I., Gutnick, D. L., Tcherpakov, M., Helbing, D. & Ron, I. G., Jul 1 2000, In : Physica A: Statistical Mechanics and its Applications. 282, 1, p. 247-282 36 p.

Research output: Contribution to journalArticle

antibiotics
Antibiotics
Bacteria
bacteria
Cooperative Behavior
1999

Continuous and discrete models of cooperation in complex bacterial colonies

Cohen, I., Golding, I., Kozlovsky, Y., Ben-Jacob, E. & Ron, I. G., Sep 1999, In : Fractals. 7, 3, p. 235-247 13 p.

Research output: Contribution to journalArticle

Discrete Model
Bacteria
Coarse-graining
Model
Finite Size Effects

Lubricating bacteria model for branching growth of bacterial colonies

Kozlovsky, Y., Cohen, I., Golding, I. & Ben-Jacob, E., Jan 1 1999, In : Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics. 59, 6, p. 7025-7035 11 p.

Research output: Contribution to journalArticle

Bacteria
bacteria
Branching
lubricants
food

Studies of sector formation in expanding bacterial colonies

Golding, I., Cohen, I. & Ben-Jacob, E., Dec 1 1999, In : Europhysics Letters. 48, 5, p. 587-593 7 p.

Research output: Contribution to journalArticle

sectors
mutations
bursts
nutrients
mathematical models
1998

Studies of bacterial branching growth using reaction-diffusion models for colonial development

Golding, I., Kozlovsky, Y., Cohen, I. & Ben-Jacob, E., Nov 15 1998, In : Physica A: Statistical Mechanics and its Applications. 260, 3-4, p. 510-554 45 p.

Research output: Contribution to journalArticle

Reaction-diffusion Model
Growth Model
Branching
cybernetics
Cybernetics
1997
Polymers
Charge
polymers
Interaction
Range of data