Role of "intrinsic charm" in semileptonic B-meson decays

We discuss the role of so-called "intrinsic-charm" operators in semi-leptonic B-meson decays, which appear first at order 1/m_b^3 in the heavy quark expansion. We show by explicit calculation that -- at scales mu <= m_c -- the contributions from "intrinsic-charm" effects can be absorbed into short-distance coefficient functions multiplying, for instance, the Darwin term. Then, the only remnant of "intrinsic charm" are logarithms of the form ln(m_c^2/m_b^2), which can be resummed by using renormalization-group techniques. As long as the dynamics at the charm-quark scale is perturbative, alpha_s(m_c) << 1, this implies that no additional non-perturbative matrix elements aside from the Darwin and the spin-orbit term have to be introduced at order 1/m_b^3. Hence, no sources for additional hadronic uncertainties have to be taken into account. Similar arguments may be made for higher orders in the 1/m_b expansion.We discuss the role of so-called 'intrinsic-charm' operators in semi-leptonic B-meson decays, which appear first at order 1/m_b^3 in the heavy quark expansion. We show by explicit calculation that -- at scales mu <= m_c -- the contributions from 'intrinsic-charm' effects can be absorbed into short-distance coefficient functions multiplying, for instance, the Darwin term. Then, the only remnant of 'intrinsic charm' are logarithms of the form ln(m_c^2/m_b^2), which can be resummed by using renormalization-group techniques. As long as the dynamics at the charm-quark scale is perturbative, alpha_s(m_c) << 1, this implies that no additional non-perturbative matrix elements aside from the Darwin and the spin-orbit term have to be introduced at order 1/m_b^3. Hence, no sources for additional hadronic uncertainties have to be taken into account. Similar arguments may be made for higher orders in the 1/m_b expansion

Constraining CP violation in neutral meson mixing with theory input

There has been a lot of recent interest in the experimental hints of CP violation in B_{d,s}^0 mixing, which would be a clear signal of beyond the standard model physics (with higher significance). We derive a new relation for the mixing parameters, which allows clearer interpretation of the data in models in which new physics enters in M_12 and/or \Gamma_12. Our results imply that the central value of the D\O\ measurement of the semileptonic CP asymmetry in B_{d,s}^0 decay is not only in conflict with the standard model, but in a stronger tension with data on \Delta\Gamma_s than previously appreciated. This result can be used to improve the constraint on \Delta\Gamma or A_SL, whichever is less precisely measured.Comment: 5 pages, 2 figures, informed of prior derivation of eq. (21), title modifie

Higher Order Power Corrections in Inclusive B Decays

We discuss order 1/m_b^4 and 1/m_b^5 corrections in inclusive semileptonic decay of a $B$ meson. We identify relevant hadronic matrix elements of dimension seven and eight and estimate them using the ground-state saturation approximation. Within this approach the effects on the integrated rate and on kinematic moments are estimated. The overall relative shift in V_{cb} turns out about +0.4% as applied to the existing fits. Similar estimates are presented for B -> X_s+\gamma decays.Comment: 30 pages, 16 figure

Proceedings of the 2nd Workshop on Flavor Symmetries and Consequences in Accelerators and Cosmology (FLASY12)

These are the proceedings of the 2nd Workshop on Flavor Symmetries and Consequences in Accelerators and Cosmology, held 30 June 2012 - 4 July 2012, Dortmund, Germany.Comment: Order 400 pages, several figures including the group picture v2: corrected author list and contributio

Model-independent Analysis of Lepton Flavour Violating Tau Decays

Many models for physics beyond the Standard Model predict lepton-flavour violating decays of charged leptons at a level which may become observable very soon. In the present paper we investigate the decays of a Tau into three charged leptons in a generic way, based on effective-field-theory methods, where the relevant operators are classified according to their chirality structure. We work out the decay distributions and discuss phenomenological implications.Comment: 14 pages, 10 figures, references and comments adde

Highly multiplexed subcellular RNA sequencing in situ

Understanding the spatial organization of gene expression with single-nucleotide resolution requires localizing the sequences of expressed RNA transcripts within a cell in situ. Here, we describe fluorescent in situ RNA sequencing (FISSEQ), in which stably cross-linked complementary DNA (cDNA) amplicons are sequenced within a biological sample. Using 30-base reads from 8102 genes in situ, we examined RNA expression and localization in human primary fibroblasts with a simulated wound-healing assay. FISSEQ is compatible with tissue sections and whole-mount embryos and reduces the limitations of optical resolution and noisy signals on single-molecule detection. Our platform enables massively parallel detection of genetic elements, including gene transcripts and molecular barcodes, and can be used to investigate cellular phenotype, gene regulation, and environment in situ

A novel in vitro assay for assessing efficacy and toxicity of antifungals using human leukemic cells infected with Candida albicans

Aims This study describes a novel in vitro assay that simultaneously determines antifungal efficiency and host cell toxicity using suspensions of human leukemic cells (HL-60) infected with Candida albicans. Methods and Results The effect of Candida infection on host cell viability was evaluated by microscopy of trypan blue stained cells and lactate dehydrogenase (LDH) activity. The in vitro ‘drug potency assay’ utilized the Cell Counting Kit-8 and measured post antifungal treatment viability of Candida-infected HL-60 cells and ability of the antifungal to prevent infection. LDH activity showed that 42% ± 4.0 and 85.3% ± 7.40 of HL-60 cells were killed following Candida infection at multiplicity of infection (MOI) of 1:1 and 1:5, respectively. Using the assay, the antifungal nystatin (0.78-25 μmol l−1) was found to inhibit C. albicans infection as seen by significantly increased viability of HL-60 cells. Using the assay, cytotoxicity of nystatin towards infected HL-60 cells was evident at higher concentrations and this was also confirmed by propidium iodide staining. Conclusions An assay using undisturbed cell suspension conditions was successfully developed for assessing selectivity of antifungal therapy in the host-Candida environment. Significance and Impact of the Study The assay employing Candida infection of host cell suspensions represents a promising method for testing interactions of antifungal compounds with both fungal and host cells

Precise Cas9 targeting enables genomic mutation prevention

ABSTRACTHere we present a generalized method of guide RNA “tuning” that enables Cas9 to discriminate between two target sites that differ by a single nucleotide polymorphism. We employ our methodology to generate a novelin vivomutation prevention system in which Cas9 actively restricts the occurrence of undesired gain-of-function mutations within a population of engineered organisms. We further demonstrate that the system is scalable to a multitude of targets and that the general tuning and prevention concepts are portable across engineered Cas9 variants and Cas9 orthologs. Finally, we show that the designed mutation prevention system maintains robust activity even when placed within the complex environment of the mouse gastrointestinal tract.</jats:p

Joint cell segmentation and cell type annotation for spatial transcriptomics

RNA hybridization‐based spatial transcriptomics provides unparalleled detection sensitivity. However, inaccuracies in segmentation of image volumes into cells cause misassignment of mRNAs which is a major source of errors. Here, we develop JSTA, a computational framework for joint cell segmentation and cell type annotation that utilizes prior knowledge of cell type‐specific gene expression. Simulation results show that leveraging existing cell type taxonomy increases RNA assignment accuracy by more than 45%. Using JSTA, we were able to classify cells in the mouse hippocampus into 133 (sub)types revealing the spatial organization of CA1, CA3, and Sst neuron subtypes. Analysis of within cell subtype spatial differential gene expression of 80 candidate genes identified 63 with statistically significant spatial differential gene expression across 61 (sub)types. Overall, our work demonstrates that known cell type expression patterns can be leveraged to improve the accuracy of RNA hybridization‐based spatial transcriptomics while providing highly granular cell (sub)type information. The large number of newly discovered spatial gene expression patterns substantiates the need for accurate spatial transcriptomic measurements that can provide information beyond cell (sub)type labels