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Search Results: 1 - 10 of 2198 matches for " Kaustuv Banerjee "
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How Do Microbial Pathogens Make CENs?
Kaustuv Sanyal
PLOS Pathogens , 2012, DOI: 10.1371/journal.ppat.1002463
A Sunyaev-Zel'dovich take on cluster radio haloes -- I. Global scaling and bi-modality using Planck data
Kaustuv Basu
Physics , 2011, DOI: 10.1111/j.1745-3933.2012.01217.x
Abstract: Giant radio haloes in galaxy clusters are the primary evidence for the existence of relativistic particles (cosmic rays) and magnetic fields over Mpc scales. Observational tests for the different theoretical models explaining their powering mechanism have so far been obtained through X-ray selection of clusters, e.g. by comparing cluster X-ray luminosities with radio halo power. Here we present the first global scaling relations between radio halo power and integrated Sunyaev-Zel'dovich (SZ) effect measurements, using the Planck all-sky cluster catalog and published radio data. The correlation agrees well with previous scaling measurements based on X-ray data, and offers a more direct probe into the mass dependence inside radio haloes. However, we find no strong indication for a bi-modal cluster population split between radio halo and radio quiet objects. We discuss the possible causes for this apparent lack of bi-modality, and compare the observed slope of the radio-SZ correlation with competing theoretical models of radio halo origin.
Some results on the radio-SZ correlation for galaxy cluster radio halos
Kaustuv Basu
Physics , 2012, DOI: 10.1002/asna.201211855
Abstract: We present correlation results for the radio halo power in galaxy clusters with the integrated thermal Sunyaev-Zel'dovich (SZ) effect signal, including new results obtained at sub-GHz frequencies. The radio data is compiled from several published works, and the SZ measurements are taken from the Planck ESZ cluster catalog. The tight correlation between the radio halo power and the SZ effect demonstrates a clear correspondence between the thermal and non-thermal electron populations in the intra-cluster medium, as already has been shown in X-ray based studies. The radio power varies roughly as the square of the global SZ signal, but when the SZ signal is scaled to within the radio halo radius the correlation becomes approximately linear, with reduced intrinsic scatter. We do not find any strong indication of a bi-modal division in the radio halo cluster population, as has been reported in the literature, which suggests that such duality could be an artifact of X-ray selection. We compare the SZ signal dependence of radio halos with simplified predictions from theoretical models, and discuss some implications and shortcomings of the present work.
Classical and Intuitionistic Subexponential Logics are Equally Expressive
Kaustuv Chaudhuri
Computer Science , 2010,
Abstract: It is standard to regard the intuitionistic restriction of a classical logic as increasing the expressivity of the logic because the classical logic can be adequately represented in the intuitionistic logic by double-negation, while the other direction has no truth-preserving propositional encodings. We show here that subexponential logic, which is a family of substructural refinements of classical logic, each parametric over a preorder over the subexponential connectives, does not suffer from this asymmetry if the preorder is systematically modified as part of the encoding. Precisely, we show a bijection between synthetic (i.e., focused) partial sequent derivations modulo a given encoding. Particular instances of our encoding for particular subexponential preorders give rise to both known and novel adequacy theorems for substructural logics.
Undecidability of Multiplicative Subexponential Logic
Kaustuv Chaudhuri
Computer Science , 2015, DOI: 10.4204/EPTCS.176.1
Abstract: Subexponential logic is a variant of linear logic with a family of exponential connectives—called subexponentials—that are indexed and arranged in a pre-order. Each subexponential has or lacks associated structural properties of weakening and contraction. We show that classical propositional multiplicative linear logic extended with one unrestricted and two incomparable linear subexponentials can encode the halting problem for two register Minsky machines, and is hence undecidable.
Enhanced Delivery and Potency of Self-Amplifying mRNA Vaccines by Electroporation in Situ
Yen Cu,Kate E. Broderick,Kaustuv Banerjee,Julie Hickman,Gillis Otten,Susan Barnett,Gleb Kichaev,Niranjan Y. Sardesai,Jeffrey B. Ulmer,Andrew Geall
Vaccines , 2013, DOI: 10.3390/vaccines1030367
Abstract: Nucleic acid-based vaccines such as viral vectors, plasmid DNA (pDNA), and mRNA are being developed as a means to address limitations of both live-attenuated and subunit vaccines. DNA vaccines have been shown to be potent in a wide variety of animal species and several products are now licensed for commercial veterinary but not human use. Electroporation delivery technologies have been shown to improve the generation of T and B cell responses from synthetic DNA vaccines in many animal species and now in humans. However, parallel RNA approaches have lagged due to potential issues of potency and production. Many of the obstacles to mRNA vaccine development have recently been addressed, resulting in a revival in the use of non-amplifying and self-amplifying mRNA for vaccine and gene therapy applications. In this paper, we explore the utility of EP for the in vivo delivery of large, self-amplifying mRNA, as measured by reporter gene expression and immunogenicity of genes encoding HIV envelope protein. These studies demonstrated that EP delivery of self-amplifying mRNA elicited strong and broad immune responses in mice, which were comparable to those induced by EP delivery of pDNA.
A Coordinated Interdependent Protein Circuitry Stabilizes the Kinetochore Ensemble to Protect CENP-A in the Human Pathogenic Yeast Candida albicans
Jitendra Thakur,Kaustuv Sanyal
PLOS Genetics , 2012, DOI: 10.1371/journal.pgen.1002661
Abstract: Unlike most eukaryotes, a kinetochore is fully assembled early in the cell cycle in budding yeasts Saccharomyces cerevisiae and Candida albicans. These kinetochores are clustered together throughout the cell cycle. Kinetochore assembly on point centromeres of S. cerevisiae is considered to be a step-wise process that initiates with binding of inner kinetochore proteins on specific centromere DNA sequence motifs. In contrast, kinetochore formation in C. albicans, that carries regional centromeres of 3–5 kb long, has been shown to be a sequence independent but an epigenetically regulated event. In this study, we investigated the process of kinetochore assembly/disassembly in C. albicans. Localization dependence of various kinetochore proteins studied by confocal microscopy and chromatin immunoprecipitation (ChIP) assays revealed that assembly of a kinetochore is a highly coordinated and interdependent event. Partial depletion of an essential kinetochore protein affects integrity of the kinetochore cluster. Further protein depletion results in complete collapse of the kinetochore architecture. In addition, GFP-tagged kinetochore proteins confirmed similar time-dependent disintegration upon gradual depletion of an outer kinetochore protein (Dam1). The loss of integrity of a kinetochore formed on centromeric chromatin was demonstrated by reduced binding of CENP-A and CENP-C at the centromeres. Most strikingly, Western blot analysis revealed that gradual depletion of any of these essential kinetochore proteins results in concomitant reduction in cellular protein levels of CENP-A. We further demonstrated that centromere bound CENP-A is protected from the proteosomal mediated degradation. Based on these results, we propose that a coordinated interdependent circuitry of several evolutionarily conserved essential kinetochore proteins ensures integrity of a kinetochore formed on the foundation of CENP-A containing centromeric chromatin.
Proceedings Tenth International Workshop on Logical Frameworks and Meta Languages: Theory and Practice
Iliano Cervesato,Kaustuv Chaudhuri
Computer Science , 2015, DOI: 10.4204/EPTCS.185
Abstract: This volume constitutes the proceedings of LFMTP 2015, the Tenth International Workshop on Logical Frameworks and Meta-Languages: Theory and Practice, held on August 1st, 2015 in Berlin, Germany. The workshop was a one-day satellite event of CADE-25, the 25th International Conference on Automated Deduction. Logical frameworks and meta-languages form a common substrate for representing, implementing, and reasoning about a wide variety of deductive systems of interest in logic and computer science. Their design and implementation and their use in reasoning tasks ranging from the correctness of software to the properties of formal computational systems have been the focus of considerable research over the last two decades. This workshop brought together designers, implementors, and practitioners to discuss various aspects impinging on the structure and utility of logical frameworks, including the treatment of variable binding, inductive and co-inductive reasoning techniques and the expressiveness and lucidity of the reasoning process.
A Hybrid Linear Logic for Constrained Transition Systems with Applications to Molecular Biology
Kaustuv Chaudhuri,Joelle Despeyroux
Computer Science , 2013,
Abstract: Linear implication can represent state transitions, but real transition systems operate under temporal, stochastic or probabilistic constraints that are not directly representable in ordinary linear logic. We propose a general modal extension of intuitionistic linear logic where logical truth is indexed by constraints and hybrid connectives combine constraint reasoning with logical reasoning. The logic has a focused cut-free sequent calculus that can be used to internalize the rules of particular constrained transition systems; we illustrate this with an adequate encoding of the synchronous stochastic pi-calculus. We also present some preliminary experiments of direct encoding of biological systems in the logic.
HIV-1 gp120 Mannoses Induce Immunosuppressive Responses from Dendritic Cells
Meimei Shan,Per Johan Klasse,Kaustuv Banerjee,Antu K Dey,Sai Prasad N Iyer,Robert Dionisio,Dustin Charles,Lila Campbell-Gardener,William C Olson,Rogier W Sanders,John P Moore
PLOS Pathogens , 2007, DOI: 10.1371/journal.ppat.0030169
Abstract: The human immunodeficiency virus type 1 (HIV-1) envelope glycoprotein gp120 is a vaccine immunogen that can signal via several cell surface receptors. To investigate whether receptor biology could influence immune responses to gp120, we studied its interaction with human, monocyte-derived dendritic cells (MDDCs) in vitro. Gp120 from the HIV-1 strain JR-FL induced IL-10 expression in MDDCs from 62% of donors, via a mannose C-type lectin receptor(s) (MCLR). Gp120 from the strain LAI was also an IL-10 inducer, but gp120 from the strain KNH1144 was not. The mannose-binding protein cyanovirin-N, the 2G12 mAb to a mannose-dependent gp120 epitope, and MCLR-specific mAbs inhibited IL-10 expression, as did enzymatic removal of gp120 mannose moieties, whereas inhibitors of signaling via CD4, CCR5, or CXCR4 were ineffective. Gp120-stimulated IL-10 production correlated with DC-SIGN expression on the cells, and involved the ERK signaling pathway. Gp120-treated MDDCs also responded poorly to maturation stimuli by up-regulating activation markers inefficiently and stimulating allogeneic T cell proliferation only weakly. These adverse reactions to gp120 were MCLR-dependent but independent of IL-10 production. Since such mechanisms might suppress immune responses to Env-containing vaccines, demannosylation may be a way to improve the immunogenicity of gp120 or gp140 proteins.
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