695 research outputs found
Network Inference via the Time-Varying Graphical Lasso
Many important problems can be modeled as a system of interconnected
entities, where each entity is recording time-dependent observations or
measurements. In order to spot trends, detect anomalies, and interpret the
temporal dynamics of such data, it is essential to understand the relationships
between the different entities and how these relationships evolve over time. In
this paper, we introduce the time-varying graphical lasso (TVGL), a method of
inferring time-varying networks from raw time series data. We cast the problem
in terms of estimating a sparse time-varying inverse covariance matrix, which
reveals a dynamic network of interdependencies between the entities. Since
dynamic network inference is a computationally expensive task, we derive a
scalable message-passing algorithm based on the Alternating Direction Method of
Multipliers (ADMM) to solve this problem in an efficient way. We also discuss
several extensions, including a streaming algorithm to update the model and
incorporate new observations in real time. Finally, we evaluate our TVGL
algorithm on both real and synthetic datasets, obtaining interpretable results
and outperforming state-of-the-art baselines in terms of both accuracy and
scalability
The clonal composition of human CD4+CD25+Foxp3+ cells determined by a comprehensive DNA-based multiplex PCR for TCRB gene rearrangements
The characterization of the T-cell receptor (TCR) repertoire of CD4+ regulatory T cells (TR) have been limited due to the RNA degradation that results following permeabilization and fixation as routinely used for intracellular staining of Foxp3. In the present study the clonal composition of human umbilical cord blood (UCB) and adult peripheral blood mononuclear cells (PBMC) CD4+ TR and non-TR was characterized by a DNA-based multiplex PCR which allowed for the consistent clonotypic characterization of cells that have undergone fixation and permeabilization. To validate this method, CD8+ T cells from two HLA A*0201 individuals were sorted and compared clonotypically based upon their ability either to secrete interferon-γ in response to a CMV pp65 epitope or to bind to the corresponding pMHC I tetramer. In the UCB and PBMCs clonotypes shared between the CD4+CD25+Foxp3+ and CD4+CD25+Foxp3− was observed in all 3 UCB and in one adult PBMCs, suggesting that naïve and memory CD4+ TR can share the same clonotypes as CD4+ non-TR in humans
Amenability of algebras of approximable operators
We give a necessary and sufficient condition for amenability of the Banach
algebra of approximable operators on a Banach space. We further investigate the
relationship between amenability of this algebra and factorization of
operators, strengthening known results and developing new techniques to
determine whether or not a given Banach space carries an amenable algebra of
approximable operators. Using these techniques, we are able to show, among
other things, the non-amenability of the algebra of approximable operators on
Tsirelson's space.Comment: 20 pages, to appear in Israel Journal of Mathematic
ORB5: a global electromagnetic gyrokinetic code using the PIC approach in toroidal geometry
This paper presents the current state of the global gyrokinetic code ORB5 as
an update of the previous reference [Jolliet et al., Comp. Phys. Commun. 177
409 (2007)]. The ORB5 code solves the electromagnetic Vlasov-Maxwell system of
equations using a PIC scheme and also includes collisions and strong flows. The
code assumes multiple gyrokinetic ion species at all wavelengths for the
polarization density and drift-kinetic electrons. Variants of the physical
model can be selected for electrons such as assuming an adiabatic response or a
``hybrid'' model in which passing electrons are assumed adiabatic and trapped
electrons are drift-kinetic. A Fourier filter as well as various control
variates and noise reduction techniques enable simulations with good
signal-to-noise ratios at a limited numerical cost. They are completed with
different momentum and zonal flow-conserving heat sources allowing for
temperature-gradient and flux-driven simulations. The code, which runs on both
CPUs and GPUs, is well benchmarked against other similar codes and analytical
predictions, and shows good scalability up to thousands of nodes
A new framework for assessing the contributions of professionals in the natural sciences
No abstract available
Severe Aplastic Anemia and PNH
Severe aplastic anemia (SAA) is an autoimmune disorder (AID) due to the attack of autoreactive cytotoxic T lymphocytes to the hematopoietic component of the bone marrow
Aerosolized amikacin for treatment of pulmonary Mycobacterium avium infections: an observational case series
BACKGROUND: Current systemic therapy for nontuberculous mycobacterial pulmonary infection is limited by poor clinical response rates, drug toxicities and side effects. The addition of aerosolized amikacin to standard oral therapy for nontuberculous mycobacterial pulmonary infection may improve treatment efficacy without producing systemic toxicity. This study was undertaken to assess the safety, tolerability and preliminary clinical benefits of the addition of aerosolized amikacin to a standard macrolide-based oral treatment regimen. CASE PRESENTATIONS: Six HIV-negative patients with Mycobacterium avium intracellulare pulmonary infections who had failed standard therapy were administered aerosolized amikacin at 15 mg/kg daily in addition to standard multi-drug macrolide-based oral therapy. Patients were monitored clinically and serial sputum cultures were obtained to assess response to therapy. Symptomatic improvement with radiographic stabilization and eradication of mycobacterium from sputum were considered markers of success. Of the six patients treated with daily aerosolized amikacin, five responded to therapy. All of the responders achieved symptomatic improvement and four were sputum culture negative after 6 months of therapy. Two patients became re-infected with Mycobacterium avium intracellulare after 7 and 21 months of treatment. One of the responders who was initially diagnosed with Mycobacterium avium intracellulare became sputum culture positive for Mycobacterium chelonae resistant to amikacin after being on intermittent therapy for 4 years. One patient had progressive respiratory failure and died despite additional therapy. There was no evidence of nephrotoxicity or ototoxicity associated with therapy. CONCLUSION: Aerosolized delivery of amikacin is a promising adjunct to standard therapy for pulmonary nontuberculous mycobacterial infections. Larger prospective trials are needed to define its optimal role in therapy of this disease
Applying value chain analysis to informal sector recycling: A case study of the Zabaleen
Upfront haploidentical transplant for acquired severe aplastic anemia: registry-based comparison with matched related transplant
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