UNLABELLED Multiple sequence alignment is a frequently used technique for analyzing sequence relationships. Compilation of large alignments is computationally expensive, but processing time can be considerably reduced when the computational load is distributed over many processors. Parallel processing functionality in the form of single-instruction multiple-data (SIMD) technology was implemente...

PRofile ALIgNEment (PRALINE) is a fully customizable multiple sequence alignment application. In addition to a number of available alignment strategies, PRALINE can integrate information from database homology searches to generate a homology-extended multiple alignment. PRALINE also provides a choice of seven different secondary structure prediction programs that can be used individually or in ...

We introduce the online server for PRALINE (http://ibium.cs.vu.nl/programs/pralinewww/), an iterative versatile progressive multiple sequence alignment (MSA) tool. PRALINE provides various MSA optimisation strategies including weighted global and local profile pre-processing, secondary structure-guided alignment and a reliability measure for aligned individual residue positions. The latter can ...

This paper describes three weighting schemes for improving the accuracy of progressive multiple sequence alignment methods: (1) global profile pre-processing, to capture for each sequence information about other sequences in a profile before the actual multiple alignment takes place; (2) local pre-processing; which incorporates a new protocol to only use non-overlapping local sequence regions t...

Praline chocolate is a type of processed candy that has various kinds fillings, including types nuts and dried fruit. The development healthy food which encourages people to combine products, makes one the reasons for using tempeh from as stuffing ingredient in praline chocolate. aim study was obtain best combination cowpea, bean curd, red with concentration fungus (2%, 4%, 6%) produce peanut r...

We present PRALINE, which is the first tool to compute Nash equilibria in games played over graphs. We consider concurrent games: at each step, players choose their actions independently. There can be an arbitrary number of players. The preferences of the players are given by payoff functions that map states to integers, the goal for a player is then to maximize the limit superior of her payoff...

Abstract Praline chocolate usually contains soft fillings such as water-based filling from fruits. The interaction between water in and fat praline shell formulation is interesting to be studied. Water the may migrate thus influence quality. aim of study was physically investigate impact duration formation during manual tempering process on characteristics couverture filled with blueberry filli...

Abstract Praline is a type of chocolate with fat-based and water-based filling. This becoming more popular in Indonesia gaining intentions small-scale producers. In this study, couverture praline filling was produced using manual method. The aim study to investigate the best treatment create most stable shell filled carrageenan-based hydrogel. variables used duration formation (10, 15, 20 minut...

Elementary-level science exams pose significant knowledge acquisition and reasoning challenges for automatic question answering. We develop a system that reasons with knowledge derived from textbooks, represented in a subset of firstorder logic. Automatic extraction, while scalable, often results in knowledge that is incomplete and noisy, motivating use of reasoning mechanisms that handle uncer...

Our goal is to answer elementary-level science questions using knowledge extracted automatically from science textbooks, expressed in a subset of first-order logic. Given the incomplete and noisy nature of these automatically extracted rules, Markov Logic Networks (MLNs) seem a natural model to use, but the exact way of leveraging MLNs is by no means obvious. We investigate three ways of applyi...