IG
Ido Golding
Transcription, GeneticEscherichia colisystems biologyphysics.bio-phBacteriophage lambdabiophysicscond-matcond-mat.stat-mechGene Expression Regulation, BacterialLysogeny
On Valency
published · living versionsW_d46ra64p·v1 · currentpublished
Transcription rate dynamics and RNA copy number noise: General relations and data-driven predictions
with Amara McCune, Shlomi Reuveni, Sarah Kostinski
1 version
Preprints & journals
70 papers in the corpus · 1997–2026Temporal dynamics of RNA phage infection reveal bacterial recovery despite ongoing viral replication10.64898/2026.10.19.760031v1 · Harel, N., Resisi, Y., Meir, M. et al.2026 · 0 citationsbioRxiv
Transcription rate dynamics and RNA copy number noise: General relations and data-driven predictions2609.07993v1 · Amara McCune, Ido Golding, Shlomi Reuveni et al.2026 · 0 citationsarXivon Valency
Single-phage profiling illuminates viral individuality during bacterial cell fate determination.42218155 · Homaee, Ehsan, Zhu, Wenqing, Yao, Tianyou et al.2026 · 1 citationNature communications. 2026;17(1)
Cell Growth and Division Shape mRNA-Protein Correlations.42146617 · Biswas, Kuheli, Sheinman, Michael, Sepúlveda, Leonardo A et al.2026 · 0 citationsbioRxiv : the preprint server for biology. 2026
Single-phage profiling illuminates viral individuality during cell fate determination.41756978 · Homaee, Ehsan, Zhu, Wenqing, Yao, Tianyou et al.2026 · 0 citationsbioRxiv : the preprint server for biology. 2026
Phage-encoded small RNA hijacks host replication machinery to support the phage lytic cycle.41418758 · Silverman, Aviezer, Nashef, Raneem, Wasserman, Reut et al.2025 · 19 citationsMolecular cell. 2025;85(24):4678-4697.e12
Cytoplasmic localization of the mRNA encoding actin regulator, Serendipity-α, promotes adherens junction assembly and nuclear repositioning.40766707 · Mahadevan, Tejas, Figard, Lauren Renee, Seede, Hasan et al.2025 · 0 citationsbioRxiv : the preprint server for biology. 2025
Using bacterial population dynamics to count phages and their lysogens.39242585 · Geng, Yuncong, Nguyen, Thu Vu Phuc, Homaee, Ehsan et al.2024 · 38 citationsNature communications. 2024;15(1):7814
Flagellar dynamics reveal fluctuations and kinetic limit in the Escherichia coli chemotaxis network.38129516 · Bano, Roshni, Mears, Patrick, Golding, Ido et al.2023 · 4 citationsScientific reports. 2023;13(1):22891
Gene expression in growing cells: A biophysical primer.38045483 · Golding, Ido, Amir, Ariel2024 · 2 citationsArXiv. 2023
Physiological stress drives the emergence of a Salmonella subpopulation through ribosomal RNA regulation.37879333 · Ciolli Mattioli, Camilla, Eisner, Kfir, Rosenbaum, Aviel et al.2023 · 18 citationsCurrent biology : CB. 2023;33(22):4880-4892.e14
CO-INFECTING PHAGES IMPEDE EACH OTHER'S ENTRY INTO THE CELL.37333217 · Nguyen, Thu Vu Phuc, Wu, Yuchen, Yao, Tianyou et al.2024 · 29 citationsbioRxiv : the preprint server for biology. 2023
Transcription-replication interactions reveal principles of bacterial genome regulation.37034646 · Pountain, Andrew W, Jiang, Peien, Yao, Tianyou et al.2026 · 58 citationsResearch square. 2023
Transcription-replication interactions reveal principles of bacterial genome regulation10.1101/2022.10.22.513359v2 · Pountain, A., Jiang, P., Yao, T. et al.2022 · 8 citationsbioRxiv
Bacteriophage self-counting in the presence of viral replication.34916284 · Yao, Tianyou, Coleman, Seth, Nguyen, Thu Vu Phuc et al.2022 · 25 citationsProceedings of the National Academy of Sciences of the United States of America. 2021;118(51)
Spliceosome-targeted therapies trigger an antiviral immune response in triple-negative breast cancer.33450205 · Bowling, Elizabeth A, Wang, Jarey H, Gong, Fade et al.2021 · 226 citationsCell. 2021;184(2):384-403.e21
Stochastic simulation and statistical inference platform for visualization and estimation of transcriptional kinetics.32214380 · Gorin, Gennady, Wang, Mengyu, Golding, Ido et al.2020 · 19 citationsPloS one. 2020;15(3):e0230736
Revisiting Replication-Induced Transcription in Escherichia coli.31750555 · Golding, Ido2021 · 4 citationsBioEssays : news and reviews in molecular, cellular and developmental biology. 2020;42(1):e1900193
Measuring transcription at a single gene copy reveals hidden drivers of bacterial individuality.31527794 · Wang, Mengyu, Zhang, Jing, Xu, Heng et al.2020 · 56 citationsNature microbiology. 2019;4(12):2118-2127
Cofilin-Mediated Actin Stress Response Is Maladaptive in Heat-Stressed Embryos.30917306 · Figard, Lauren, Zheng, Liuliu, Biel, Natalie et al.2020 · 29 citationsCell reports. 2019;26(13):3493-3501.e4
Infection by bacteriophage lambda: an evolving paradigm for cellular individuality.29107897 · Golding, Ido2019 · 31 citationsCurrent opinion in microbiology. 2018;43:9-13
The transcription fidelity factor GreA impedes DNA break repair.28976965 · Sivaramakrishnan, Priya, Sepúlveda, Leonardo A, Halliday, Jennifer A et al.2018 · 59 citationsNature. 2017;550(7675):214-218
Stochastic Kinetics of Nascent RNA.27667861 · Xu, Heng, Skinner, Samuel O, Sokac, Anna Marie et al.2024 · 99 citationsPhysical review letters. 2016;117(12)
Single-Cell Studies of Phage λ: Hidden Treasures Under Occam's Rug.27482899 · Golding, Ido2017 · 50 citationsAnnual review of virology. 2016;3(1):453-472
Membrane Supply and Demand Regulates F-Actin in a Cell Surface Reservoir.27165556 · Figard, Lauren, Wang, Mengyu, Zheng, Liuliu et al.2017 · 41 citationsDevelopmental cell. 2016;37(3):267-78
Measurement of gene regulation in individual cells reveals rapid switching between promoter states.26965629 · Sepúlveda, Leonardo A, Xu, Heng, Zhang, Jing et al.2016 · 113 citationsScience (New York, N.Y.). 2016;351(6278):1218-22
Single-cell analysis of transcription kinetics across the cell cycle.26824388 · Skinner, Samuel O, Xu, Heng, Nagarkar-Jaiswal, Sonal et al.2017 · 151 citationseLife. 2016;5:e12175
The spliceosome is a therapeutic vulnerability in MYC-driven cancer.26331541 · Hsu, Tiffany Y-T, Simon, Lukas M, Neill, Nicholas J et al.2015 · 493 citationsNature. 2015;525(7569):384-8
Corrigendum: Measuring mRNA copy number in individual Escherichia coli cells using single-molecule fluorescent in situ hybridization.26313481 · Skinner, Samuel O, Sepúlveda, Leonardo A, Xu, Heng et al.2015 · 2 citationsNature protocols. 2015;10(9):1457
DksA involvement in transcription fidelity buffers stochastic epigenetic change.26304546 · Satory, Dominik, Gordon, Alasdair J E, Wang, Mengyu et al.2016 · 16 citationsNucleic acids research. 2015;43(21):10190-9
Combining protein and mRNA quantification to decipher transcriptional regulation.26098021 · Xu, Heng, Sepúlveda, Leonardo A, Figard, Lauren et al.2015 · 115 citationsNature methods. 2015;12(8):739-42
RNA biochemistry. Determination of in vivo target search kinetics of regulatory noncoding RNA.25792329 · Fei, Jingyi, Singh, Digvijay, Zhang, Qiucen et al.2015 · 118 citationsScience (New York, N.Y.). 2015;347(6228):1371-4
Removal of 8-oxo-GTP by MutT hydrolase is not a major contributor to transcriptional fidelity.25294823 · Gordon, Alasdair J E, Satory, Dominik, Wang, Mengyu et al.2015 · 9 citationsNucleic acids research. 2014;42(19):12015-26
A nutrient-tunable bistable switch controls motility in Salmonella enterica serovar Typhimurium.25161191 · Koirala, Santosh, Mears, Patrick, Sim, Martin et al.2015 · 79 citationsmBio. 2014;5(5):e01611-14
Revisiting bistability in the lysis/lysogeny circuit of bacteriophage lambda.24963924 · Bednarz, Michael, Halliday, Jennifer A, Herman, Christophe et al.2015 · 64 citationsPloS one. 2014;9(6):e100876
Escherichia coli swimming is robust against variations in flagellar number.24520165 · Mears, Patrick J, Koirala, Santosh, Rao, Chris V et al.2015 · 88 citationseLife. 2014;3:e01916
Genetic determinants and cellular constraints in noisy gene expression.24311680 · Sanchez, Alvaro, Golding, Ido2013 · 481 citationsScience (New York, N.Y.). 2013;342(6163):1188-93
The plasma membrane flattens out to fuel cell-surface growth during Drosophila cellularization.24316147 · Figard, Lauren, Xu, Heng, Garcia, Hernan G et al.2014 · 71 citationsDevelopmental cell. 2013;27(6):648-55
The maternal-to-zygotic transition targets actin to promote robustness during morphogenesis.24244181 · Zheng, Liuliu, Sepúlveda, Leonardo A, Lua, Rhonald C et al.2014 · 20 citationsPLoS genetics. 2013;9(11):e1003901
Measuring mRNA copy number in individual Escherichia coli cells using single-molecule fluorescent in situ hybridization.23680982 · Skinner, Samuel O, Sepúlveda, Leonardo A, Xu, Heng et al.2013 · 249 citationsNature protocols. 2013;8(6):1100-13
Chemotactic adaptation kinetics of individual Escherichia coli cells.22679285 · Min, Taejin L, Mears, Patrick J, Golding, Ido et al.2012 · 56 citationsProceedings of the National Academy of Sciences of the United States of America. 2012;109(25):9869-74
Visualizing Escherichia coli sub-cellular structure using sparse deconvolution Spatial Light Interference Tomography.22761910 · Mir, Mustafa, Babacan, S Derin, Bednarz, Michael et al.2013 · 38 citationsPloS one. 2012;7(6):e39816
A SUMOylation-dependent transcriptional subprogram is required for Myc-driven tumorigenesis.22157079 · Kessler, Jessica D, Kahle, Kristopher T, Sun, Tingting et al.2012 · 434 citationsScience (New York, N.Y.). 2012;335(6066):348-53
Following cell-fate in E. coli after infection by phage lambda.22025187 · Zeng, Lanying, Golding, Ido2011 · 20 citationsJournal of visualized experiments : JoVE. 2011(56):e3363
Two-photon 3D FIONA of individual quantum dots in an aqueous environment.21882883 · Zhang, Ruobing, Rothenberg, Eli, Fruhwirth, Gilbert et al.2012 · 40 citationsNano letters. 2011;11(10):4074-8
Optical measurement of cycle-dependent cell growth.21788503 · Mir, Mustafa, Wang, Zhuo, Shen, Zhen et al.2011 · 410 citationsProceedings of the National Academy of Sciences of the United States of America. 2011;108(32):13124-9
Single-virus tracking reveals a spatial receptor-dependent search mechanism.21689520 · Rothenberg, Eli, Sepúlveda, Leonardo A, Skinner, Samuel O et al.2011 · 75 citationsBiophysical journal. 2011;100(12):2875-82
General properties of transcriptional time series in Escherichia coli.21532574 · So, Lok-Hang, Ghosh, Anandamohan, Zong, Chenghang et al.2011 · 398 citationsNature genetics. 2011;43(6):554-60
Decision making in living cells: lessons from a simple system.21545284 · Golding, Ido2011 · 64 citationsAnnual review of biophysics. 2011;40:63-80
Lysogen stability is determined by the frequency of activity bursts from the fate-determining gene.21119634 · Zong, Chenghang, So, Lok-hang, Sepúlveda, Leonardo A et al.2011 · 99 citationsMolecular systems biology. 2010;6:440
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