6,019 research outputs found
Audiomobiles, Sculptures and Conundrums
No full textRoberto Gerhard was a pioneer of electronic music in England creating a number of substantial concert, theatre and radio works from as early as 1954. Gerhard’s electronic music is one of the richest repositories for understanding the development of the composer’s late compositional technique. Apart from the Symphony no.3, ‘Collages’, none of Gerhard’s electronic music is published. This paper will discuss aspects of Gerhard’s electronic music, focusing on Audiomobiles (1958-59) and Sculptures (1963)
RegnANN: Reverse Engineering Gene Networks using Artificial Neural Networks.
No full textRegnANN is a novel method for reverse engineering gene networks based on an ensemble of multilayer perceptrons. The algorithm builds a regressor for each gene in the network, estimating its neighborhood independently. The overall network is obtained by joining all the neighborhoods. RegnANN makes no assumptions about the nature of the relationships between the variables, potentially capturing high-order and non linear dependencies between expression patterns. The evaluation focuses on synthetic data mimicking plausible submodules of larger networks and on biological data consisting of submodules of Escherichia coli. We consider Barabasi and Erdös-Rényi topologies together with two methods for data generation. We verify the effect of factors such as network size and amount of data to the accuracy of the inference algorithm. The accuracy scores obtained with RegnANN is methodically compared with the performance of three reference algorithms: ARACNE, CLR and KELLER. Our evaluation indicates that RegnANN compares favorably with the inference methods tested. The robustness of RegnANN, its ability to discover second order correlations and the agreement between results obtained with this new methods on both synthetic and biological data are promising and they stimulate its application to a wider range of problems
Algebraic comparison of partial lists in bioinformatics.
No full textThe outcome of a functional genomics pipeline is usually a partial list of genomic features, ranked by their relevance in modelling biological phenotype in terms of a classification or regression model. Due to resampling protocols or to a meta-analysis comparison, it is often the case that sets of alternative feature lists (possibly of different lengths) are obtained, instead of just one list. Here we introduce a method, based on permutations, for studying the variability between lists ("list stability") in the case of lists of unequal length. We provide algorithms evaluating stability for lists embedded in the full feature set or just limited to the features occurring in the partial lists. The method is demonstrated by finding and comparing gene profiles on a large prostate cancer dataset, consisting of two cohorts of patients from different countries, for a total of 455 samples
The interplay between individual social behavior and clinical symptoms in small clustered groups
No full textAbstract Background Mixing patterns of human populations play a crucial role in shaping the spreading paths of infectious diseases. The diffusion of mobile and wearable devices able to record close proximity interactions represents a great opportunity for gathering detailed data on social interactions and mixing patterns in human populations. The aim of this study is to investigate how social interactions are affected by the onset of symptomatic conditions and to what extent the heterogeneity in human behavior can reflect a different risk of infection. Methods We study the relation between individuals’ social behavior and the onset of different symptoms, by making use of data collected in 2009 among students sharing a dormitory in a North America university campus. The dataset combines Bluetooth proximity records between study participants with self-reported daily records on their health state. Specifically, we investigate whether individuals’ social activity significantly changes during different symptomatic conditions, including those defining Influenza-like illness, and highlight to what extent possible heterogeneities in social behaviors among individuals with similar age and daily routines may be responsible for a different risk of infection for influenza. Results Our results suggest that symptoms associated with Influenza-like illness can be responsible of a reduction of about 40% in the average duration of contacts and of 30% in the daily time spent in social interactions, possibly driven by the onset of fever. However, differences in the number of daily contacts were found to be not statistically significant. In addition, we found that individuals who experienced clinical influenza during the study period were characterized by a significantly higher social activity. In particular, both the number of person-to-person contacts and the time spent in social interactions emerged as significant risk factors for influenza infection. Conclusions Our findings highlight that Influenza-like illness can remarkably reduce the social activity of individuals and strengthen the idea that the heterogeneity in social habits among individuals can significantly contribute in shaping differences among the individuals’ risk of infection
Roberto Gerhard’s Sound Compositions: A Historical-Philological Perspective. Archive, Process, Intent and reenactment
No full textThis research advances the current state of knowledge in the field of early tape music both empirically and methodologically. The purpose of this study is to evaluate the impact that the electronic medium exerted in the musical thinking of Roberto Gerhard, one of the most outspoken, prolific and influential composers in the Spanish diaspora whose musical legacy, for the most part unknown, is a major landmark in the early history of electroacoustic music. Gerhard’s personal tape collection, one of the largest historical archives of its kind reported in the literature, is exceptional for both its antiquity (50+-year-old tapes) and its abundance of production materials. Through the digitisation and analysis of the composer’s tape collection this research argues that the empirical study of audio documents sets out a basis for a broader understanding of textual processes. More specifically, the research demonstrates that the reconstruction of works based on magnetic tape sketches is a powerful method to advance the understanding of early tape music. This research also examines Gerhard’s sound compositions in relation to the post-war context in which they were composed. Finally, this research presents performance documentation that proposes an approach to the electroacoustic music repertoire in which creativity is not at odds with rigor and critical discernment demonstrating that archival study can be closely aligned to the concept of re-enactment
The HIM glocal metric and kernel for network comparison and classification
No full textComparing and classifying graphs represent two essential steps for network analysis, across different scientific and applicative domains. Here we deal with both operations by introducing the Hamming-Ipsen-Mikhailov (HIM) distance, a novel metric to quantitatively measure the difference between two graphs sharing the same vertices. The new measure combines the local Hamming edit distance and the global Ipsen-Mikhailov spectral distance so to overcome the drawbacks affecting the two components when considered separately. Building the kernel function derived from the HIM distance makes possible to move from network comparison to network classification via the Support Vector Machine (SVM) algorithm. Applications of HIM-based methods on synthetic dynamical networks as well as in trade economy and diplomacy datasets demonstrate the effectiveness of HIM as a general purpose solution. An Open Source implementation is provided by the R package nettools, (already configured for High Performance Computing) and the Django-Celery web interface ReNette http://renette.fbk.eu.
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DTW-MIC Coexpression Networks from Time-Course Data.
No full textWhen modeling coexpression networks from high-throughput time course data, Pearson Correlation Coefficient (PCC) is one of the most effective and popular similarity functions. However, its reliability is limited since it cannot capture non-linear interactions and time shifts. Here we propose to overcome these two issues by employing a novel similarity function, Dynamic Time Warping Maximal Information Coefficient (DTW-MIC), combining a measure taking care of functional interactions of signals (MIC) and a measure identifying time lag (DTW). By using the Hamming-Ipsen-Mikhailov (HIM) metric to quantify network differences, the effectiveness of the DTW-MIC approach is demonstrated on a set of four synthetic and one transcriptomic datasets, also in comparison to TimeDelay ARACNE and Transfer Entropy
DGW: an exploratory data analysis tool for clustering and visualisation of epigenomic marks
No full textFunctional genomic and epigenomic research relies fundamentally on sequencing based methods like ChIP-seq for the detection of DNA-protein interactions. These techniques return large, high dimensional data sets with visually complex structures, such as multi-modal peaks extended over large genomic regions. Current tools for visualisation and data exploration represent and leverage these complex features only to a limited extend. We present DGW, an open source software package for simultaneous alignment and clustering of multiple epigenomic marks. DGW uses Dynamic Time Warping to adaptively rescale and align genomic distances which allows to group regions of interest with similar shapes, thereby capturing the structure of epigenomic marks. We demonstrate the e↵ectiveness of the approach in a simulation study and on a real epigenomic data set from the ENCODE project. Our results show that DGW automatically recognises and aligns important genomic features such as transcription start sites and splicing sites from histone marks. DGW is available as an open source Python package at https://lukauskas.github.com/dgw/
Filologia editoriale, Roberto Calasso in dialogo con Paola Italia e Francisco Rico
No full textPaola Italia e Francisco Rico intervengono sul libro di Roberto Calasso, presidente e fondatore di Adelphi Edizioni, L'impronta dell'editore, e discutono di problemi di filologia delle forme editoriali, dal punto di vista dell'autore, del lettore e dell'editore.Paola Italia and Francisco Ricos interview Roberto Calasso, Publisher, Writer, and Founder of Adelphi Edizioni, about his book: L'impronta dell'editore, talking about philology, publishing and editing, from the author, the reader and the publisher's point of view
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