1980 Preface * 1999 Preface * 1999 Acknowledgements * Introduction * 1 Circular Logic * 2 Phase Singularities (Screwy Results of Circular Logic) * 3 The Rules of the Ring * 4 Ring Populations * 5 Getting Off the Ring * 6 Attracting Cycles and Isochrons * 7 Measuring the Trajectories of a Circadian Clock * 8 Populations of Attractor Cycle Oscillators * 9 Excitable Kinetics and Excitable Media * 10 The Varieties of Phaseless Experience: In Which the Geometrical Orderliness of Rhythmic Organization Breaks Down in Diverse Ways * 11 The Firefly Machine 12 Energy Metabolism in Cells * 13 The Malonic Acid Reagent ('Sodium Geometrate') * 14 Electrical Rhythmicity and Excitability in Cell Membranes * 15 The Aggregation of Slime Mold Amoebae * 16 Numerical Organizing Centers * 17 Electrical Singular Filaments in the Heart Wall * 18 Pattern Formation in the Fungi * 19 Circadian Rhythms in General * 20 The Circadian Clocks of Insect Eclosion * 21 The Flower of Kalanchoe * 22 The Cell Mitotic Cycle * 23 The Female Cycle * References * Index of Names * Index of Subjects

https://www.cambridge.org/core/services/aop-cambridge-core/content/view/596B270197FE27DE5FABB598B6210622/S0025557200150892a.pdf/div-class-title-span-class-italic-the-geometry-of-biological-time-span-by-a-t-winfree-pp-544-dm68-corrected-second-printing-1990-isbn-3-540-52528-9-springer-div.pdf

The geometry of biological time , by A. T. Winfree. Pp 544. DM68. Corrected Second Printing 1990. ISBN 3-540-52528-9 (Springer)

to be done in this area. Face recognition is a problem that scarcely clamoured for attention before the computer age but, having surfaced, has involved a wide range of techniques and has attracted the attention of some fine minds (David Mumford was a Fields Medallist in 1974). This singular application of mathematical modelling to a messy applied problem of obvious utility and importance but with no unique solution is a pretty one to share with students: perhaps, returning to the source of our opening quotation, we may invert Duncan's earlier observation, 'There is an art to find the mind's construction in the face!'.

Linear and nonlinear waves, by G. B. Whitham. Pp.636. £50. 1999. ISBN 0 471 35942 4 (Wiley).

Statistical physics of vehicular traffic and some related systems

Random-matrix theories in quantum physics : common concepts

Extraction and Solubilization of Proteins for Proteomic Studies Richard M. Leimgruber Preparation of Bacterial Samples for 2-D PAGE Brian Berg Vandahl, Gunna Christiansen, and Svend Birkelund Preparation of Yeast Samples for 2-D PAGE Joakim Norbeck Preparation of Mammalian Tissue Samples for Two-Dimensional Electrophoresis Frank A. Witzmann Differential Detergent Fractionation of Eukaryotic Cells Melinda L. Ramsby and Gregory S. Makowski Serum or Plasma Sample Preparation for Two-Dimensional Gel Electrophoresis Anthony G. Sullivan, Stephen Russell, Henry Brzeski, Richard I. Somiari, and Craig D. Shriver Preparation of Plant Protein Samples for 2-D PAGE David W. M. Leung Laser-Assisted Microdissection in Proteomic Analyses Darrell L. Ellsworth, Stephen Russell, Brenda Deyarmin, Anthony G. Sullivan, Henry Brzeski, Richard I. Somiari, and Craig D. Shriver Purification of Cellular and Organelle Populations by Fluorescence-Activated Cell Sorting for Proteome Analysis William L. Godfrey, Colette J. Rudd, Sujata Iyer, and Diether Recktenwald Purification of Nucleoli From Lymphoma Cells and Solubilization of Nucleolar Proteins for 2-DE Separation Regis Dieckmann, Yohann Coute, Denis Hochstrasser, Jean-Jacques Diaz, and Jean-Charles Sanchez Prefractionation of Complex Protein Mixture for 2-D PAGE Using Reversed-Phase Liquid Chromatography Volker Badock and Albrecht Otto Fractionation of Complex Proteomes by Microscale Solution Isoelectrofocusing Using ZOOM(TM) IEF Fractionators to Improve Protein Profiling Xun Zuo, Ki-Boom Lee, and David W. Speicher Large-Format 2-D Polyacrylamide Gel Electrophoresis Henry Brzeski, Stephen Russell, Anthony G. Sullivan, Richard I. Somiari, and Craig D. Shiver Analysis of Membrane Proteins by Two-Dimensional Gels MichaelFountoulakis 2-D PAGE of High-Molecular-Mass Proteins Masamichi Oh-Ishi and Tadakazu Maeda Using Ultra-Zoom Gels for High-Resolution Two-Dimensional Polyacrylamide Gel Electrophoresis Sjouke Hoving, Hans Voshol, and Jan van Oostrum NEpHGE and pI Strip Proteomic 2-D Gel Electrophoretic Mapping of Lipid-Rich Membranes Steven E. Pfeiffer, Yoshihide Yamaguchi, Cecilia B. Marta, Rashmi Bansal, and Christopher M. Taylor Silver Staining of 2-D Gels Julia Poland, Thierry Rabilloud, and Pranav Sinha Zn2+ Reverse Staining Technique Carlos Fernandez-Patron Multiplexed Proteomics Technology for the Fluorescence Detection of Glycoprotein Levels and Protein Expression Levels Using Pro-Q(R) Emerald and SYPRO(R) Ruby Dyes Birte Schulenberg and Wayne F. Patton Multiplexed Proteomics Technology for the Fluorescence Detection of Phosphorylation and Protein Expression Levels Using Pro-Q(R) Diamond and SYPRO(R) Ruby Dyes Birte Schulenberg, Terrie Goodman, Thomas H. Steinberg, and Wayne F. Patton Sensitive Quantitative Fluorescence Detection of Proteins in Gels Using SYPRO(R) Ruby Protein Gel Stain Birte Schulenberg, Nancy Ahnert, and Wayne F. Patton Rapid, Sensitive Detection of Proteins in Minigels With Fluorescent Dyes: Coomassie Fluor Orange, SYPRO(R) Orange, SYPRO Red, and SYPRO Tangerine Protein Gel Stains Thomas H. Steinberg, Courtenay R. Hart, and Wayne F. Patton Differential In-Gel Electrophoresis in a High-Throughput Environment Richard I. Somiari, Stephen Russell, Stella B. Somiari, Anthony G. Sullivan, Darrell L. Ellsworth, Henry Brzeski, and Craig D. Shriver Statistical Analysis of 2-D Gel Patterns Francoise Seillier-Moiseiwitsch 2-DE Databases on the World Wide Web Christine Hoogland, Khaled Mostaguir, and Ron D. Appel Computer Analysis of 2-D Images Patricia M. Palagi,

The proteomics protocols handbook

An explanation for sum-rules observed in gas-surface scattering is offered via a classical scaling theory for inelastic collisions.

Sum rules in inelastic gas-surface scattering

We consider a heterogeneous ensemble of dynamical systems in R4 that individually are either attracted to fixed points (and are termed inactive) or to limit cycles (in which case they are termed active). These distinct states are separated by bifurcations that are controlled by a single parameter. Upon coupling them globally, we find a discontinuous transition to global inactivity (or stasis) when the proportion of inactive components in the ensemble exceeds a threshold: there is a first–order phase transition from a globally oscillatory state to global oscillation death. There is hysteresis associated with these phase transitions. Numerical results for a representative system are supported by analysis using a system-reduction technique and different dynamical regimes can be rationalised through the corresponding bifurcation diagrams of the reduced set of equations.

https://iopscience.iop.org/article/10.1088/2632-072X/ace1c4/pdf

Stasis in heterogeneous networks of coupled oscillators: discontinuous transition with hysteresis

Along with division of labour, and life-history complexities, a characteristic of eusocial insect societies is the greatly extended lifespan for queens The colony structure reduces the extrinsic mortality of the queen, and according to classical evolutionary theories of ageing, this greatly increases the lifespan We explore the relationship between the evolution of longevity and the evolution of eusociality by introducing age-structure into a previously proposed evolutionary model and also define an associated agent-based model A set of three population structures are defined: (i) solitary with all reproductive individuals, (ii) monogynous eusocial with a single queen, and (iii) polygynous eusocial, with multiple queens In order to compare the relative fitnesses, we compete all possible pairs of these strategies as well as all three together, analysing the effects of parameters such as the probability of progeny migration, group benefits, and extrinsic mortality on the evolution of long lifespans Simulations suggest that long lifespans appear to evolve only in eusocial populations, and further, that long lifespans enlarge the region of parameter space where eusociality evolves When all three population strategies compete, the agent-based simulations indicate that solitary strategies are largely confined to shorter lifespans For long lifespan strategies, the solitary behaviour results only for extreme (very low or very high) migration probability For median and small values of migration probability, the polygynous eusocial and monogynous eusocial strategies give advantage to the population respectively For a given migration probability, with an increase in lifespan, the dominant strategy changes from solitary to polygynous to monogynous eusociality The evolution of a long lifespan is thus closely linked to the evolution of eusociality, and our results are in accord with the observation that the breeding female in monogynous eusocial species has a longer lifespan than those in solitary or polygynous eusocial species

/pdf/modeling-long-lifespans-in-eusocial-insect-populations-3boysduykx.pdf

Modeling long lifespans in eusocial insect populations

The Jensen–Shannon divergence provides a quantitative entropic measure through which genomic DNA can be divided into compositionally distinct domains by a standard recursive segmentation procedure. In this article we show the scaling behaviour observed in domain length distribution and further explore the significance of these domains in the context of gene location, in application to the segmentation of a complete bacterial genome. We also show that this entropic measure has the potential of detecting the horizontally transferred genes in a genome.

https://iopscience.iop.org/article/10.1238/Physica.Topical.106a00021/pdf

Analysis of DNA Sequences through Segmentation: Exploring the Mosaic via Statistical Measures

When academic institutions in India closed abruptly in March 2020 due to the COVID-19 pandemic, formal education moved online. This transition had a very uneven impact given the significant digital divide between rural and urban India and the unequal distribution of digital resources in different institutions. Access to resources varied substantially by individual, based on socioeconomic factors as well as gender. Institutional support to the academic community during this critical period was largely inadequate, which has had serious consequences on the teaching of physics and other subjects that require laboratory instruction. Educational institutions also provide safe and enabling learning spaces for women students; reduced access to such facilities undermined the work- and study-related dynamics for women because of the scarcity of resources such as devices, data, and time. This paper reports on efforts made towards understanding such challenges during the COVID-19 pandemic and describes steps that were taken to address them.

Ramakrishna Ramaswamy

Papers

Sum rules in inelastic gas-surface scattering

Stasis in heterogeneous networks of coupled oscillators: discontinuous transition with hysteresis

Modeling long lifespans in eusocial insect populations

Analysis of DNA Sequences through Segmentation: Exploring the Mosaic via Statistical Measures

Response to the COVID-19 Pandemic: Physics Teaching in India