Triangular flow in hydrodynamics and transport theory

In ultrarelativistic heavy-ion collisions, the Fourier decomposition of the relative azimuthal angle, \Delta \phi, distribution of particle pairs yields a large cos(3\Delta \phi) component, extending out to large rapidity separations \Delta \eta >1. This component captures a significant portion of the ridge and shoulder structures in the \Delta \phi distribution, which have been observed after contributions from elliptic flow are subtracted. An average finite triangularity due to event-by-event fluctuations in the initial matter distribution, followed by collective flow, naturally produces a cos(3\Delta \phi) correlation. Using ideal and viscous hydrodynamics, and transport theory, we study the physics of triangular (v_3) flow in comparison to elliptic (v_2), quadrangular (v_4) and pentagonal (v_5) flow. We make quantitative predictions for v_3 at RHIC and LHC as a function of centrality and transverse momentum. Our results for the centrality dependence of v_3 show a quantitative agreement with data extracted from previous correlation measurements by the STAR collaboration. This study supports previous results on the importance of triangular flow in the understanding of ridge and shoulder structures. Triangular flow is found to be a sensitive probe of initial geometry fluctuations and viscosity.Comment: 10 pages, 12 figures. minor changes, and results for $v_5$ added (fig.12

Nucleosomal occupancy changes locally over key regulatory regions during cell differentiation and reprogramming

Chromatin structure determines DNA accessibility. We compare nucleosome occupancy in mouse and human embryonic stem cells (ESCs), induced-pluripotent stem cells (iPSCs), and differentiated cell types using MNase-seq. To address variability inherent in this technique, we developed a bioinformatic approach to identify regions of difference (RoD) in nucleosome occupancy between pluripotent and somatic cells. Surprisingly, most chromatin remains unchanged; a majority of rearrangements appear to affect a single nucleosome. RoDs are enriched at genes and regulatory elements, including enhancers associated with pluripotency and differentiation. RoDs co-localize with binding sites of key developmental regulators, including the reprogramming factors Klf4, Oct4/Sox2, and c-Myc. Nucleosomal landscapes in ESC enhancers are extensively altered, exhibiting lower nucleosome occupancy in pluripotent cells than in somatic cells. Most changes are reset during reprogramming. We conclude that changes in nucleosome occupancy are a hallmark of cell differentiation and reprogramming and likely identify regulatory regions essential for these processes

System size dependence of cluster properties from two-particle angular correlations in Cu+Cu and Au+Au collisions at sNN\sqrt{s_{_{NN}}} = 200 GeV

We present results on two-particle angular correlations in Cu+Cu and Au+Au collisions at a center of mass energy per nucleon pair of 200 GeV over a broad range of pseudorapidity ($\eta$) and azimuthal angle ($\phi$) as a function of collision centrality. The PHOBOS detector at RHIC has a uniquely-large angular coverage for inclusive charged particles, which allows for the study of correlations on both long- and short-range scales. A complex two-dimensional correlation structure in $\Delta \eta$ and $\Delta \phi$ emerges, which is interpreted in the context of a cluster model. The effective cluster size and decay width are extracted from the two-particle pseudorapidity correlation functions. The effective cluster size found in semi-central Cu+Cu and Au+Au collisions is comparable to that found in proton-proton collisions but a non-trivial decrease of the size with increasing centrality is observed. Moreover, a comparison between results from Cu+Cu and Au+Au collisions shows an interesting scaling of the effective cluster size with the measured fraction of total cross section (which is related to the ratio of the impact parameter to the nuclear radius, $b/2R$), suggesting a geometric origin. Further analysis for pairs from restricted azimuthal regions shows that the effective cluster size at $\Delta\phi \sim 180^{\circ}$ drops more rapidly toward central collisions than the size at $\Delta\phi \sim 0^{\circ}$. The effect of limited $\eta$ acceptance on the cluster parameters is also addressed, and a correction is applied to present cluster parameters for full $\eta$ coverage, leading to much larger effective cluster sizes and widths than previously noted in the literature. These results should provide insight into the hot and dense medium created in heavy ion collisions.Comment: 9 pages, 8 figures, Published in Phys. Rev.

Observation of long-range, near-side angular correlations in proton-proton collisions at the LHC

Results on two-particle angular correlations for charged particles emitted in proton-proton collisions at center-of-mass energies of 0.9, 2.36, and 7 TeV are presented, using data collected with the CMS detector over a broad range of pseudorapidity (η) and azimuthal angle (ϕ). Short-range correlations in Δη, which are studied in minimum bias events, are characterized using a simple “independent cluster” parametrization in order to quantify their strength (cluster size) and their extent in η (cluster decay width). Long-range azimuthal correlations are studied differentially as a function of charged particle multiplicity and particle transverse momentum using a 980 nb[superscript −1] data set at 7 TeV. In high multiplicity events, a pronounced structure emerges in the two-dimensional correlation function for particle pairs with intermediate p [subscript T] of 1–3 GeV/c, 2.0 < |Δη| < 4.8 and Δϕ ≈ 0. This is the first observation of such a long-range, near-side feature in two-particle correlation functions in pp or p[−over]p collisions

Search for the standard model Higgs boson decaying into two photons in pp collisions at √s = 7 TeV

A search for a Higgs boson decaying into two photons is described. The analysis is performed using a dataset recorded by the CMS experiment at the LHC from pp collisions at a center-of-mass energy of 7 TeV, which corresponds to an integrated luminosity of 4.8 fb[superscript −1]. Limits are set on the cross section of the standard model Higgs boson decaying to two photons. The expected exclusion limit at 95% confidence level is between 1.4 and 2.4 times the standard model cross section in the mass range between 110 and 150 GeV. The analysis of the data excludes, at 95% confidence level, the standard model Higgs boson decaying into two photons in the mass range 128 to 132 GeV. The largest excess of events above the expected standard model background is observed for a Higgs boson mass hypothesis of 124 GeV with a local significance of 3.1σ . The global significance of observing an excess with a local significance ⩾3.1σ anywhere in the search range 110–150 GeV is estimated to be 1.8σ. More data are required to ascertain the origin of this excess.United States. Dept. of EnergyNational Science Foundation (U.S.

Measurement of the charge asymmetry in top-quark pair production in proton–proton collisions at √s = 7 TeV

The difference in angular distributions between top quarks and antiquarks, commonly referred to as the charge asymmetry, is measured in pp collisions at the LHC with the CMS experiment. The data sample corresponds to an integrated luminosity of 1.09 fb[superscript −1] at a centre-of-mass energy of 7 TeV. Top-quark pairs are selected in the final state with an electron or muon and four or more jets. At least one jet is identified as originating from b-quark hadronization. The charge asymmetry is measured in two variables, one based on the pseudorapidities (η) of the top quarks and the other on their rapidities (y). The results A[η over C] = −0.017 ± 0.032 (stat.)[+0.025 over −0.036] (syst.) and A[y over C] = −0.013 ± 0.028 (stat.)[+0.029 over −0.031] (syst.) are consistent within uncertainties with the standard-model predictions.United States. Dept. of EnergyNational Science Foundation (U.S.)Alfred P. Sloan Foundatio

Participant and spectator scaling of spectator fragments in Au + Au and Cu + Cu collisions at √sNN = 19.6 and 22.4 GeV

Spectator fragments resulting from relativistic heavy ion collisions, consisting of single protons and neutrons along with groups of stable nuclear fragments up to nitrogen (Z=7), are measured in PHOBOS. These fragments are observed in Au+Au (√sNN =19.6GeV) and Cu+Cu (22.4 GeV) collisions at high pseudorapidity (η). The dominant multiply-charged fragment is the tightly bound helium (α), with lithium, beryllium, and boron all clearly seen as a function of collision centrality and pseudorapidity. We observe that in Cu+Cu collisions, it becomes much more favorable for the α fragments to be released than lithium. The yields of fragments approximately scale with the number of spectator nucleons, independent of the colliding ion. The shapes of the pseudorapidity distributions of fragments indicate that the average deflection of the fragments away from the beam direction increases for more central collisions. A detailed comparison of the shapes for α and lithium fragments indicates that the centrality dependence of the deflections favors a scaling with the number of participants in the collision.United States. Department of Energy (Grant DE-AC02-98CH10886)United States. Department of Energy (Grant DE-FG02-93ER40802)United States. Department of Energy (Grant DE-FG02-94ER40818)United States. Department of Energy (Grant DE-FG02-94ER40865)United States. Department of Energy (Grant DE-FG02- 99ER41099)United States. Department of Energy (Grant DE-AC02-06CH11357)National Science Foundation (U.S.) (Grant 9603486)National Science Foundation (U.S.) (Grant 0072204)National Science Foundation (U.S.) (Grant 0245011

Comparative analysis of metazoan chromatin organization

Genome function is dynamically regulated in part by chromatin, which consists of the histones, non-histone proteins and RNA molecules that package DNA. Studies in Caenorhabditis elegans and Drosoph ..

Comparative analysis of the transcriptome across distant species

The transcriptome is the readout of the genome. Identifying common features in it across distant species can reveal fundamental principles. To this end, the ENCODE and modENCODE consortia have generated large amounts of matched RNA-sequencing data for human, worm and fly. Uniform processing and comprehensive annotation of these data allow comparison across metazoan phyla, extending beyond earlier within-phylum transcriptome comparisons and revealing ancient, conserved features. Specifically, we discover co-expression modules shared across animals, many of which are enriched in developmental genes. Moreover, we use expression patterns to align the stages in worm and fly development and find a novel pairing between worm embryo and fly pupae, in addition to the embryo-to-embryo and larvae-to-larvae pairings. Furthermore, we find that the extent of non-canonical, non-coding transcription is similar in each organism, per base pair. Finally, we find in all three organisms that the gene-expression levels, both coding and non-coding, can be quantitatively predicted from chromatin features at the promoter using a 'universal model' based on a single set of organism-independent parameters