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At least 1,351 records · Page 75

WormBase in 2022—data, processes, and tools for analyzing Caenorhabditis elegans

WormBase (www.wormbase.org) is the central repository for the genetics and genomics of the nematode Caenorhabditis elegans. We provide the research community with data and tools to facilitate the use of C. elegans and related nematodes as model organisms for studying human health, development, and many aspects of fundamental biology. Throughout our 22-year history, we have continued to evolve to reflect progress and innovation in the science and technologies involved in the study of C. elegans. We strive to incorporate new data types and richer data sets, and to provide integrated displays and services that avail the knowledge generated by the published nematode genetics literature. Here, we provide a broad overview of the current state of WormBase in terms of data type, curation workflows, analysis, and tools, including exciting new advances for analysis of single-cell data, text mining and visualization, and the new community collaboration forum. Concurrently, we continue the integration and harmonization of infrastructure, processes, and tools with the Alliance of Genome Resources, of which WormBase is a founding member.

59 BASIC BIOLOGICAL SCIENCES↗

Modular Autonomous Experimentation for Biological Applications

The Modular Autonomous Research System (MARS) was created to address a key challenge in scientific discovery: experiments are often slow, require significant manual labor, and generate data that is not easily integrated across different tools. This limits how quickly scientists can explore new materials, processes, and chemical reactions. Our motivation was to design a system that makes research faster, more reliable, and adaptable by combining automation with artificial intelligence. By doing so, we aimed to reduce human error, accelerate discovery, and allow researchers to quickly test many possibilities that would otherwise take months or years. Our approach was to build a flexible platform that connects laboratory robots, measurement instruments, and a central data system, all guided by artificial intelligence. MARS integrates liquid handling robots, robotic arms, and plate readers with an intelligent decision-making system that chooses the most informative experiments to run next. This creates a closed loop where experiments are performed automatically, the data is analyzed in real time, and new conditions are immediately tested. Through this work, we demonstrated that MARS can carry out multiple experiments with little or no human intervention, adapt to different scientific problems, and handle uncertain or noisy measurements in a robust way. The results show that modular and intelligent automation can significantly accelerate the pace of discovery, providing a model for future self-driving laboratories. This approach addresses the growing scientific need for adaptable, data-driven research platforms that can keep up with the complexity and scale of modern science.

59 BASIC BIOLOGICAL SCIENCES↗

Measurement of the nuclear modification factor for muons from charm and bottom hadrons in Pb+Pb collisions at 5.02 TeV with the ATLAS detector

Heavy-flavour hadron production provides information about the transport properties and microscopic structure of the quark–gluon plasma created in ultra-relativistic heavy-ion collisions. A measurement of the muons from semileptonic decays of charm and bottom hadrons produced in Pb+Pb and pp collisions at a nucleon–nucleon centre-of-mass energy of 5.02 TeV with the ATLAS detector at the Large Hadron Collider is presented. The Pb+Pb data were collected in 2015 and 2018 with sampled integrated luminosities of 208 μb –1 and 38 μb –1 , respectively, and pp data with a sampled integrated luminosity of 1.17 pb –1 were collected in 2017. Muons from heavy-flavour semileptonic decays are separated from the light-flavour hadronic background using the momentum imbalance between the inner detector and muon spectrometer measurements, and muons originating from charm and bottom decays are further separated via the muon track's transverse impact parameter. Differential yields in Pb+Pb collisions and differential cross sections in pp collisions for such muons are measured as a function of muon transverse momentum from 4 GeV to 30 GeV in the absolute pseudorapidity interval |n| < 2. Nuclear modification factors for charm and bottom muons are presented as a function of muon transverse momentum in intervals of Pb+Pb collision centrality. The bottom muon results are the most precise measurement of b quark nuclear modification at low transverse momentum where reconstruction of B hadrons is challenging. The measured nuclear modification factors quantify a significant suppression of the yields of muons from decays of charm and bottom hadrons, with stronger effects for muons from charm hadron decays.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Measurement of hadronic event shapes in high-p T multijet final states at $ \sqrt{s} $ = 13 TeV with the ATLAS detector

A measurement of event-shape variables in proton-proton collisions at large momentum transfer is presented using data collected at $ \sqrt{s} $ = 13 TeV with the ATLAS detector at the Large Hadron Collider. Six event-shape variables calculated using hadronic jets are studied in inclusive multijet events using data corresponding to an integrated luminosity of 139 fb -1 . Measurements are performed in bins of jet multiplicity and in different ranges of the scalar sum of the transverse momenta of the two leading jets, reaching scales beyond 2 TeV. These measurements are compared with predictions from Monte Carlo event generators containing leading-order or next-to-leading order matrix elements matched to parton showers simulated to leading-logarithm accuracy. At low jet multiplicities, shape discrepancies between the measurements and the Monte Carlo predictions are observed. At high jet multiplicities, the shapes are better described but discrepancies in the normalisation are observed.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Study of $\mathrm{B}_{c}^{+}$ decays to charmonia and three light hadrons

Using proton-proton collision data, corresponding to an integrated luminosity of 9 fb -1 collected with the LHCb detector, seven decay modes of the $B^+_c$ meson into a $J/ψ$ or $ψ(2S)$ meson and three charged hadrons, kaons or pions, are studied. The decays $B^+_c$ → $(ψ(2S)$ →J/$ψπ^+π^-$)$π^+$, $B^+_c$→$ψ(2S)π^+π^-π^+, B^+_c$→ J/$ψK^+π^-π^+$ and $B^+_c$ → J/$ψK^+K^-K^+$ are observed for the first time, and evidence for the $B^+_c$ →$ψ(2S)K^+K^-π^+$, decay is found, where J/ψ and $(ψ(2S)$ mesons are reconstructed in their dimuon decay modes. The ratios of branching fractions between the different $B^+_c$ decays are reported as well as the fractions of the decays proceeding via intermediate resonances. The results largely support the factorisation approach used for a theoretical description of the studied decays.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Study of e+e- → γΦJ/ψ from $\sqrt{s}$ = 4.600 to 4.951 GeV

Using data samples with an integrated luminosity of 6.4 fb -1 collected by the BESIII detector operating at the BEPCII storage ring, the process of e+e- → γΦJ/ψ is studied. The processes of e + e - → Φχc1,c2, χc1,c2 → γJ/ψ are observed with a significance of more than 10σ. The √s-dependent cross section of e + e - → Φχc1,c2 is measured between 4.600 and 4.951 GeV, and evidence of a resonance structure is found for the first time in the Φχc2 process. We also search for the processes of e + e - → γX(4140), γX(4274) and γX(4500) via the γΦJ/ψ final state, but no obvious structures are found. The upper limits on the production cross section times the branching fraction for these processes at the 90% confidence level are reported.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Search for long-lived heavy neutral leptons in proton-proton collision events with a lepton-jet pair associated with a secondary vertex at $\sqrt{s}$ = 13 TeV

A search for long-lived heavy neutral leptons (HNLs) using proton-proton collision data corresponding to an integrated luminosity of 138 fb −1 collected at $\sqrt{s}$ = 13 TeV with the CMS detector at the CERN LHC is presented. Events are selected with a charged lepton originating from the primary vertex associated with the proton-proton interaction, as well as a second charged lepton and a hadronic jet associated with a secondary vertex that corresponds to the semileptonic decay of a long-lived HNL. No excess of events above the standard model expectation is observed. Exclusion limits at 95% confidence level are evaluated for HNLs that mix with electron and/or muon neutrinos. Limits are presented in the mass range of 1–16.5 GeV, with excluded square mixing parameter values reaching as low as 2 × 10 −7 . For masses above 11 GeV, the presented limits exceed all previous results in the semileptonic decay channel, and for some of the considered scenarios are the strongest to date.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Observation of $Λ^0_b$ → $D^+ρπ^-π^-$ and $Λ^0_b$ → $D^{*+}ρπ^-π^-$ decays

The multihadron decays $Λ^0_b$ → $D+ρπ-π-$ and $Λ^0_b$ → $D^*+ρπ-π-$ are observed in data corresponding to an integrated luminosity of 3 fb -1 , collected in proton-proton collisions at centre-of-mass energies of 7 and 8 TeV by the LHCb detector. Using the decay $Λ^0_b$ → $Λ^+_cπ^+π^-π^-$ as a normalisation channel, the ratio of branching fractions is measured to be $\frac {\mathcal{B} ( Λ^0_b → D^+ρπ^-π^-)} {\mathcal{B} (Λ^0_b → Λ^0_cπ^+π^-π^-)}$ x $\frac{\mathcal{B} (D^+ → K^-π^+π^+)} {\mathcal{B}(Λ^o_c → ρK^-π^-)}$ = (%.35 ± 0.21 ± 0.16)%, where the first uncertainty is statistical and the second systematic. The ratio of branching fractions for the $Λ^0_b$ → $D^{*+}ρπ^-π^-$ and $Λ^0_b$ → $D^+ρπ^-π^-$ decays is found to be $\frac {\mathcal{B} ( Λ^0_b → D^{*+}ρπ^-π^-)} {\mathcal{B} (Λ^0_b → D^+ρπ^-π^-)}$ X ($\mathcal{B} (D^{*+}→ D^+π^0)$ + $\mathcal{B} (D^{*+}→ D^+γ)$) = (61.3 ± 4.3 ± 4.0)%.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Measurement of the inclusive cross sections for W and Z boson production in proton-proton collisions at $\sqrt{\textrm{s}}$ = 5.02 and 13 TeV

Measurements of fiducial and total inclusive cross sections for W and Z boson production are presented in proton-proton collisions at $ \sqrt{s} $ = 5.02 and 13 TeV. Electron and muon decay modes (ℓ = e or μ) are studied in the data collected with the CMS detector in 2017, in dedicated runs with reduced instantaneous luminosity. The data sets correspond to integrated luminosities of 298 ± 6 pb$^{−1}$ at 5.02 TeV and 206 ± 5 pb$^{−1}$ at 13 TeV. Measured values of the products of the total inclusive cross sections and the branching fractions at 5.02 TeV are σ(pp → W + X)$ \mathcal{B} $(W → ℓν) = 7300 ± 10 (stat) ± 60 (syst) ± 140 (lumi) pb, and σ(pp → Z+X)$ \mathcal{B} $(Z → ℓ$^{+}$ℓ$^{−}$) = 669 ± 2 (stat) ± 6 (syst) ± 13 (lumi) pb for the dilepton invariant mass in the range of 60–120 GeV. The corresponding results at 13 TeV are 20480 ± 10 (stat) ± 170 (syst) ± 470 (lumi) pb and 1952 ± 4 (stat) ± 18 (syst) ± 45 (lumi) pb. The measured values agree with cross section calculations at next-to-next-to-leading-order in perturbative quantum chromodynamics. Fiducial and total inclusive cross sections, ratios of cross sections of W$^{+}$ and W$^{−}$ production as well as inclusive W and Z boson production, and ratios of these measurements at 5.02 and 13 TeV are reported.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Test of lepton universality with $ {\Lambda}_b^0\to {pK}^{-}{\mathrm{\ell}}^{+}{\mathrm{\ell}}^{-}$ decays

The ratio of branching fractions of the decays \( {\Lambda}_b^0 \) → pK - e + e - and \( {\Lambda}_b^0 \) → pK - μ + μ - , \( {R}_{pK}^{-1} \) , is measured for the first time using proton-proton collision data corresponding to an integrated luminosity of 4 . 7 fb - 1 recorded with the LHCb experiment at center-of-mass energies of 7, 8 and 13 TeV. In the dilepton mass-squared range 0 . 1 < q 2 < 6 . 0 GeV 2 /c 4 and the pK - mass range m ( pK - ) < 2600 MeV /c 2 , the ratio of branching fractions is measured to be \( {R}_{pK}^{-1}={1.17}_{-0.16}^{+0.18}\pm 0.07 \) , where the first uncertainty is statistical and the second systematic. This is the first test of lepton universality with b baryons and the first observation of the decay \( {\Lambda}_b^0 \) → pK - e + e - .

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Search for W′ bosons decaying to a top and a bottom quark in leptonic final states in proton-proton collisions at $ \sqrt{s} $ = 13 TeV

A search for W′ bosons decaying to a top and a bottom quark in final states including an electron or a muon is performed with the CMS detector at the LHC. The analyzed data correspond to an integrated luminosity of 138 fb$^{−1}$ of proton-proton collisions at a center-of-mass energy of 13 TeV. Good agreement with the standard model expectation is observed and no evidence for the existence of the W′ boson is found over the mass range examined. The largest observed deviation from the standard model expectation is found for a W′ boson mass ($ {m}_{{\textrm{W}}^{\prime }} $) hypothesis of 3.8 TeV with a relative decay width of 1%, with a local (global) significance of 2.6 (2.0) standard deviations. Upper limits on the production cross sections of W′ bosons decaying to a top and a bottom quark are set. Left- and right-handed W′ bosons with $ {m}_{{\textrm{W}}^{\prime }} $ below 3.9 and 4.3 TeV, respectively, are excluded at the 95% confidence level, under the assumption that the new particle has a narrow decay width. Limits are also set for relative decay widths up to 30%.[graphic not available: see fulltext]

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Search for long-lived particles decaying to final states with a pair of muons in proton-proton collisions at $ \sqrt{s} $ = 13.6 TeV

An inclusive search for long-lived exotic particles (LLPs) decaying to final states with a pair of muons is presented. The search uses data corresponding to an integrated luminosity of 36.6 fb$^{−1}$ collected by the CMS experiment from the proton-proton collisions at $ \sqrt{s} $ = 13.6 TeV in 2022, the first year of Run 3 of the CERN LHC. The experimental signature is a pair of oppositely charged muons originating from a secondary vertex spatially separated from the proton-proton interaction point by distances ranging from several hundred μm to several meters. The sensitivity of the search benefits from new triggers for displaced dimuons developed for Run 3. The results are interpreted in the framework of the hidden Abelian Higgs model, in which the Higgs boson decays to a pair of long-lived dark photons, and of an R-parity violating supersymmetry model, in which long-lived neutralinos decay to a pair of muons and a neutrino. The limits set on these models are the most stringent to date in wide regions of lifetimes for LLPs with masses larger than 10 GeV.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Exploring small-angle emissions in charm quark jets in proton-proton collisions at $\sqrt{s}=5.02$ TeV

A measurement of the angular structure of inclusive jets and those containing a prompt D 0 meson in proton-proton collisions at the LHC at a center-of-mass energy of 5.02 TeV is presented. The data corresponding to an integrated luminosity of 301 pb −1 were collected by the CMS experiment in 2017. Two jet grooming algorithms, late-k T and soft drop, are used to study the intrajet radiation pattern using iterative Cambridge-Aachen declustering. The splitting-angle distributions of jets with transverse momentum (p T ) of around 100 GeV, obtained with these two algorithms, show that there is a shift of the distribution for jets containing a prompt D 0 meson with respect to inclusive jets. The suppression of emissions at small angles observed in the late-k T grooming approach is consistent with the dead-cone effect, whereas the similar suppression for splittings selected with the soft-drop algorithm appears to be induced by gluon splitting to charm quark-antiquark pairs at large angles. The measured distributions are corrected to the particle level and can be used to constrain model predictions for the substructure of high-p T charm quark jets.

Charm Physics↗

Searches for 25 rare and forbidden decays of D + and ${D}_s^{+}$ mesons

A search is performed for rare and forbidden charm decays of the form ${D}_{(s)}^{+}\to {h}^{\pm }{\mathrm{\ell}}^{+}{\mathrm{\ell}}^{\left(\prime \right)\mp } $, where h ± is a pion or kaon and ℓ (')± is an electron or muon. The measurements are performed using proton-proton collision data, corresponding to an integrated luminosity of 1.6 fb –1 , collected by the LHCb experiment in 2016. No evidence is observed for the 25 decay modes that are investigated and 90 % confidence level limits on the branching fractions are set between 1.4 × 10 –8 and 6.4 × 10 –6 . In most cases, these results represent an improvement on existing limits by one to two orders of magnitude.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Search for charged-lepton flavor violation in top quark production and decay in pp collisions at $ \sqrt{s} $ = 13 TeV

Results are presented from a search for charged-lepton flavor violating (CLFV) interactions in top quark production and decay in pp collisions at a center-of-mass energy of 13 TeV. The events are required to contain one oppositely charged electron-muon pair in the final state, along with at least one jet identified as originating from a bottom quark. The data correspond to an integrated luminosity of 138 fb$^{-1}$, collected by the CMS experiment at the LHC. This analysis includes both the production (q → eμt) and decay (t → eμq) modes of the top quark through CLFV interactions, with q referring to a u or c quark. These interactions are parametrized using an effective field theory approach. With no significant excess over the standard model expectation, the results are interpreted in terms of vector-, scalar-, and tensor-like CLFV four-fermion effective interactions. Finally, observed exclusion limits are set at 95% confidence levels on the respective branching fractions of a top quark to an eμ pair and an up (charm) quark of 0.13 × 10$^{-6}$ (1.31 × 10$^{-6}$), 0.07 × 10$^{-6}$ (0.89 × 10$^{-6}$), and 0.25 × 10$^{-6}$ (2.59 × 10$^{-6}$) for vector, scalar, and tensor CLFV interactions, respectively.[graphic not available: see fulltext]

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Measurement of Higgs boson decay into $b$-quarks in associated production with a top-quark pair in $pp$ collisions at $ \sqrt{s} $ = 13 TeV with the ATLAS detector

The associated production of a Higgs boson and a top-quark pair is measured in events characterized by the presence of one or two electrons or muons. The Higgs boson decay into a b-quark pair is used. The analyzed data, corresponding to an integrated luminosity of 139 fb –1 , were collected in proton-proton collisions at the Large Hadron Collider between 2015 and 2018 at a centre-of-mass energy of √s = 13 TeV. The measured signal strength, defined as the ratio of the measured signal yield to that predicted by the Standard Model, is $0.35$ $^{+0.36}_{–0.34}$. This result is compatible with the Standard Model prediction and corresponds to an observed (expected) significance of 1.0 (2.7) standard deviations. The signal strength is also measured differentially in bins of the Higgs boson transverse momentum in the simplified template cross-section framework, including a bin for specially selected boosted Higgs bosons with transverse momentum above 300 GeV.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Measurement of the top-quark mass using a leptonic invariant mass in $pp$ collisions at $\sqrt{s}$ = 13 TeV with the ATLAS detector

A measurement of the top-quark mass ($m_t$) in the $t\overline{t}$ → lepton+jets channel is presented, with an experimental technique which exploits semileptonic decays of $b$-hadrons produced in the top-quark decay chain. The distribution of the invariant mass $m_{{\ell}µ}$ of the lepton, $\ell$ (with $\ell$ = $e, µ$), from the $W$-boson decay and the muon, $µ$, originating from the b-hadron decay is reconstructed, and a binned-template profile likelihood fit is performed to extract $m_t$. The measurement is based on data corresponding to an integrated luminosity of 36.1 fb –1 of $\sqrt{s}$ = 13 TeV $pp$ collisions provided by the Large Hadron Collider and recorded by the ATLAS detector. The measured value of the top-quark mass is $m_t$ = 174.41 ± 0.39 (stat.) ± 0.66 (syst.) ± 0.25 (recoil) GeV, where the third uncertainty arises from changing the Pythia8 parton shower gluon-recoil scheme, used in top-quark decays, to a recently developed setup.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Search for nonresonant Higgs boson pair production in the four leptons plus twob jets final state in proton-proton collisions at $\sqrt{s}$ = 13 TeV

The first search for nonresonant production of Higgs boson pairs (HH) with one H decaying into four leptons and the other into a pair of b quarks is presented, using proton-proton collisions recorded at a center-of-mass energy of √s = 13 TeV by the CMS experiment. The analyzed data correspond to an integrated luminosity of 138 fb–1. A 95% confidence level upper limit of 32.4 is set on the signal strength modifier μ, defined as the ratio of the observed HH production rate in the HH → ZZ*b$\overline{b}$ → 4lb$\overline{b}$ decay channel to the standard model (SM) expectation. Possible modifications of the H trilinear coupling λHHH with respect to the SM value are investigated. The coupling modifier κ λ , defined as λHHH divided by its SM prediction, is constrained to be within the observed (expected) range –8.8 (–9.8) < κ λ < 13.4 (15.0) at 95% confidence level.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗