MOTIVATION Large-scale rearrangements and copy number changes combined with different modes of clonal evolution create extensive somatic genome diversity, making it difficult to develop versatile and scalable variant calling tools and create well-calibrated benchmarks. RESULTS We developed a new simulation framework tHapMix that enables the creation of tumour samples with different ploidy, pu...

In this article we describe a method of translation from a deterministic Turing machine to an extended mH splicing system. The accuracy of this translation is proved by a theorem which shows that the only string present in single copy is a coding of a connguration of the simulated Turing machine. A simpler translation from a universal Turing machine with three tapes to an extended mH system is ...

the present paper discusses the priority of cognitive processes over language production of the speaker, based on mulla sadra’s philosophy of language. in this regard, the conditions of perceiving knowledge as well as the process of language production of the speaker are propounded. mulla sadra believes that knowledge is perceived through a process in which human soul is an active agent rather ...

In this paper the tracking performance of a transmit antenna weight adaptation algorithm applied in a fading channel is considered. The system uses a stochastic gradient algorithm incorporating gradient sign feedback from a receiving unit to adjust the transmit weights. The feedback is simply a bit indicating which of two normalized perturbed transmission weights delivers greater power to the r...

I examine the counterintuitive claim from Davis et.al. [1] that a stationary or receding galaxy in an expanding universe may exhibit blueshift, even when the universe contains no gravitating matter. I show that with more precise calculations the effect disappears for the empty universe. I also discuss how this is related to the currently popular idea of ‘expanding space’, looking at how this id...

Small volumes (100 mL) of acidic aqueous solutions with 30-200 mg L TOC of the toxic azo dye Acid Red 1 (AR1) have been comparatively treated by various electrochemical advanced oxidation processes (EAOPs). The electrolytic system consisted of a BDD anode able to produce OH and an air-diffusion cathode that generated H2O2, which subsequently reacted with added Fe to yield additional OH from Fen...

Ammonia-oxidizing archaea (AOA) are ubiquitous in various marine environments and play important roles in the global nitrogen and carbon cycles. We here present a high-quality draft genome sequence of an ammonia-oxidizing archaeon, "Candidatus Nitrosopumilus koreensis" AR1, which was found to dominate an ammonia-oxidizing enrichment culture in marine sediment off Svalbard, the Arctic Circle. De...