Yi Chen

Bio: Yi Chen is an academic researcher from Chinese Academy of Sciences. The author has contributed to research in topics: Large Hadron Collider & Medicine. The author has an hindex of 217, co-authored 4342 publications receiving 293080 citations. Previous affiliations of Yi Chen include Rochester Institute of Technology & National Institutes of Health.

Limits on active to sterile neutrino oscillations from disappearance searches in the MINOS, Daya Bay, and Bugey-3 experiments

Abstract: Searches for a light sterile neutrino have been performed independently by the MINOS and the Daya Bay experiments using the muon (anti)neutrino and electron antineutrino disappearance channels, respectively. In this Letter, results from both experiments are combined with those from the Bugey-3 reactor neutrino experiment to constrain oscillations into light sterile neutrinos. The three experiments are sensitive to complementary regions of parameter space, enabling the combined analysis to probe regions allowed by the Liquid Scintillator Neutrino Detector (LSND) and MiniBooNE experiments in a minimally extended four-neutrino flavor framework. Stringent limits on sin 2 2θ_(μe) are set over 6 orders of magnitude in the sterile mass-squared splitting Δm^2_(41). The sterile-neutrino mixing phase space allowed by the LSND and MiniBooNE experiments is excluded for Δm^2_(41) <0.8 eV^2 at 95% CL_s.

Search for supersymmetry using razor variables in events with b -tagged jets in pp collisions at s =8TeV

Abstract: An inclusive search for supersymmetry in events with at least one b-tagged jet is performed using proton-proton collision data collected by the CMS experiment in 2012 at a center-of-mass energy of 8 TeV. The data set size corresponds to an integrated luminosity of 19.3 fb^(−1). The two-dimensional distribution of the razor variables R^2 and M _R is studied in events with and without leptons. The data are found to be consistent with the expected background, which is modeled with an empirical function. Exclusion limits on supersymmetric particle masses at a 95% confidence level are derived in several simplified supersymmetric scenarios for several choices of the branching fractions. By combining the likelihoods of a search in events without leptons and a search that requires a single lepton (electron or muon), an improved bound on the top-squark mass is obtained. Assuming the lightest supersymmetric particle to be stable and weakly interacting, and to have a mass of 100 GeV, the branching-fraction-dependent (-independent) production of gluinos is excluded for gluino masses up to 1310 (1175) GeV. The corresponding limit for top-squark pair production is 730 (645) GeV.

Measurement of upsilon production in 7 TeV pp collisions at ATLAS

Abstract: Using 1.8 fb(-1) of pp collisions at a center- of- mass energy of 7 TeV recorded by the ATLAS detector at the Large Hadron Collider, we present measurements of the production cross sections of Upsilon(1S,2S,3S) mesons. Upsilon mesons are reconstructed using the dimuon decay mode. Total production cross sections for p(T) < 70 GeV and in the rapidity interval vertical bar y(Upsilon)vertical bar < 2. 25 are measured to be, 8.01 +/- 0.02 +/- 0.36 +/- 0.31 nb, 2.05 +/- 0.01 +/- 0.12 +/- 0.08 nb, and 0.92 +/- 0.01 +/- 0.07 +/- 0.04 nb, respectively, with uncertainties separated into statistical, systematic, and luminosity measurement effects. In addition, differential cross section times dimuon branching fractions for Upsilon(1S), Upsilon(2S), and Upsilon(3S) as a function of Upsilon transverse momentum pT and rapidity are presented. These cross sections are obtained assuming unpolarized production. If the production polarization is fully transverse or longitudinal with no azimuthal dependence in the helicity frame, the cross section may vary by approximately +/- 20%. If a nontrivial azimuthal dependence is considered, integrated cross sections may be significantly enhanced by a factor of 2 or more. We compare our results to several theoretical models of Upsilon meson production, finding that none provide an accurate description of our data over the full range of Upsilon transverse momenta accessible with this data set.

Search for gravitational waves from a long-lived remnant of the binary neutron star merger GW170817

Abstract: One unanswered question about the binary neutron star coalescence GW170817 is the nature of its post-merger remnant. A previous search for post-merger gravitational waves targeted high-frequency signals from a possible neutron star remnant with a maximum signal duration of 500 s. Here we revisit the neutron star remnant scenario with a focus on longer signal durations up until the end of the Second Advanced LIGO-Virgo Observing run, 8.5 days after the coalescence of GW170817. The main physical scenario for such emission is the power-law spindown of a massive magnetar-like remnant. We use four independent search algorithms with varying degrees of restrictiveness on the signal waveformand different ways of dealing with noise artefacts. In agreement with theoretical estimates, we find no significant signal candidates. Through simulated signals, we quantify that with the current detector sensitivity, nowhere in the studied parameter space are we sensitive to a signal from more than 1 Mpc away, compared to the actual distance of 40 Mpc. This study however serves as a prototype for post-merger analyses in future observing runs with expected higher sensitivity.

I and i

Abstract: There is, I think, something ethereal about i —the square root of minus one. I remember first hearing about it at school. It seemed an odd beast at that time—an intruder hovering on the edge of reality. Usually familiarity dulls this sense of the bizarre, but in the case of i it was the reverse: over the years the sense of its surreal nature intensified. It seemed that it was impossible to write mathematics that described the real world in …

KEGG: Kyoto Encyclopedia of Genes and Genomes

Abstract: Kyoto Encyclopedia of Genes and Genomes (KEGG) is a knowledge base for systematic analysis of gene functions in terms of the networks of genes and molecules. The major component of KEGG is the PATHWAY database that consists of graphical diagrams of biochemical pathways including most of the known metabolic pathways and some of the known regulatory pathways. The pathway information is also represented by the ortholog group tables summarizing orthologous and paralogous gene groups among different organisms. KEGG maintains the GENES database for the gene catalogs of all organisms with complete genomes and selected organisms with partial genomes, which are continuously re-annotated, as well as the LIGAND database for chemical compounds and enzymes. Each gene catalog is associated with the graphical genome map for chromosomal locations that is represented by Java applet. In addition to the data collection efforts, KEGG develops and provides various computational tools, such as for reconstructing biochemical pathways from the complete genome sequence and for predicting gene regulatory networks from the gene expression profiles. The KEGG databases are daily updated and made freely available (http://www.genome.ad.jp/kegg/).

limma powers differential expression analyses for RNA-sequencing and microarray studies

Abstract: limma is an R/Bioconductor software package that provides an integrated solution for analysing data from gene expression experiments. It contains rich features for handling complex experimental designs and for information borrowing to overcome the problem of small sample sizes. Over the past decade, limma has been a popular choice for gene discovery through differential expression analyses of microarray and high-throughput PCR data. The package contains particularly strong facilities for reading, normalizing and exploring such data. Recently, the capabilities of limma have been significantly expanded in two important directions. First, the package can now perform both differential expression and differential splicing analyses of RNA sequencing (RNA-seq) data. All the downstream analysis tools previously restricted to microarray data are now available for RNA-seq as well. These capabilities allow users to analyse both RNA-seq and microarray data with very similar pipelines. Second, the package is now able to go past the traditional gene-wise expression analyses in a variety of ways, analysing expression profiles in terms of co-regulated sets of genes or in terms of higher-order expression signatures. This provides enhanced possibilities for biological interpretation of gene expression differences. This article reviews the philosophy and design of the limma package, summarizing both new and historical features, with an emphasis on recent enhancements and features that have not been previously described.

Atherosclerosis — An Inflammatory Disease

Abstract: Atherosclerosis is an inflammatory disease. Because high plasma concentrations of cholesterol, in particular those of low-density lipoprotein (LDL) cholesterol, are one of the principal risk factors for atherosclerosis,1 the process of atherogenesis has been considered by many to consist largely of the accumulation of lipids within the artery wall; however, it is much more than that. Despite changes in lifestyle and the use of new pharmacologic approaches to lower plasma cholesterol concentrations,2,3 cardiovascular disease continues to be the principal cause of death in the United States, Europe, and much of Asia.4,5 In fact, the lesions of atherosclerosis represent . . .