Magic state distillation in all prime dimensions using quantum Reed-Muller codes [PDF]
Phys. Rev. X 2, 041021 (2012), 2012 We propose families of protocols for magic state distillation -- important components of fault tolerance schemes --- for systems of odd prime dimension. Our protocols utilize quantum Reed-Muller codes with transversal non-Clifford gates. We find that, in higher dimensions, small and effective codes can be used that have no direct analogue in qubit (two-
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Comparative analysis of transposed element insertion within human and mouse genomes reveals Alu's unique role in shaping the human transcriptome [PDF]
Genome Biology 2007, 8:R127, 2008 Background: Transposed elements (TEs) have a substantial impact on mammalian evolution and are involved in numerous genetic diseases. We compared the impact of TEs on the human transcriptome and the mouse transcriptome. Results: We compiled a dataset of all TEs in the human and mouse genomes, identifying 3,932,058 and 3,122,416 TEs, respectively.
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Gene Regulation by Riboswitches with and without Negative Feedback Loop [PDF]
, 2012 Riboswitches, structured elements in the untranslated regions of messenger RNAs, regulate gene expression by binding specific metabolites. We introduce a kinetic network model that describes the functions of riboswitches at the systems level. Using experimental data for flavin mono nucleotide riboswitch as a guide we show that efficient function ...
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Synonymous mutations reduce genome compactness in icosahedral ssRNA viruses [PDF]
, 2014 Recent studies have shown that single-stranded viral RNAs fold into more compact structures than random RNA sequences with similar chemical composition and identical length. Based on this comparison it has been suggested that wild-type viral RNA may have evolved to be atypically compact so as to aid its encapsidation and assist the viral assembly ...
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A fresh look at diffractive $J/ψ$ photoproduction at HERA, with predictions for THERA [PDF]
JHEP 0103:045,2001, 2000 We quantify perturbative and non-perturbative QCD effects in the exclusive $J/\psi$-photoproduction cross section, and in the shrinkage of the differential cross section with respect to momentum transfer, $t$. We predict that in the high energy THERA region there will always be a significant contribution to this process that rises quickly with energy ...
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High-resolution spectroscopy of He$_2^+$ using Rydberg-series extrapolation and Zeeman-decelerated supersonic beams of metastable He$_2$ [PDF]
J. Mol. Spectrosc. 322, 9-17 (2016), 2017 Recently, high-resolution spectroscopy of slow beams of metastable helium molecules (He$_2^*$) generated by multistage Zeeman deceleration was used in combination with Rydberg-series extrapolation techniques to obtain the lowest rotational interval in the molecular helium ion at a precision of 18 MHz [Jansen et al. Phys. Rev. Lett.
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The Bulk and The Tail of Minimal Absent Words in Genome Sequences [PDF]
, 2015 Minimal absent words (MAW) of a genomic sequence are subsequences that are absent themselves but the subwords of which are all present in the sequence. The characteristic distribution of genomic MAWs as a function of their length has been observed to be qualitatively similar for all living organisms, the bulk being rather short, and only relatively few
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Human housekeeping genes are compact [PDF]
Trends in Genetics, vol. 19, 362-365 (2003), 2003 We identify a set of 575 human genes that are expressed in all conditions tested in a publicly available database of microarray results. Based on this common occurrence, the set is expected to be rich in "housekeeping" genes, showing constitutive expression in all tissues.
arxiv
Identification of candidate regulatory sequences in mammalian 3' UTRs by statistical analysis of oligonucleotide distributions [PDF]
BMC Bioinformatics. 2007 May 24;8:174. PMID: 17524134, 2007 3' untranslated regions (3' UTRs) contain binding sites for many regulatory elements, and in particular for microRNAs (miRNAs). The importance of miRNA-mediated post-transcriptional regulation has become increasingly clear in the last few years. We propose two complementary approaches to the statistical analysis of oligonucleotide frequencies in ...
arxiv
All unitary perfect polynomials over $F_2$ with less than five distinct prime factors [PDF]
arXiv, 2010 We find all unitary perfect polynomials over the prime field $\F_2$ with less than five distinct prime factors.
arxiv