Ask, and shall you receive?: Understanding Desire Fulfillment in Natural Language Text

The ability to comprehend wishes or desires and their fulfillment is important to Natural Language Understanding. This paper introduces the task of identifying if a desire expressed by a subject in a given short piece of text was fulfilled. We propose various unstructured and structured models that capture fulfillment cues such as the subject's emotional state and actions. Our experiments with two different datasets demonstrate the importance of understanding the narrative and discourse structure to address this task

The unseen world: environmental microbial sequencing and identification methods for ecologists

Archaea, bacteria, microeukaryotes, and the viruses that infect them (collectively “microorganisms”) are foundational components of all ecosystems, inhabiting almost every imaginable environment and comprising the majority of the planet’s organismal and evolutionary diversity. Microorganisms play integral roles in ecosystem functioning; are important in the biogeochemical cycling of carbon (C), nitrogen (N), sulfur (S), phosphorus (P), and various metals (eg Barnard et al. 2005); and may be vital to ecosystem responses to large-scale climatic change (Mackelprang et al. 2011). Rarely found alone, microorganisms often form complex communities that are dynamic in space and time (Martiny et al. 2006). For these and other reasons, ecologists and environmental scientists have become increasingly interested in understanding microbial dynamics in ecosystems. Ecological studies of microbes in the environment generally focus on determining which organisms are present and what functional roles they are playing or could play. Rapid advances in molecular and bioinformatic approaches over the past decade have dramatically reduced the difficulty and cost of addressing such questions (Figure 1; WebTable 1). Yet the range of methodologies currently in use and the rapid pace of their ongoing development can be daunting for researchers unaccustomed to these technologies

Forensic SNP genotyping using nanopore MinION sequencing

One of the latest developments in next generation sequencing is the Oxford Nanopore Technologies' (ONT) MinION nanopore sequencer. We studied the applicability of this system to perform forensic genotyping of the forensic female DNA standard 9947 A using the 52 SNP-plex assay developed by the SNPforID consortium. All but one of the loci were correctly genotyped. Several SNP loci were identified as problematic for correct and robust genotyping using nanopore sequencing. All these loci contained homopolymers in the sequence flanking the forensic SNP and most of them were already reported as problematic in studies using other sequencing technologies. When these problematic loci are avoided, correct forensic genotyping using nanopore sequencing is technically feasible

The Molecular Analysis of Hawaiian Bird Diets

The aim of this project is to utilize high-throughput molecular methods to investigate the diets of three non-native and one native Hawaiian bird species. Next-generation sequencing (NGS) has made it possible to produce thousands of sequencing reads of DNA in a relatively short amount of time. This metabarcoding technology has been used to identify a range of different taxa, from bacteria in the human gut to fungi in the soil. More recently, this approach has been used to identify insects in the diets of birds and other species, including bees and bats. Samples underwent genomic sequencing using a targeted approach of the cytochrome oxidase I (COI) gene, a region that is present in all insects. DNA was extracted from bird feces and stomach contents using protocols designed for fecal material and a genomic region was amplified by polymerase chain reaction (PCR) using universal COI primers. The resulting amplified sequences were compared to an online reference database of millions of insect sequences for taxonomic identification. Data were analyzed for diet variation within and between each species of bird, as well as were compared to arthropods sampled from areas where these birds were observed foraging. The results showed there were a large variety of insects and spiders consumed by birds. There was overlap of insect order between the species of birds, but when diets were examined at a species level, bird species were preying on different insects

PCR-RFLP Using BseDI Enzyme for Pork Authentication in Sausage and Nugget Products

A polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) using BseDI restriction enzyme had been applied for identifying the presence of pork in processed meat (beef sausage and chicken nugget) including before and after frying. Pork sample in various levels (1%, 3%, 5%, 10%, and 25 %) was prepared in a mixture with beef and chicken meats and processed for sausage and nugget. The primers CYTb1 and CYTb2 were designed in the mitochondrial cytochrome b (cyt b) gene and PCR successfully amplified fragments of 359 bp. To distinguish existence of porcine species, the amplified PCR products of mitochondrial DNA were cut by BseDI restriction enzyme. The result showed pig mitochondrial DNA was cut into 131 and 228 bp fragments. The PCR-RFLP species identification assay yielded excellent results for identification of porcine species. It is a potentially reliable technique for pork detection in animal food processed products for Halal authentication

Hot fragmentation of nuclei

Today, we have a variety of reactions at hand that can be used to multi-fragment nuclei. In many of these reactions even several sources of fragments can be discerned and characterized. There is overwhelming evidence that these sources of fragments are hot. It is already less clear whether heat by itself is sufficient to initiate the fragment decay. What causes fragmentation, and when and how are the fragments (pre)formed? These questions have remained as much a challenge as the complementary class of questions to which they are related: What observations derive their significance from the liquid-gas phase behavior of extended nuclear matter? And, can we observe a phase transition in finite nuclei? Recent developments, largely coming from complex analyses of data sets measured in 4-pi-type experiments as well as from calculations based on advanced theoretical concepts, will be discussed.Comment: 13 pages, with 8 included figures; To appear in the proceedings of the NN 2000 conference; Also available from http://www-kp3.gsi.de/www/kp3/aladin_publications.htm