On the public citation graph
Chromosomal Organization and Regulation of Genetic Function in Escherichia coli Integrates the DNA Analog and Digital Information
0 signed · 259 inferred · view as graph
Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.
Is this your work? Sign in with ORCID and put your name on the
claims that are yours.
Reference health. See whether every reference in this work resolves to a
known work and none has been retracted — and get a dated CiteStamped
badge you can embed.
What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/1873-3468.13439openalex-snapshot
Protective Dps–DNA co‐crystallization in stressed cells: an in vitro structural study by small‐angle X‐ray scattering and cryo‐electron tomography
inferredcites →https://doi.org/10.1002/j.1460-2075.1985.tb03656.xopenalex-snapshot
Supercoiling response of a bacterial tRNA gene.
inferredcites →https://doi.org/10.1002/j.1460-2075.1985.tb03734.xopenalex-snapshot
Negative supercoiling induces spontaneous unwinding of a bacterial promoter.
inferredcites →https://doi.org/10.1002/j.1460-2075.1992.tb05098.xopenalex-snapshot
The apical localization of transcribing RNA polymerases on supercoiled DNA prevents their rotation around the template.
inferredcites →https://doi.org/10.1002/j.1460-2075.1992.tb05327.xopenalex-snapshot
DNA deformation in nucleoprotein complexes between RNA polymerase, cAMP receptor protein and the lac UV5 promoter probed by singlet oxygen.
inferredcites →https://doi.org/10.1002/j.1460-2075.1993.tb05903.xopenalex-snapshot
The Escherichia coli FIS protein is not required for the activation of tyrT transcription on entry into exponential growth.
inferredcites →https://doi.org/10.1006/jmbi.1994.1042openalex-snapshot
The Twist, Writhe and Overall Shape of Supercoiled DNA Change During Counterion-induced Transition from a Loosely to a Tightly Interwound Superhelix
inferredcites →https://doi.org/10.1006/jmbi.1994.1389openalex-snapshot
Context-dependent Effects of Upstream A-Tracts
inferredcites →https://doi.org/10.1006/jmbi.1996.0341openalex-snapshot
Short-range Order in Two Eukaryotic Genomes: Relation to Chromosome Structure
inferredcites →https://doi.org/10.1006/jmbi.1997.1310openalex-snapshot
Variation in HU composition during growth of Escherichia coli: the heterodimer is required for long term survival
inferredcites →https://doi.org/10.1006/jsbi.2001.4365openalex-snapshot
DNA in Human and Stallion Spermatozoa Forms Local Hexagonal Packing with Twist and Many Defects
inferredcites →https://doi.org/10.1007/978-1-4939-7098-8_9openalex-snapshot
Isolation and Analysis of RNA Polymerase Supramolecular Complex with Associated Proteins
inferredcites →https://doi.org/10.1007/bf00408306openalex-snapshot
Transient accumulation of potassium glutamate and its replacement by trehalose during adaptation of growing cells of Escherichia coli K-12 to elevated sodium chloride concentrations
inferredcites →https://doi.org/10.1007/s00018-013-1394-1openalex-snapshot
Integration of syntactic and semantic properties of the DNA code reveals chromosomes as thermodynamic machines converting energy into information
inferredcites →https://doi.org/10.1007/s00294-017-0785-5openalex-snapshot
Chromosomal organization of transcription: in a nutshell
inferredcites →https://doi.org/10.1007/s11427-015-4898-0openalex-snapshot
Growth phase dependent changes in the structure and protein composition of nucleoid in Escherichia coli
inferredcites →https://doi.org/10.1007/s12551-016-0237-3openalex-snapshot
The regulatory role of DNA supercoiling in nucleoprotein complex assembly and genetic activity
inferredcites →https://doi.org/10.1016/0014-5793(78)80973-9openalex-snapshot
ppApp alters transcriptional selectivity of Escherichia coli RNA polymerase
inferredcites →https://doi.org/10.1016/0022-2836(80)90330-7openalex-snapshot
Cation-induced toroidal condensation of DNA
inferredcites →https://doi.org/10.1016/0022-2836(86)90405-5openalex-snapshot
Interaction of the Escherichia coli HU protein with DNA
inferredcites →https://doi.org/10.1016/0022-2836(86)90452-3openalex-snapshot
Sequence periodicities in chicken nucleosome core DNA
inferredcites →https://doi.org/10.1016/0022-2836(87)90369-xopenalex-snapshot
Use of site-specific recombination as a probe of DNA structure and metabolism in vivo
inferredcites →https://doi.org/10.1016/0022-2836(87)90485-2openalex-snapshot
Topological unwinding of strong and weak promoters by RNA polymerase
inferredcites →https://doi.org/10.1016/0022-2836(91)90100-kopenalex-snapshot
Factor-independent activation of Escherichia coli rRNA transcription
inferredcites →https://doi.org/10.1016/0022-2836(91)90185-9openalex-snapshot
Bacterial DNA supercoiling and
inferredcites →https://doi.org/10.1016/0022-2836(92)90533-popenalex-snapshot
Conformational and thermodynamic properties of supercoiled DNA
inferredcites →https://doi.org/10.1016/0092-8674(79)90152-1openalex-snapshot
E. coli DNA binding protein HU forms nucleosome-like structure with circular double-stranded DNA
inferredcites →https://doi.org/10.1016/0092-8674(88)90467-9openalex-snapshot
Curved helix segments can uniquely orient the topology of supertwisted DNA
inferredcites →https://doi.org/10.1016/0092-8674(88)90470-9openalex-snapshot
A physiological role for DNA supercoiling in the osmotic regulation of gene expression in S. typhimurium and E. coli
inferredcites →https://doi.org/10.1016/0092-8674(95)90114-0openalex-snapshot
Three-dimensional structure of E. coil core RNA polymerase: Promoter binding and elongation conformations of the enzyme
inferredcites →https://doi.org/10.1016/0303-2647(74)90031-8openalex-snapshot
Autopoiesis: The organization of living systems, its characterization and a model
inferredcites →https://doi.org/10.1016/0378-1097(90)90534-wopenalex-snapshot
Enteric bacteria and osmotic stress: Intracellular potassium glutamate as a secondary signal of osmotic stress?
inferredcites →https://doi.org/10.1016/0378-1097(92)90018-jopenalex-snapshot
Potassium ions and changes in bacterial DNA supercoiling under osmotic stress
inferredcites →https://doi.org/10.1016/0378-1097(95)00243-xopenalex-snapshot
Structure and partitioning of bacterial DNA: determined by a balance of compaction and expansion forces?
inferredcites →https://doi.org/10.1016/0378-1119(89)90058-9openalex-snapshot
Optimization of the in vitro packaging efficiency of bacteriophage T7 DNA: effects of neutral polymers
inferredcites →https://doi.org/10.1016/0923-2508(92)90060-2openalex-snapshot
The level of supercoiling effects the regulation of DNA replication in Escherichia coli
inferredcites →https://doi.org/10.1016/j.ajpath.2016.06.022openalex-snapshot
Formaldehyde Is a Potent Proteotoxic Stressor Causing Rapid Heat Shock Transcription Factor 1 Activation and Lys48-Linked Polyubiquitination of Proteins
inferredcites →https://doi.org/10.1016/j.bbagrm.2018.07.005openalex-snapshot
Structure-function comparisons of (p)ppApp vs (p)ppGpp for Escherichia coli RNA polymerase binding sites and for rrnB P1 promoter regulatory responses in vitro
inferredcites →https://doi.org/10.1016/j.biochi.2012.11.012openalex-snapshot
Medium-dependent control of the bacterial growth rate
inferredcites →https://doi.org/10.1016/j.biochi.2015.10.015openalex-snapshot
Free RNA polymerase in Escherichia coli
inferredcites →https://doi.org/10.1016/j.bpj.2013.10.011openalex-snapshot
Dynamic DNA Underpins Chromosome Dynamics
inferredcites →https://doi.org/10.1016/j.cell.2004.06.030openalex-snapshot
Regulation through the Secondary Channel—Structural Framework for ppGpp-DksA Synergism during Transcription
inferredcites →https://doi.org/10.1016/j.cell.2017.03.003openalex-snapshot
Structural Basis of RNA Polymerase I Transcription Initiation
inferredcites →https://doi.org/10.1016/j.cell.2017.12.027openalex-snapshot
Multiscale Structuring of the E. coli Chromosome by Nucleoid-Associated and Condensin Proteins
inferredcites →https://doi.org/10.1016/j.cell.2018.06.049openalex-snapshot
Global DNA Compaction in Stationary-Phase Bacteria Does Not Affect Transcription
inferredcites →https://doi.org/10.1016/j.cels.2016.04.015openalex-snapshot
Insights into the Mechanisms of Basal Coordination of Transcription Using a Genome-Reduced Bacterium
inferredcites →https://doi.org/10.1016/j.cels.2017.06.001openalex-snapshot
Biophysical Constraints Arising from Compositional Context in Synthetic Gene Networks
inferredcites →https://doi.org/10.1016/j.jchromb.2019.01.014openalex-snapshot
Growth phase-specific changes in the composition of E. coli transcription complexes
inferredcites →https://doi.org/10.1016/j.jmb.2006.12.013openalex-snapshot
Effects of DksA, GreA, and GreB on Transcription Initiation: Insights into the Mechanisms of Factors that Bind in the Secondary Channel of RNA Polymerase
inferredcites →https://doi.org/10.1016/j.jmb.2006.12.032openalex-snapshot
Structure of the Escherichia coli Leucine-responsive Regulatory Protein Lrp Reveals a Novel Octameric Assembly
inferredcites →https://doi.org/10.1016/j.jmb.2009.02.050openalex-snapshot
A Systematic In Vitro Study of Nucleoprotein Complexes Formed by Bacterial Nucleoid-Associated Proteins Revealing Novel Types of DNA Organization
inferredcites →https://doi.org/10.1016/j.jmb.2009.11.047openalex-snapshot
The Bacteriophage Genome Undergoes a Succession of Intracapsid Phase Transitions upon DNA Ejection
inferredcites →https://doi.org/10.1016/j.jsb.2004.03.007openalex-snapshot
The influence of DNA stiffness upon nucleosome formation
inferredcites →https://doi.org/10.1016/j.jsb.2006.07.005openalex-snapshot
Coupling the distribution of RNA polymerase to global gene regulation and the dynamic structure of the bacterial nucleoid in Escherichia coli
inferredcites →https://doi.org/10.1016/j.mib.2011.01.003openalex-snapshot
Pervasive regulation of nucleoid structure and function by nucleoid-associated proteins
inferredcites →https://doi.org/10.1016/j.molcel.2006.10.030openalex-snapshot
The Transition between Transcriptional Initiation and Elongation in E. coli Is Highly Variable and Often Rate Limiting
inferredcites →https://doi.org/10.1016/j.molcel.2008.12.021openalex-snapshot
Regulator Trafficking on Bacterial Transcription Units In Vivo
inferredcites →https://doi.org/10.1016/j.molcel.2009.06.035openalex-snapshot
Protein Occupancy Landscape of a Bacterial Genome
inferredcites →https://doi.org/10.1016/j.molcel.2017.09.006openalex-snapshot
6S RNA Mimics B-Form DNA to Regulate Escherichia coli RNA Polymerase
inferredcites →https://doi.org/10.1016/j.sbi.2003.12.003openalex-snapshot
IHF and HU: flexible architects of bent DNA
inferredcites →https://doi.org/10.1016/j.tibs.2014.02.009openalex-snapshot
Replication-induced supercoiling: a neglected DNA transaction regulator?
inferredcites →https://doi.org/10.1016/j.ygeno.2012.10.003openalex-snapshot
Structural attributes of nucleotide sequences in promoter regions of supercoiling-sensitive genes: How to relate microarray expression data with genomic sequences
inferredcites →https://doi.org/10.1016/s0006-3495(94)80732-5openalex-snapshot
The influence of salt on the structure and energetics of supercoiled DNA
inferredcites →https://doi.org/10.1016/s0021-9258(17)42113-2openalex-snapshot
Interdependence of K+ and glutamate accumulation during osmotic adaptation of Escherichia coli.
inferredcites →https://doi.org/10.1016/s0021-9258(18)37625-7openalex-snapshot
Histone-like proteins and bacterial chromosome structure.
inferredcites →https://doi.org/10.1016/s0021-9258(18)90844-6openalex-snapshot
Effect of supercoiling on the abortive initiation kinetics of the RNA-I promoter of ColE1 plasmid DNA.
inferredcites →https://doi.org/10.1016/s0021-9258(18)93106-6openalex-snapshot
The Control of Ribonucleic Acid Synthesis in Escherichia coli
inferredcites →https://doi.org/10.1016/s0021-9258(19)57471-3openalex-snapshot
Coupling between the sodium and proton gradients in respiring Escherichia coli cells measured by 23Na and 31P nuclear magnetic resonance.
inferredcites →https://doi.org/10.1016/s0022-2836(02)00142-0openalex-snapshot
FIS Modulates the Kinetics of Successive Interactions of RNA Polymerase with the Core and Upstream Regions of the tyrT Promoter
inferredcites →https://doi.org/10.1016/s0022-2836(03)00727-7openalex-snapshot
Mechanism of Transcriptional Activation by FIS: Role of Core Promoter Structure and DNA Topology
inferredcites →https://doi.org/10.1016/s0022-2836(05)80272-4openalex-snapshot
Structure of plectonemically supercoiled DNA
inferredcites →https://doi.org/10.1016/s0022-2836(59)80041-3openalex-snapshot
Etude par diffusion des rayons X aux petits angles des gels d’acide désoxyribonucléique et de nucléoprotéines : (note préliminaire)
inferredcites →https://doi.org/10.1016/s0022-2836(63)80043-1openalex-snapshot
The structure of nucleohistones and nucleoprotamines
inferredcites →https://doi.org/10.1016/s0092-8674(00)80873-9openalex-snapshot
6S RNA Regulates E. coli RNA Polymerase Activity
inferredcites →https://doi.org/10.1016/s0092-8674(00)81824-3openalex-snapshot
Crystal Structure of an IHF-DNA Complex: A Protein-Induced DNA U-Turn
inferredcites →https://doi.org/10.1016/s1097-2765(04)00202-3openalex-snapshot
Osmo-Regulation of Bacterial Transcription via Poised RNA Polymerase
inferredcites →https://doi.org/10.1017/s0033583512000054openalex-snapshot
Bullied no more: when and how DNA shoves proteins around
inferredcites →https://doi.org/10.1021/acs.nanolett.6b05294openalex-snapshot
Hyperplectonemes: A Higher Order Compact and Dynamic DNA Self-Organization
inferredcites →https://doi.org/10.1021/bi00549a021openalex-snapshot
Functional heterogeneity of Escherichia coli ribonucleic acid polymerase holoenzyme
inferredcites →https://doi.org/10.1021/bi00597a006openalex-snapshot
Supercoiling in closed circular DNA: dependence upon ion type and concentration
inferredcites →https://doi.org/10.1021/bi030110topenalex-snapshot
Effect of Varying the Supercoiling of DNA on Transcription and Its Regulation
inferredcites →https://doi.org/10.1038/embor.2009.232openalex-snapshot
Coordination of genomic structure and transcription by the main bacterial nucleoid‐associated protein HU
inferredcites →https://doi.org/10.1038/msb.2012.42openalex-snapshot
Gene location and DNA density determine transcription factor distributions in Escherichia coli
inferredcites →https://doi.org/10.1038/nature09152openalex-snapshot
Spatial organization of the flow of genetic information in bacteria
inferredcites →https://doi.org/10.1038/nature11142openalex-snapshot
A map of nucleosome positions in yeast at base-pair resolution
inferredcites →https://doi.org/10.1038/ncomms11055openalex-snapshot
Genome scale patterns of supercoiling in a bacterial chromosome
inferredcites →https://doi.org/10.1038/newbio239167a0openalex-snapshot
Angular Alteration of the DNA Helix by E. coli RNA Polymerase
inferredcites →https://doi.org/10.1038/newbio243161a0openalex-snapshot
Effect of DNA Conformation on Ribosomal RNA Synthesis in vitro
inferredcites →https://doi.org/10.1038/nrmicro2261openalex-snapshot
Bacterial nucleoid-associated proteins, nucleoid structure and gene expression
inferredcites →https://doi.org/10.1038/nrmicro3316openalex-snapshot
Pervasive transcription: illuminating the dark matter of bacterial transcriptomes
inferredcites →https://doi.org/10.1038/nsb0498-294openalex-snapshot
The crystal structure of Dps, a ferritin homolog that binds and protects DNA
inferredcites →https://doi.org/10.1038/nsb0897-657openalex-snapshot
The solution structure of an HMG-I(Y)–DNA complex defines a new architectural minor groove binding motif
inferredcites →https://doi.org/10.1038/s41467-018-05997-6openalex-snapshot
SMRT-Cappable-seq reveals complex operon variants in bacteria
inferredcites →https://doi.org/10.1038/s41467-019-10221-0openalex-snapshot
Direct imaging of the circular chromosome in a live bacterium
inferredcites →https://doi.org/10.1038/sj.emboj.7600434openalex-snapshot
Macrodomain organization of the Escherichia coli chromosome
inferredcites →https://doi.org/10.1038/sj.emboj.7601261openalex-snapshot
RNA polymerase and an activator form discrete subcomplexes in a transcription initiation complex
inferredcites →https://doi.org/10.1038/sj.embor.7400729openalex-snapshot
Homeostatic regulation of supercoiling sensitivity coordinates transcription of the bacterial genome
inferredcites →https://doi.org/10.1038/srep18146openalex-snapshot
Regulation of Bacterial DNA Packaging in Early Stationary Phase by Competitive DNA Binding of Dps and IHF
inferredcites →https://doi.org/10.1038/srep31512openalex-snapshot
Genes on a Wire: The Nucleoid-Associated Protein HU Insulates Transcription Units in Escherichia coli
inferredcites →https://doi.org/10.1039/b909192kopenalex-snapshot
General organisational principles of the transcriptional regulation system: a tree or a circle?
inferredcites →https://doi.org/10.1039/c3mb25515hopenalex-snapshot
DNA thermodynamic stability and supercoil dynamics determine the gene expression program during the bacterial growth cycle
inferredcites →https://doi.org/10.1039/c7sm00384fopenalex-snapshot
Cholesteric liquid crystals in living matter
inferredcites →https://doi.org/10.1039/c7sm02118fopenalex-snapshot
Effect of HU protein on the conformation and compaction of DNA in a nanochannel
inferredcites →https://doi.org/10.1042/bj2160709openalex-snapshot
The relationship between intracellular pH, the pH gradient and potassium transport in Escherichia coli
inferredcites →https://doi.org/10.1042/bst20120334openalex-snapshot
DNA thermodynamics shape chromosome organization and topology
inferredcites →https://doi.org/10.1046/j.1365-2958.1999.01430.xopenalex-snapshot
The response to stationary‐phase stress conditions in Escherichia coli : role and regulation of the glutamic acid decarboxylase system
inferredcites →https://doi.org/10.1046/j.1365-2958.2000.02129.xopenalex-snapshot
The expression of the Escherichia coli fis gene is strongly dependent on the superhelical density of DNA
inferredcites →https://doi.org/10.1046/j.1365-2958.2003.03461.xopenalex-snapshot
DNA supercoiling contributes to disconnect σS accumulation from σS‐dependent transcription in Escherichia coli
inferredcites →https://doi.org/10.1046/j.1365-2958.2003.03855.xopenalex-snapshot
Nucleoid restructuring in stationary‐state bacteria
inferredcites →https://doi.org/10.1046/j.1432-1327.1999.00848.xopenalex-snapshot
GroEL is involved in activation of Escherichia coli RNA polymerase devoid of the ω subunit in vivo
inferredcites →https://doi.org/10.1073/pnas.0501170102openalex-snapshot
DksA potentiates direct activation of amino acid promoters by ppGpp
inferredcites →https://doi.org/10.1073/pnas.0506687102openalex-snapshot
Studies of the distribution of Escherichia coli cAMP-receptor protein and RNA polymerase along the E. coli chromosome
inferredcites →https://doi.org/10.1073/pnas.0508032102openalex-snapshot
Nucleoid remodeling by an altered HU protein: Reorganization of the transcription program
inferredcites →https://doi.org/10.1073/pnas.0611686104openalex-snapshot
Spiral structure of Escherichia coli HUαβ provides foundation for DNA supercoiling
inferredcites →https://doi.org/10.1073/pnas.0708244105openalex-snapshot
Structure of a protein–DNA complex essential for DNA protection in spores of Bacillus species
inferredcites →https://doi.org/10.1073/pnas.1019383108openalex-snapshot
Direct regulation of Escherichia coli ribosomal protein promoters by the transcription factors ppGpp and DksA
inferredcites →https://doi.org/10.1073/pnas.1102544108openalex-snapshot
Structural basis for recognition of AT-rich DNA by unrelated xenogeneic silencing proteins
inferredcites →https://doi.org/10.1073/pnas.1108229109openalex-snapshot
Gene order and chromosome dynamics coordinate spatiotemporal gene expression during the bacterial growth cycle
inferredcites →https://doi.org/10.1073/pnas.1515817113openalex-snapshot
TFE and Spt4/5 open and close the RNA polymerase clamp during the transcription cycle
inferredcites →https://doi.org/10.1073/pnas.1818361115openalex-snapshot
Puzzling conformational changes affecting proteins binding to the RNA polymerase
inferredcites →https://doi.org/10.1073/pnas.1819682116openalex-snapshot
Genome-wide effects on Escherichia coli transcription from ppGpp binding to its two sites on RNA polymerase
inferredcites →https://doi.org/10.1073/pnas.1903968116openalex-snapshot
Spatial organization of RNA polymerase and its relationship with transcription in Escherichia coli
inferredcites →https://doi.org/10.1073/pnas.212510999openalex-snapshot
Adaptation to famine: A family of stationary-phase genes revealed by microarray analysis
inferredcites →https://doi.org/10.1073/pnas.261560398openalex-snapshot
Cryoelectron microscopy of λ phage DNA condensates in vitreous ice: The fine structure of DNA toroids
inferredcites →https://doi.org/10.1073/pnas.55.6.1616openalex-snapshot
Some physical properties of RNA polymerase.
inferredcites →https://doi.org/10.1073/pnas.72.9.3428openalex-snapshot
Characterization of a novel, low-molecular-weight DNA-binding protein from Escherichia coli.
inferredcites →https://doi.org/10.1073/pnas.78.1.464openalex-snapshot
Osmotic control of kdp operon expression in Escherichia coli.
inferredcites →https://doi.org/10.1073/pnas.84.20.7024openalex-snapshot
Supercoiling of the DNA template during transcription.
inferredcites →https://doi.org/10.1073/pnas.87.21.8373openalex-snapshot
Superhelical torsion in cellular DNA responds directly to environmental and genetic factors.
inferredcites →https://doi.org/10.1073/pnas.94.17.9022openalex-snapshot
Structural kinetics of transcription activation at the malT promoter of Escherichia coli by UV laser footprinting
inferredcites →https://doi.org/10.1073/pnas.95.19.11163openalex-snapshot
DNA sequence-dependent deformability deduced from protein–DNA crystal complexes
inferredcites →https://doi.org/10.1073/pnas.95.9.4953openalex-snapshot
A stationary phase protein in Escherichia coli with binding activity to the major σ subunit of RNA polymerase
inferredcites →https://doi.org/10.1074/jbc.271.4.1998openalex-snapshot
Promoter Selectivity of Escherichia coli RNA Polymerase Eσ70 and Eσ38 Holoenzymes
inferredcites →https://doi.org/10.1074/jbc.275.11.8103openalex-snapshot
Roles of Topoisomerases in Maintaining Steady-state DNA Supercoiling in Escherichia coli
inferredcites →https://doi.org/10.1074/jbc.m114.628131openalex-snapshot
Upstream Binding of Idling RNA Polymerase Modulates Transcription Initiation from a Nearby Promoter
inferredcites →https://doi.org/10.1074/jbc.m117.780239openalex-snapshot
Spatial organization of DNA sequences directs the assembly of bacterial chromatin by a nucleoid-associated protein
inferredcites →https://doi.org/10.1074/jbc.m601531200openalex-snapshot
Antagonistic Regulation of Escherichia coli Ribosomal RNA rrnB P1 Promoter Activity by GreA and DksA
inferredcites →https://doi.org/10.1074/jbc.m605576200openalex-snapshot
Right-handed DNA Supercoiling by an Octameric Form of Histone-like Protein HU
inferredcites →https://doi.org/10.1080/10409230802528488openalex-snapshot
The Major Architects of Chromatin: Architectural Proteins in Bacteria, Archaea and Eukaryotes
inferredcites →https://doi.org/10.1085/jgp.45.2.355openalex-snapshot
Cation Transport in Escherichia coli
inferredcites →https://doi.org/10.1085/jgp.47.2.329openalex-snapshot
Cation Transport in Escherichia coli
inferredcites →https://doi.org/10.1085/jgp.49.2.221openalex-snapshot
Cation Transport in Escherichia coli
inferredcites →https://doi.org/10.1085/jgp.49.6.103openalex-snapshot
Physical and Topological Properties of Circular DNA
inferredcites →https://doi.org/10.1093/emboj/17.23.7033openalex-snapshot
Thermoregulation of Shigella and Escherichia coli EIEC pathogenicity. A temperature‐dependent structural transition of DNA modulates accessibility of virF promoter to transcriptional repressor H‐NS
inferredcites →https://doi.org/10.1093/emboj/17.8.2359openalex-snapshot
The supercoiling sensitivity of a bacterial tRNA promoter parallels its responsiveness to stringent control
inferredcites →https://doi.org/10.1093/emboj/18.16.4464openalex-snapshot
Wrapping of DNA around the E.coli RNA polymerase open promoter complex
inferredcites →https://doi.org/10.1093/emboj/20.5.1184openalex-snapshot
Regulated phase transitions of bacterial chromatin: a non‐enzymatic pathway for generic DNA protection
inferredcites →https://doi.org/10.1093/emboj/21.4.715openalex-snapshot
Transcriptional regulation of fis operon involves a module of multiple coupled promoters
inferredcites →https://doi.org/10.1093/emboj/cdg351openalex-snapshot
Flexible DNA bending in HU–DNA cocrystal structures
inferredcites →https://doi.org/10.1093/nar/22.6.1044openalex-snapshot
DNA looping by the HMG-box domains of HMG1 and modulation of DNA binding by the acidic C-terminal domain
inferredcites →https://doi.org/10.1093/nar/23.5.827openalex-snapshot
Promoter determinants forEscherichia coliRNA polymerase holoenzyme containing σ38(therpoSgene product)
inferredcites →https://doi.org/10.1093/nar/25.7.1412openalex-snapshot
The effect of ionic conditions on DNA helical repeat, effective diameter and free energy of supercoiling
inferredcites →https://doi.org/10.1093/nar/28.3.706openalex-snapshot
Structural analysis of DNA sequence: evidence for lateral gene transfer in Thermotoga maritima
inferredcites →https://doi.org/10.1093/nar/29.24.5107openalex-snapshot
An architectural role of the Escherichia coli chromatin protein FIS in organising DNA
inferredcites →https://doi.org/10.1093/nar/gkg859openalex-snapshot
Gene essentiality determines chromosome organisation in bacteria
inferredcites →https://doi.org/10.1093/nar/gkm712openalex-snapshot
High-affinity DNA binding sites for H-NS provide a molecular basis for selective silencing within proteobacterial genomes
inferredcites →https://doi.org/10.1093/nar/gkp231openalex-snapshot
Transcriptional regulation shapes the organization of genes on bacterial chromosomes
inferredcites →https://doi.org/10.1093/nar/gkp962openalex-snapshot
Intrinsic flexibility of B-DNA: the experimental TRX scale
inferredcites →https://doi.org/10.1093/nar/gkq934openalex-snapshot
Direct and indirect effects of H-NS and Fis on global gene expression control in Escherichia coli
inferredcites →https://doi.org/10.1093/nar/gkr1236openalex-snapshot
Genomic analysis of DNA binding and gene regulation by homologous nucleoid-associated proteins IHF and HU in Escherichia coli K12
inferredcites →https://doi.org/10.1093/nar/gkr779openalex-snapshot
A model for Escherichia coli chromosome packaging supports transcription factor-induced DNA domain formation
inferredcites →https://doi.org/10.1093/nar/gks694openalex-snapshot
Regulatory consequences of gene translocation in bacteria
inferredcites →https://doi.org/10.1093/nar/gks925openalex-snapshot
Self-organization of domain structures by DNA-loop-extruding enzymes
inferredcites →https://doi.org/10.1093/nar/gkt593openalex-snapshot
Time-dependent bending rigidity and helical twist of DNA by rearrangement of bound HU protein
inferredcites →https://doi.org/10.1093/nar/gkv055openalex-snapshot
Effects of physiological self-crowding of DNA on shape and biological properties of DNA molecules with various levels of supercoiling
inferredcites →https://doi.org/10.1093/nar/gkw007openalex-snapshot
Transcription-coupled DNA supercoiling dictates the chromosomal arrangement of bacterial genes
inferredcites →https://doi.org/10.1093/nar/gkx516openalex-snapshot
Influence of DNA sequence on the structure of minicircles under torsional stress
inferredcites →https://doi.org/10.1093/nar/gky1077openalex-snapshot
RegulonDB v 10.5: tackling challenges to unify classic and high throughput knowledge of gene regulation inE. coliK-12
inferredcites →https://doi.org/10.1093/nar/gky1222openalex-snapshot
Single-nucleotide-resolution mapping of DNA gyrase cleavage sites across the Escherichia coli genome
inferredcites →https://doi.org/10.1093/nar/gky1271openalex-snapshot
Genome-wide mapping of Topoisomerase I activity sites reveal its role in chromosome segregation
inferredcites →https://doi.org/10.1093/nar/gky1312openalex-snapshot
Single-nucleotide-resolution mapping of DNA gyrase cleavage sites across the Escherichia coli genome
inferredcites →https://doi.org/10.1093/nar/gky265openalex-snapshot
StpA and Hha stimulate pausing by RNA polymerase by promoting DNA–DNA bridging of H-NS filaments
inferredcites →https://doi.org/10.1093/nar/gky482openalex-snapshot
The RNA polymerase clamp interconverts dynamically among three states and is stabilized in a partly closed state by ppGpp
inferredcites →https://doi.org/10.1093/nar/gkz300openalex-snapshot
Bacterial genome architecture shapes global transcriptional regulation by DNA supercoiling
inferredcites →https://doi.org/10.1098/rsta.2011.0231openalex-snapshot
DNA information: from digital code to analogue structure
inferredcites →https://doi.org/10.1101/gad.11.19.2580openalex-snapshot
Topoisomerase IV, not gyrase, decatenates products of site-specific recombination inEscherichia coli
inferredcites →https://doi.org/10.1101/gad.227902openalex-snapshot
Regulation of ς factor competition by the alarmone ppGpp
inferredcites →https://doi.org/10.1101/gad.290312.116openalex-snapshot
Colocalization of distant chromosomal loci in space in E. coli: a bacterial nucleolus
inferredcites →https://doi.org/10.1101/gr.070276.107openalex-snapshot
Genome-wide analysis of Fis binding in Escherichia coli indicates a causative role for A-/AT-tracts
inferredcites →https://doi.org/10.1111/gtc.12577openalex-snapshot
The role of ω‐subunit of Escherichia coli RNA polymerase in stress response
inferredcites →https://doi.org/10.1111/j.1365-2958.1992.tb01400.xopenalex-snapshot
Interrelated effects of DNA supercoiling, ppGpp, and low salt on melting within the Escherichia coli ribosomal RNA rrnB P1 promoter
inferredcites →https://doi.org/10.1111/j.1365-2958.1992.tb01486.xopenalex-snapshot
Control of bacterial DNA supercoiling
inferredcites →https://doi.org/10.1111/j.1365-2958.1996.tb02622.xopenalex-snapshot
DNA supercoiling depends on the phosphorylation potential in Escherichia coli
inferredcites →https://doi.org/10.1111/j.1365-2958.2005.04799.xopenalex-snapshot
A genetic selection for supercoiling mutants of Escherichia coli reveals proteins implicated in chromosome structure
inferredcites →https://doi.org/10.1111/j.1365-2958.2005.04873.xopenalex-snapshot
LRP and H‐NS – cooperative partners for transcription regulation at Escherichia coli rRNA promoters
inferredcites →https://doi.org/10.1111/j.1365-2958.2006.05046.xopenalex-snapshot
Replication‐associated gene dosage effects shape the genomes of fast‐growing bacteria but only for transcription and translation genes
inferredcites →https://doi.org/10.1111/j.1365-2958.2007.05601.xopenalex-snapshot
The molecular basis of selective promoter activation by the σS subunit of RNA polymerase
inferredcites →https://doi.org/10.1111/j.1365-2958.2008.06138.xopenalex-snapshot
Prevalence of RNA polymerase stalling at Escherichia coli promoters after open complex formation
inferredcites →https://doi.org/10.1111/j.1365-2958.2008.06412.xopenalex-snapshot
General stress response signalling: unwrapping transcription complexes by DNA relaxation via the sigma38 C‐terminal domain
inferredcites →https://doi.org/10.1111/j.1365-2958.2009.06919.xopenalex-snapshot
DNA relaxation‐dependent phase biasing of the fim genetic switch in Escherichia coli depends on the interplay of H‐NS, IHF and LRP
inferredcites →https://doi.org/10.1111/j.1365-2958.2010.07394.xopenalex-snapshot
DNA topology of highly transcribed operons in Salmonella enterica serovar Typhimurium
inferredcites →https://doi.org/10.1126/sciadv.1600650openalex-snapshot
HU multimerization shift controls nucleoid compaction
inferredcites →https://doi.org/10.1126/science.1128794openalex-snapshot
Selective Silencing of Foreign DNA with Low GC Content by the H-NS Protein in Salmonella
inferredcites →https://doi.org/10.1126/science.1242059openalex-snapshot
High-Resolution Mapping of the Spatial Organization of a Bacterial Chromosome
inferredcites →https://doi.org/10.1126/science.2678475openalex-snapshot
Stabilization of Z DNA in Vivo by Localized Supercoiling
inferredcites →https://doi.org/10.1126/science.7997878openalex-snapshot
DNA Bending by Asymmetric Phosphate Neutralization
inferredcites →https://doi.org/10.1126/science.8197460openalex-snapshot
Liquid-Crystalline Mesophases of Plasmid DNA in Bacteria
showing the first 200 of 246 · page through all 246
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1007/s00284-024-03773-yopenalex-snapshot
Title-Evaluation of Interplay of Gene Expression and Chromosome Structure in E. coli Growth: Regulatory Insights
inferred← citeshttps://doi.org/10.1016/j.isci.2021.102408openalex-snapshot
DNA Sequence-Directed Cooperation between Nucleoid-Associated Proteins
inferred← citeshttps://doi.org/10.1093/nar/gkaa1227openalex-snapshot
The nucleoid-associated protein IHF acts as a ‘transcriptional domainin’ protein coordinating the bacterial virulence traits with global transcription
inferred← citeshttps://doi.org/10.1093/nar/gkac679openalex-snapshot
What is a supercoiling-sensitive gene? Insights from topoisomerase I inhibition in the Gram-negative bacterium Dickeya dadantii
inferred← citeshttps://doi.org/10.1093/nar/gkaf452openalex-snapshot
Quantitative spatial analysis of bacterial transcriptome and chromosome structural data with GRATIOSA: application to twin-supercoiled domain distribution
inferred← citeshttps://doi.org/10.1093/nar/gkag222openalex-snapshot
Evolutionary constraints on RNA polymerase gene positioning in the genome of fast-growing bacteria
inferred← citeshttps://doi.org/10.1101/2020.10.01.322149openalex-snapshot
The discriminator sequence is a primary determinant in the supercoiling response of bacterial promoters
inferred← citeshttps://doi.org/10.1128/mmbr.00153-25openalex-snapshot
Effects of cooling on E. coli ’s DNA organization, structure, and gene expression
inferred← citeshttps://doi.org/10.1128/msystems.00978-21openalex-snapshot
Role of the Discriminator Sequence in the Supercoiling Sensitivity of Bacterial Promoters
inferred← citeshttps://doi.org/10.3390/biom11070924openalex-snapshot
Composition of Transcription Machinery and Its Crosstalk with Nucleoid-Associated Proteins and Global Transcription Factors
inferred← citeshttps://doi.org/10.3390/biom12060831openalex-snapshot
Spatiotemporal Coupling of DNA Supercoiling and Genomic Sequence Organization—A Timing Chain for the Bacterial Growth Cycle?
inferred← citeshttps://doi.org/10.70675/121231b7zf5eez4064zaf52zd8b8e6e71fd3openalex-snapshot
Modelling transcriptional regulation by DNA supercoiling in bacteria
Editorial review for independent work. ICSAC — the Institute for Complexity
Science and Advanced Computing — runs a structured editorial panel for researchers
publishing outside journals, and publishes on CiteStamp rails. Submission is free
and goes through ORCID: icsacinstitute.org/submit.