spKAS-seq reveals R-loop dynamics using low-input materials by detecting single-stranded DNA with strand specificity

R-loops affect transcription and genome stability. Dysregulation of R-loops is related to human diseases. Genome-wide R-loop mapping typically uses the S9.6 antibody or inactive ribonuclease H, both requiring a large number of cells with varying results observed depending on the approach applied. Here, we present strand-specific kethoxal-assisted single-stranded DNA (ssDNA) sequencing (spKAS-seq) to map R-loops by taking advantage of the presence of a ssDNA in the triplex structure. We show that spKAS-seq detects R-loops and their dynamics at coding sequences, enhancers, and other intergenic regions with as few as 50,000 cells. A joint analysis of R-loops and chromatin-bound RNA binding proteins (RBPs) suggested that R-loops can be RBP binding hotspots on the chromatin

A review of the genus Coccoglypta Pilsbry, 1895 (Gastropoda: Pulmonata: Camaenidae)

FIG. 6. — Potential members of the genus Coccoglypta Pilsbry, 1895: A-D, syntype of Coccoglypta arbusticola (Deshayes, 1870) n. comb. (MNHN-IM-2000-34192); E-H, "Bradybaena" chrysomphala (Möllendorff, 1899), SMF 9159 (lectotype); I-L, Coccoglypta cf. leprosula n. comb. (Heude, 1885) from the Guanwushan Forest Farm. Scale bar: 30 mm.Published as part of Páll-Gergely, Barna, Hunyadi, András, Chen, Zhe-Yu & Lyu, Zhi-Tong, 2019, A review of the genus Coccoglypta Pilsbry, 1895 (Gastropoda: Pulmonata: Camaenidae), pp. 595-608 in Zoosystema 41 (29) on page 603, DOI: 10.5252/zoosystema2019v41a29, http://zenodo.org/record/372611

Full-length-body CBCT imaging in upright position with robotic-arm system: a simulation study

Upright position CT scans make it possible for full-length-body imaging at conditions more relevant to daily situations, but the substantial weight of the upright CT scanners increases the risks to floor's stability and patients'safety. Robotic-arm CBCT systems are supposed to be a better solution for this task, but such systems still face challenges including long scanning time and low reconstruction quality. To address the above challenges, this paper proposes a novel method to calculate optimal scanning pitch based on data completeness analysis, which can complete the whole-body scan in the shortest time without a significant decline in image quality. Besides, an FDK-style reconstruction method based on normalized projections is proposed to obtain fast image reconstruction. Extensive experiments prove the effectiveness of the proposed optimal scanning trajectory. Qualitative and quantitative comparisons with FDK and iterative algorithms show that the proposed reconstruction method can obtain high imaging quality with reasonable computation costs. The method proposed in this paper is expected to promote the application of robotic-arm CBCT systems in orthopedic functional analysis.Comment: Submitted to ISBI'2

Prediction and analysis of ultimate bearing capacity of square CFST long column under eccentric compression after acid rain corrosion

This paper adopts the method of steel tube wall thickness and strength reduction to simulate corrosion damage. The numerical model of the square concrete-filled steel tube long column (SCFST-LC) under eccentric compression after acid rain corrosion is established in the finite element software, ABAQUS. The reliability and accuracy of the model are verified by comparing it with published relevant experimental results. The failure mode, load-deformation curve, and ultimate compressive load were analysed. Following that, the impacts of section size, yield strength of the steel tube, axial compressive strength of concrete, steel ratio, slenderness ratio, and load eccentricity on its ultimate compressive load are comprehensively investigated. The results demonstrate that the ultimate compressive load of the SCFST-LC decreases significantly with the increase in corrosion rate. The corrosion rate increases from 10 to 40%, and the ultimate bearing capacity decreases by 37.6%. Its ultimate bearing capacity can be enhanced due to the increase in section size, material strength, and steel ratio. In contrast, the ascending slenderness ratio and load eccentricity has harmful effects on the ultimate compressive load of the specimens. Finally, a simplified formula for the axial compressive load of the SCFST-LC under eccentric compression after acid rain corrosion is proposed. The calculation accuracy is high and the deviation of the results is basically within 15%, which is in good agreement with the numerical simulation results

Dibaryon with highest charm number near unitarity from lattice QCD

A pair of triply charmed baryons, $\Omega_{ccc}\Omega_{ccc}$, is studied as an ideal dibaryon system by (2+1)-flavor lattice QCD with nearly physical light-quark masses and the relativistic heavy quark action with the physical charm quark mass. The spatial baryon-baryon correlation is related to their scattering parameters on the basis of the HAL QCD method. The $\Omega_{ccc}\Omega_{ccc}$ in the ${^1S_0}$ channel taking into account the Coulomb repulsion with the charge form factor of $\Omega_{ccc}$ leads to the scattering length $a^{\rm C}_0\simeq -19~\text{fm}$ and the effective range $r^{\rm C}_{\mathrm{eff}}\simeq 0.45~\text{fm}$. The ratio $r^{\rm C}_{\mathrm{eff}}/a^{\rm C}_0 \simeq -0.024$, whose magnitude is considerably smaller than that of the dineutron ($-0.149$), indicates that $\Omega_{ccc}\Omega_{ccc}$ is located in the unitary regime.Comment: 6 pages, 4 figures; Supplemental Material(1 page, 1 figure); Accepted for publication in Physical Review Letter