Tunepal: Searching a Digital Library of Traditional Music Scores

Purpose – This paper aims to describe the Tunepal project as an example of a music information retrieval (MIR) system that is having an impact on how musicians access, learn and play traditional Irish music around the world. Design/methodology/approach – This paper describes the functionality of the Tunepal system: consisting of the tune corpus, the web site tunepal.org and mobile apps supporting iOS and Android OS. Tunepal facilitates query-by-title and query-by-playing music (QBP) searches and allows a musician to retrieve and playback scores amongst other supported functions. Findings – Tunepal has been favorably received and musicians report that the system is being used in a variety of scenarios including archiving and the preparation of sleeve notes for commercial recordings. Tunepal has a growing user base in 25 countries. Originality/value – The comprehensive tune corpus (over 16,000 compositions), the query-by-playing technology and the fact that the mobile apps provide access to the corpus in situ in traditional music sessions and classes make this project uniquely useful

A system for automatically annotating traditional Irish music field recordings

This paper presents MATT2 (Machine Annotation of Traditional Tunes). MATT2 is a novel system which can automatically annotate field recordings of traditional Irish music with useful metadata such as tune name, key signature, time signature, composer and discography. MATT2 works by using a number of algorithms to automatically transcribe digital audio to be annotated to the ABC music notation language. It then compares these transcriptions against a corpus of 860 human made transcriptions in ABC using a variation of the edit distance algorithm. Results using MATT2 to annotate fifty recordings of flute and fiddle tunes demonstrate a high success rate at annotating recordings made by different musicians. Additionally, several of the recordings successfully annotated in testing MATT2 were recorded in imperfect conditions, with badly degraded audio

Genetic improvement of skeletal architecture and locomotion in domestic poultry

Breeding success in the broiler chicken has been accompanied by gait problems which are detrimental to productivity and welfare. Although these gait issues have not been reported to the same extent in Pekin ducks, there is concern that such problems will manifest if the duck continues on its current selection trajectory. In order to understand how changes in morphology due to selection have affected gait in both species, divergent lines were objectively assessed for gait using a pressure platform (12 birds per line at three, five and seven weeks of age). The broiler chicken was compared to the slower growing layer chicken and the Pekin duck to its slower growing ancestor, the mallard. Two breeding lines of Pekin duck were also assessed. After gait assessment, the leg bones (femur and tibiotarsus) were scanned by computed tomography to measure morphological changes which have occurred due to selection for high growth and meat yield. Results were analysed by ANOVA, accounting for age and sex. During walking, heavy lines walked at a slower velocity, displayed a wider stance and spent more time supporting their mass on both feet than their lighter conspecifics, strategies which are likely to improve balance. The foot angle while walking differed between lines; all duck lines rotated their feet internally whereas the layer chickens’ feet were aligned with the direction of travel. Conversely the broiler chicken rotated its feet externally by seven weeks of age. Morphologically, the main differences were between species. Duck lines reached adult leg size earlier than chickens, which may be a response to differing adaptive environments prior to domestication. This early cessation of bone growth in ducks may provide more opportunity for the bones to remodel to handle the loads imposed on them. Lower levels of porosity and a unique cortical architecture observed in ducks endow relatively greater bone strength. Bone curvature also differed between species; the tibiotarsus curved more laterally in ducks than in chickens and may be a swimming adaptation that hinders locomotion on land in the modern production bird. In order to improve the objectivity of selection for better gait in poultry, the genetic parameters of gait components selected on the basis of results in this thesis were estimated using a linear mixed model in a population of Pekin ducks of known pedigree. As they are a simpler measure, similar or improved heritability estimates were estimated for these gait components when compared with the standard commercial gait score which is based on a subjective view of walking ability. Intense selection for economic traits has altered gait in similar ways in both species. To improve gait in poultry, greater breeding success may be achieved by focussing on those components of gait which have changed through selection, rather than using a subjective overall visual gait score. Furthermore, in both species, adaptations for pre-domesticated life may have affected the ability with which the selected lines have accommodated their gait to other morphological changes associated with increasing body mass

Identification of a 3-Alkylpyridinium Compound from the Red Sea Sponge Amphimedon chloros with In Vitro Inhibitory Activity against the West Nile Virus NS3 Protease.

Viruses are underrepresented as targets in pharmacological screening efforts, given the difficulties of devising suitable cell-based and biochemical assays. In this study we found that a pre-fractionated organic extract of the Red Sea sponge Amphimedon chloros was able to inhibit the West Nile Virus NS3 protease (WNV NS3). Using liquid chromatography⁻mass spectrometry (LC-MS) and nuclear magnetic resonance (NMR) spectroscopy, the identity of the bioactive compound was determined as a 3-alkylpyridinium with m/z = 190.16. Diffusion Ordered Spectroscopy (DOSY) NMR and NMR relaxation rate analysis suggest that the bioactive compound forms oligomers of up to 35 kDa. We observed that at 9.4 μg/mL there was up to 40⁻70% inhibitory activity on WNV NS3 protease in orthogonal biochemical assays for solid phase extracts (SPE) of A. chloros. However, the LC-MS purified fragment was effective at inhibiting the protease up to 95% at an approximate amount of 2 µg/mL with negligible cytotoxicity to HeLa cells based on a High-Content Screening (HCS) cytological profiling strategy. To date, 3-alkylpyridinium type natural products have not been reported to show antiviral activity since the first characterization of halitoxin, or 3-alkylpyridinium, in 1978. This study provides the first account of a 3-alkylpyridinium complex that exhibits a proposed antiviral activity by inhibiting the NS3 protease. We suggest that the here-described compound can be further modified to increase its stability and tested in a cell-based assay to explore its full potential as a potential novel antiviral capable of inhibiting WNV replication

Digitizing mass spectrometry data to explore the chemical diversity and distribution of marine cyanobacteria and algae.

Natural product screening programs have uncovered molecules from diverse natural sources with various biological activities and unique structures. However, much is yet underexplored and additional information is hidden in these exceptional collections. We applied untargeted mass spectrometry approaches to capture the chemical space and dispersal patterns of metabolites from an in-house library of marine cyanobacterial and algal collections. Remarkably, 86% of the metabolomics signals detected were not found in other available datasets of similar nature, supporting the hypothesis that marine cyanobacteria and algae possess distinctive metabolomes. The data were plotted onto a world map representing eight major sampling sites, and revealed potential geographic locations with high chemical diversity. We demonstrate the use of these inventories as a tool to explore the diversity and distribution of natural products. Finally, we utilized this tool to guide the isolation of a new cyclic lipopeptide, yuvalamide A, from a marine cyanobacterium