Association between prospective registration and overall reporting and methodological quality of systematic reviews: a meta-epidemiological study

Objective: To investigate the differences in main characteristics, reporting and methodological quality between prospectively registered and non-registered systematic reviews. Methods: PubMed was searched to identify systematic reviews of randomized controlled trials published in 2015 in English. After title and abstract screening, potentially relevant reviews were divided into three groups: registered non-Cochrane reviews, Cochrane reviews, and non-registered reviews. For each group, random number tables were generated in Microsoft Excel, and the first 50 eligible studies from each group were randomly selected. Data of interest from systematic reviews were extracted. Regression analyses were conducted to explore the association between total R-AMSTAR or PRISMA scores and the selected characteristics of systematic reviews. Results: The conducting and reporting of literature search in registered reviews were superior to non-registered reviews. Differences in nine of the 11 R-AMSTAR items were statistically significant between registered and non-registered reviews. The total R-AMSTAR score of registered reviews was higher than non-registered reviews (MD=4.82, 95%CI: 3.70, 5.94). Sensitivity analysis by excluding the registration related item presented similar result (MD=4.34, 95%CI: 3.28, 5.40). Total PRISMA scores of registered reviews were significantly higher than non-registered reviews (all reviews: MD=1.47, 95%CI: 0.64-2.30; non-Cochrane reviews: MD=1.49, 95%CI: 0.56-2.42). However, the difference in the total PRISMA score was no longer statistically significant after excluding the item related to registration (item 5). Regression analyses showed similar results. Conclusions: Prospective registration may at least indirectly improve the overall methodological quality of systematic reviews, although its impact on the overall reporting quality was not significant

Metabolism within the tumor microenvironment and its implication on cancer progression: an ongoing therapeutic target

Since reprogramming energy metabolism is considered a new hallmark of cancer, tumor metabolism is again in the spotlight of cancer research. Many studies have been carried out and many possible therapies have been developed in the last years. However, tumor cells are not alone. A series of extracellular components and stromal cells, such as endothelial cells, cancer-associated fibroblasts, tumor-associated macrophages and tumor-infiltrating T cells, surround tumor cells in the so-called tumor microenvironment. Metabolic features of these cells are being studied in deep in order to find relationships between metabolism within the tumor microenvironment and tumor progression. Moreover, it cannot be forgotten that tumor growth is able to modulate host metabolism and homeostasis, so that tumor microenvironment is not the whole story. Importantly, the metabolic switch in cancer is just a consequence of the flexibility and adaptability of metabolism and should not be surprising. Treatments of cancer patients with combined therapies including anti-tumor agents with those targeting stromal cell metabolism, anti-angiogenic drugs and/or immunotherapy are being developed as promising therapeutics.Mª Carmen Ocaña is recipient of a predoctoral FPU grant from the Spanish Ministry of Education, Culture and Sport. Supported by grants BIO2014-56092-R (MINECO and FEDER), P12-CTS-1507 (Andalusian Government and FEDER) and funds from group BIO-267 (Andalusian Government). The "CIBER de Enfermedades Raras" is an initiative from the ISCIII (Spain). The funders had no role in the study design, data collection and analysis, decision to publish or preparation of the manuscript

Variational Bayes for Mixture of Gaussian Structural Equation Models

Structural equation models (SEMs) are commonly used to study the structural relationship between observed variables and latent constructs. Recently, Bayesian fitting procedures for SEMs have received more attention thanks to their potential to facilitate the adoption of more flexible model structures, and variational approximations have been shown to provide fast and accurate inference for Bayesian analysis of SEMs. However, the application of variational approximations is currently limited to very simple, elemental SEMs. We develop mean-field variational Bayes algorithms for two SEM formulations for data that present non-Gaussian features such as skewness and multimodality. The proposed models exploit the use of mixtures of Gaussians, include covariates for the analysis of latent traits and consider missing data. We also examine two variational information criteria for model selection that are straightforward to compute in our variational inference framework. The performance of the MFVB algorithms and information criteria is investigated in a simulated data study and a real data application.Comment: 36 pages, 6 figure

Microbial Diversity of Liquan’s Laozao, Sweet Fermented Glutinous Rice

In this study, MiSeq high-throughput sequencing technology was used to analyze the bacterial and fungal diversity in Laozao produced in Liquan. The results showed that the dominant bacterial phyla in Liquan’s Laozao were Firmicutes (97.20%) and Proteobacteria (2.29%), accounting for 99.49% of the total abundance, and the dominant bacterial genera were Lactobacillus (85.25%), Pediococcus (5.50%), Leuconostoc (1.68%), Streptococcus (1.63%) and Lactococcus (1.12%). The dominant fungal phyla were Mucoromycota (56.90%) and Ascomycota (43.10%), and the dominant fungal genera were Rhizopus (56.66%), Saccharomyces (23.28%), Saccharomycopsis (12.24%) and Candida (5.35%). Diversity analysis found that the microbial community of Liquan’s Laozao could be divided into two groups, which showed significant differences in bacterial diversity and fungal richness (P < 0.05). Gene and phenotype prediction showed that the relative expression levels of amino acid transport and metabolism, potential pathogenicity and mobile elements were significantly different between the two groups (P < 0.05)

Tunable two-dimensional Dirac nodal nets

Nodal-line semimetals are characterized by symmetry-protected band crossing lines and are expected to exhibit nontrivial electronic properties. Connections of the multiple nodal lines, resulting in nodal nets, chains, or links, are envisioned to produce even more exotic quantum states. In this work, we propose a feasible approach to realize tunable nodal-line connections in real materials. We show that certain space group symmetries support the coexistence of the planar symmetry-enforced and accidental nodal lines, which are robust to spin-orbit coupling and can be tailored into intricate patterns by chemical substitution, pressure, or strain. Based on first-principles calculations, we identify nonsymmorphic centrosymmetric quasi-one-dimensional compounds, K2SnBi and MX3 (M = Ti, Zr, Hf and X = Cl, Br, I), as materials hosting such tunable two-dimensional (2D) Dirac nodal nets. Unique Landau levels are predicted for the nodal-line semimetals with the 2D Dirac nodal nets. Our results provide a viable approach to realize the novel physics of the nodal-line connections in practice

Tunable two-dimensional Dirac nodal nets

Nodal-line semimetals are characterized by symmetry-protected band crossing lines and are expected to exhibit nontrivial electronic properties. Connections of the multiple nodal lines, resulting in nodal nets, chains, or links, are envisioned to produce even more exotic quantum states. In this work, we propose a feasible approach to realize tunable nodal-line connections in real materials. We show that certain space group symmetries support the coexistence of the planar symmetry-enforced and accidental nodal lines, which are robust to spin-orbit coupling and can be tailored into intricate patterns by chemical substitution, pressure, or strain. Based on first-principles calculations, we identify nonsymmorphic centrosymmetric quasi-one-dimensional compounds, K2SnBi and MX3 (M = Ti, Zr, Hf and X = Cl, Br, I), as materials hosting such tunable two-dimensional (2D) Dirac nodal nets. Unique Landau levels are predicted for the nodal-line semimetals with the 2D Dirac nodal nets. Our results provide a viable approach to realize the novel physics of the nodal-line connections in practice

Tunable two-dimensional Dirac nodal nets

Nodal line semimetals are characterized by symmetry-protected band crossing lines and are expected to exhibit nontrivial electronic properties. Connections of the multiple nodal lines, resulting in nodal nets, chains, or links, are envisioned to produce even more exotic quantum states. In this work, we propose a feasible approach to realize tunable nodal line connections in real materials. We show that certain space group symmetries support the coexistence of the planar symmetry enforced and accidental nodal lines, which are robust to spin-orbit coupling and can be tailored into intricate patterns by chemical substitution, pressure, or strain. Based on first-principles calculations, we identify non-symmorphic centrosymmetric quasi-one-dimensional compounds, K$_{2}$SnBi and MX$_{3}$ (M = Ti, Zr, Hf and X = Cl, Br, I), as materials hosting such tunable 2D Dirac nodal nets. Unique Landau levels are predicted for the nodal line semimetals with the 2D Dirac nodal nets. Our results provide a viable approach for realize the novel physics of the nodal line connections in practice

A novel HIV-1 restriction factor that is biologically distinct from APOBEC3 cytidine deaminases in a human T cell line CEM.NKR

<p>Abstract</p> <p>Background</p> <p>Isolation of novel retroviral restriction factors will open new avenues for anti-HIV/AIDS treatment. Although HIV-1 replication is restricted by APOBEC3G/APOBEC3F, TRIM5α, and CD317, none defend HIV-1 infection under natural conditions. Previously, we demonstrated a host factor from the human T cell line CEM.NKR that potently restricted wild-type HIV-1 replication. Interestingly, this restriction resembled the APOBEC3G/APOBEC3F pattern in that viral replication was inhibited from the second round of replication cycle at a post-entry step.</p> <p>Results</p> <p>Here, we further characterized this factor and found it distinguishable from the known anti-HIV APOBEC3 proteins. Although CEM.NKR cells expressed both APOBEC3G and APOBEC3F, their levels were at least 10 or 4-fold lower than those in H9 cells, and importantly, Vif effectively neutralized their activity. Among eight subclones isolated from CEM.NKR cells, one was relatively permissive, four were semi-permissive, and three were completely non-permissive for HIV-1 replication. When the levels of APOBEC3 expression were determined, all these clones retained similar low levels of APOBEC3DE, APOBEC3F, APOBEC3G and APOBEC3H expression, and no APOBEC3B expression was detected. Since the <it>vif </it>from SIVmac can effectively neutralize APOBEC3B and APOBEC3H, recombinant HIV-1 expressing this SIV gene were created. However, these viruses still failed to replicate in CEM.NKR cells. We also confirmed that HIV-1 restriction in CEM.NKR was not due to a loss of calnexin expression.</p> <p>Conclusion</p> <p>Taken together, these results not only demonstrate that all these aforementioned anti-HIV APOBEC3 proteins do not contribute to this HIV-1 restriction, but also shed light on a novel and potent HIV-1 inhibitor in CEM.NKR cells.</p