Computer-aided Melody Note Transcription Using the Tony Software: Accuracy and Efficiency

accepteddate-added: 2015-05-24 19:18:46 +0000 date-modified: 2017-12-28 10:36:36 +0000 keywords: Tony, melody, note, transcription, open source software bdsk-url-1: https://code.soundsoftware.ac.uk/attachments/download/1423/tony-paper_preprint.pdfdate-added: 2015-05-24 19:18:46 +0000 date-modified: 2017-12-28 10:36:36 +0000 keywords: Tony, melody, note, transcription, open source software bdsk-url-1: https://code.soundsoftware.ac.uk/attachments/download/1423/tony-paper_preprint.pdfWe present Tony, a software tool for the interactive an- notation of melodies from monophonic audio recordings, and evaluate its usability and the accuracy of its note extraction method. The scientific study of acoustic performances of melodies, whether sung or played, requires the accurate transcription of notes and pitches. To achieve the desired transcription accuracy for a particular application, researchers manually correct results obtained by automatic methods. Tony is an interactive tool directly aimed at making this correction task efficient. It provides (a) state-of-the art algorithms for pitch and note estimation, (b) visual and auditory feedback for easy error-spotting, (c) an intelligent graphical user interface through which the user can rapidly correct estimation errors, (d) extensive export functions enabling further processing in other applications. We show that Tony’s built in automatic note transcription method compares favourably with existing tools. We report how long it takes to annotate recordings on a set of 96 solo vocal recordings and study the effect of piece, the number of edits made and the annotator’s increasing mastery of the software. Tony is Open Source software, with source code and compiled binaries for Windows, Mac OS X and Linux available from https://code.soundsoftware.ac.uk/projects/tony/

Improving music genre classification using automatically induced harmony rules

We present a new genre classification framework using both low-level signal-based features and high-level harmony features. A state-of-the-art statistical genre classifier based on timbral features is extended using a first-order random forest containing for each genre rules derived from harmony or chord sequences. This random forest has been automatically induced, using the first-order logic induction algorithm TILDE, from a dataset, in which for each chord the degree and chord category are identified, and covering classical, jazz and pop genre classes. The audio descriptor-based genre classifier contains 206 features, covering spectral, temporal, energy, and pitch characteristics of the audio signal. The fusion of the harmony-based classifier with the extracted feature vectors is tested on three-genre subsets of the GTZAN and ISMIR04 datasets, which contain 300 and 448 recordings, respectively. Machine learning classifiers were tested using 5 × 5-fold cross-validation and feature selection. Results indicate that the proposed harmony-based rules combined with the timbral descriptor-based genre classification system lead to improved genre classification rates

Association between Antibodies to the MR 67,000 Isoform of Glutamate Decarboxylase (GAD) and Type 1 (Insulin-Dependent) Diabetes Mellitus with Coexisting Autoimmune Polyendocrine Syndrome Type II

By using an immunoprecipitation assay, we analysed reactivity of autoantibodies to human recombinant GAD65 and GAD67 in sera from patients with autoimmune polyendocrine syndrome Type II (APS II) with and without Type 1 (insulin-dependent) diabetes mellitus (IDDM) compared to patients with organ-specific autoimmunity. Overall antibodies to GAD65 were correlated with IDDM in all study groups, whereas GAD67 antibodies were associated with IDDM when APS II coexists. Antibodies to GAD65 and GAD67 were detected in 13 (44.8%) and 7 (24.1%) out of 29 APS II patients with IDDM, but in only 4 (13.8%) and 2 (6.9%) out of 29 APS II patients without IDDM, respectively (p < 0.05). In short-standing IDDM (< 1 year), antibodies to GAD67 were significantly more frequent in patients with APS II (5 of 9 [55.6%] subjects) compared to matched diabetic patients without coexisting polyendocrinopathy (1 of 18 [5.6%] subjects) (p < 0.02). The levels of GAD65 (142 ± 90 AU) and GAD67 antibodies (178 ± 95 AU) were significantly higher in patients with polyglandular disease than in patients with isolated IDDM (91 ± 85 AU and 93 ± 57 AU) (p < 0.02). Interestingly, all 11 GAD67 antibody positive subjects also had GAD65 antibodies (p < 0.0001), and in 10 of 11 anti-GAD67 positive sera the GAD67 antibodies could be blocked by either GAD67 or GAD65, suggesting the presence of cross-reactive autoantibodies. No correlation was observed between GAD antibodies and age, sex or any particular associated autoimmune disease, besides IDDM. GAD antibodies were present in only 1 of 6 (16.7%) patients with APS Type I, in 1 of 26 (3.9%) patients with autoimmune thyroid disease but in none of the patients with Addison's disease (n = 16), pernicious anaemia (n = 7) or normal controls (n = 50). Our data suggest distinct antibody specificities reactive to GAD isoforms in APS II and IDDM, which might reflect different mechanisms of autoimmune response in IDDM with coexisting autoimmune polyendocrine autoimmunity

A multi-scale modeling framework for individualized, spatiotemporal prediction of drug effects and toxicological risk

International audienceIn this study, we focus on a novel multi-scale modeling approach for spatiotemporal prediction of the distribution of substances and resulting hepatotoxicity by combining cellular models, a 2D liver model, and whole body model. As a case study, we focused on predicting human hepatotoxicity upon treatment with acetaminophen based on in vitro toxicity data and potential inter-individual variability in gene expression and enzyme activities. By aggregating mechanistic, genome-based in silico cells to a novel 2D liver model and eventually to a whole body model, we predicted pharmacokinetic properties, metabolism, and the onset of hepatotoxicity in an in silico patient. Depending on the concentration of acetaminophen in the liver and the accumulation of toxic metabolites, cell integrity in the liver as a function of space and time as well as changes in the elimination rate of substances were estimated. We show that the variations in elimination rates also influence the distribution of acetaminophen and its metabolites in the whole body. Our results are in agreement with experimental results. What is more, the integrated model also predicted variations in drug toxicity depending on alterations of metabolic enzyme activities. Variations in enzyme activity, in turn, reflect genetic characteristics or diseases of individuals. In conclusion, this framework presents an important basis for efficiently integrating inter-individual variability data into models, paving the way for personalized or stratified predictions of drug toxicity and efficacy

The X-ray warm absorber and nuclear obscuration in the Seyfert 1.8 galaxy ESO 113-G010

We present the first analysis of the X-ray warm absorber and nuclear obscuration in the Seyfert 1.8 galaxy ESO 113-G010. We used archival data from a 100 ks XMM-Newton observation made in 2005. From high resolution spectroscopy analysis of the RGS data, we detect absorption lines originating from a warm absorber consisting of two distinct phases of ionisation, with log xi ~ 3.2 and 2.3 respectively. The higher-ionised component has a larger column density and outflow velocity (N_H ~ 1.6 x 10^22 cm^-2, v ~ -1100 km/s) than the lower-ionised component (N_H ~ 0.5 x 10^22 cm^-2, v ~ -700 km/s). The shape of the optical-UV continuum and the large Balmer decrement (H_alpha/H_beta ~ 8) indicate significant amount of reddening is taking place in our line of sight in the host galaxy of the AGN; however, the X-ray spectrum is not absorbed by cold neutral gas intrinsic to the source. We discuss different explanations for this discrepancy between the reddening and the X-ray absorption, and suggest that the most likely solution is a dusty warm absorber. We show that dust can exist in the lower-ionised phase of the warm absorber, which causes the observed reddening of the optical-UV emission, whereas the X-rays remain unabsorbed due to lack of cold neutral gas in the ionised warm absorber. Furthermore, we have investigated the uncertainties in the construction of the Spectral Energy Distribution (SED) of this object due to obscuration of the nuclear source and the effects this has on the photoionisation modelling of the warm absorber. We show how the assumed SEDs influence the thermal stability of each phase and whether or not the two absorber phases in ESO 113-G010 can co-exist in pressure equilibrium.Comment: 11 pages, 5 figures, accepted for publication in Astronomy and Astrophysic

Loss of epidermal Evi/Wls results in a phenotype resembling psoriasiform dermatitis

Cells of the epidermis renew constantly from germinal layer stem cells. Although epithelial cell differentiation has been studied in great detail and the role of Wnt signaling in this process is well described, the contribution of epidermal Wnt secretion in epithelial cell homeostasis remains poorly understood. To analyze the role of Wnt proteins in this process, we created a conditional knockout allele of the Wnt cargo receptor Evi/Gpr177/Wntless and studied mice that lacked Evi expression in the epidermis. We found that K14-Cre, Evi-LOF mice lost their hair during the first hair cycle, showing a reddish skin with impaired skin barrier function. Expression profiling of mutant and wild-type skin revealed up-regulation of inflammation-associated genes. Furthermore, we found that Evi expression in psoriatic skin biopsies is down-regulated, suggesting that Evi-deficient mice developed skin lesions that resemble human psoriasis. Immune cell infiltration was detected in Evi-LOF skin. Interestingly, an age-dependent depletion of dendritic epidermal T cells (DETCs) and an infiltration of gammadelta(low) T cells in Evi mutant epidermis was observed. Collectively, the described inflammatory skin phenotype in Evi-deficient mice revealed an essential role of Wnt secretion in maintaining normal skin homeostasis by enabling a balanced epidermal-dermal cross talk, which affects immune cell recruitment and DETC survival

1.4 GHz polarimetric observations of the two fields imaged by the DASI experiment

We present results of polarization observations at 1.4 GHz of the two fields imaged by the DASI experiment ($\alpha = 23^{\rm h} 30^{\rm m}$, $\delta = -55^{\circ}$ and $\alpha = 00^{\rm h} 30^{\rm m}$, $\delta = -55^{\circ}$, respectively). Data were taken with the Australia Telescope Compact Array with 3.4 arcmin resolution and $\sim 0.18$ mJy beam$^{-1}$ sensitivity. The emission is dominated by point sources and we do not find evidence for diffuse synchrotron radiation even after source subtraction. This allows to estimate an upper limit of the diffuse polarized emission. The extrapolation to 30 GHz suggests that the synchrotron radiation is lower than the polarized signal measured by the DASI experiment by at least 2 orders of magnitude. This further supports the conclusions drawn by the DASI team itself about the negligible Galactic foreground contamination in their data set, improving by a factor $\sim 5$ the upper limit estimated by Leitch et al. (2005). The dominant point source emission allows us to estimate the contamination of the CMB by extragalactic foregrounds. We computed the power spectrum of their contribution and its extrapolation to 30 GHz provides a framework where the CMB signal should dominate. However, our results do not match the conclusions of the DASI team about the negligibility of point source contamination, suggesting to take into account a source subtraction from the DASI data.Comment: 7 pages, six figures, submitted to MNRA

Glassy timescale divergence and anomalous coarsening in a kinetically constrained spin chain

We analyse the out of equilibrium behavior of an Ising spin chain with an asymmetric kinetic constraint after a quench to a low temperature T. In the limit T\to 0, we provide an exact solution of the resulting coarsening process. The equilibration time exhibits a `glassy' divergence \teq=\exp(const/T^2) (popular as an alternative to the Vogel-Fulcher law), while the average domain length grows with a temperature dependent exponent, \dbar ~ t^{T\ln 2}. We show that the equilibration time \teq also sets the timescale for the linear response of the system at low temperatures.Comment: 4 pages, revtex, includes two eps figures. Proof of energy barrier hierarchy added. Version to be published in Phys Rev Let

MT1-MMP cleaves Dll1 to negatively regulate Notch signalling to maintain normal B-cell development

Notch signalling controls the differentiation of haematopoietic progenitor cells (HPCs). Here, we show that loss of membrane-type 1 matrix metalloproteinase (MT1-MMP, MMP14), a cell surface protease expressed in bone marrow stromal cells (BMSCs), increases Notch signalling in HPCs and specifically impairs B-lymphocyte development. When co-cultured with BMSCs in vitro, HPCs differentiation towards B lymphocytes is significantly compromised on MT1-MMP-deficient BMSCs and this defect could be completely rescued by DAPT, a specific Notch signalling inhibitor. The defective B-lymphocyte development could also be largely rescued by DAPT in vivo. MT1-MMP interacts with Notch ligand Delta-like 1 (Dll1) and promotes its cleavage on cell surface in BMSCs. Ectopic MT1-MMP cleaves Dll1 and results in diminished Notch signalling in co-cultured cells. In addition, recombinant MT1-MMP cleaves a synthetic Dll1 peptide at the same site where MT1-MMP cleaves Dll1 on the cell surface. Our data suggest that MT1-MMP directly cleaves Dll1 on BMSCs to negatively regulate Notch signalling to specifically maintain normal B-cell development in bone marrow. © 2011 European Molecular Biology Organization.postprin