cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Innesoconcha Iredale 1944
Creators: name: Hyman, Isabel T.
name: Caiza, Jennifer
name: Köhler, Frank
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Stylommatophora
Euconulidae
Innesoconcha

description: INNESOCONCHA IREDALE, 1944
 Innesoconcha Iredale, 1944: 325.
 Type species Helix (Microcystis) catletti Brazier, 1872 (by original designation).
 Melloconcha Iredale, 1944: 323.
 Type species Melloconcha delecta Iredale, 1944 (by original designation), synon. nov.
 Tribocystis Iredale, 1944: 323.
 Type species Tribocystis rosacea Iredale, 1944 (by original designation), synon. nov.
 Annacharis Iredale, 1944: 324.
 Type species Annacharis miranda Iredale, 1944 (by original designation), synon. nov.
 Synonymy of Tribocystis and Annacharis with Melloconcha follows Smith (1992).
 Description
 External morphology: Shell small to medium-sized [shell width(hereafter,SW) 3.7–12.0mm, shellheight (hereafter, SH) 1.8–7.8 mm], 4.5–5.5 whorls, glossy, pale golden to dark amber-brown, sometimes with a darker peripheral band. Shell shape discoidal, trochoidal or domed with a low to elevated spire; whorl profile flattened or rounded above and below a rounded to angulate periphery; sutures weakly impressed to strongly channelled. Protoconch sculptured with incised spiral grooves; teleoconch smooth or sculptured with microscopic spiral grooves. Aperture ovately lunate, width greater than height, lip thin; columella smooth or with a small tooth. Internal walls of early whorls complete; umbilicus closed. Right shell lappet long, narrow, finger-shaped; left shell lappet narrow, finger-shaped, sometimes reduced or absent. Caudal horn moderately small to moderately large; caudal foss a horizontal slit in tail.
description: Published as part of Hyman, Isabel T., Caiza, Jennifer & Köhler, Frank, 2023, Dissecting an island radiation: systematic revision of endemic land snails on Lord Howe Island (Gastropoda: Stylommatophora: Microcystidae), pp. 20-75 in Zoological Journal of the Linnean Society 197 (1) on page 49, DOI: 10.1093/zoolinnean/zlac075, http://zenodo.org/record/7499138
Additional file 5: of Targeting interleukin-6 as a strategy to overcome stroma-induced resistance to chemotherapy in gastric cancer
Creators: name: Ham, In-Hye
name: Oh, Hye Jeong
name: Hyejin Jin
name: Bae, Cheong A
name: Sang-Min Jeon
name: Choi, Kyeong Sook
name: Sang-Yong Son
name: Sang-Uk Han
name: Brekken, Rolf
name: Dakeun Lee
name: Hur, Hoon
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Cancer
subject: Computational Biology

description: Table S1. The genes with highest co-expression correlation with IL-6 in TCGA gastric cancer dataset. (DOCX 24 kb)
Overscreened multi-channel SU(N) Kondo model : large-N solution and Conformal Field Theory
Creators: name: Parcollet, Olivier
name: Georges, Antoine
name: Kotliar, Gabriel
name: Sengupta, Anirvan
Publisher: name: arXiv
Year: 1997
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: The multichannel Kondo model with SU(N) spin symmetry and SU(K) channel symmetry is considered. The impurity spin is chosen to transform as an antisymmetric representation of SU(N), corresponding to a fixed number of Abrikosov fermions $\sum_αf_α^{\dagger}f_α=Q$. For more than one channel (K>1), and all values of N and Q, the model displays non-Fermi behaviour associated with the overscreening of the impurity spin. Universal low-temperature thermodynamic and transport properties of this non-Fermi liquid state are computed using conformal field theory methods. A large-N limit of the model is then considered, in which K/N and Q/N are held fixed. Spectral densities satisfy coupled integral equations in this limit, corresponding to a (time-dependent) saddle-point. A low frequency, low-temperature analysis of these equations reveals universal scaling properties in the variable $ω/T$, also predicted from conformal invariance. The universal scaling form is obtained analytically and used to compute the low-temperature universal properties of the model in the large-N limit, such as the T=0 residual entropy and residual resistivity, and the critical exponents associated with the specific heat and susceptibility. The connections with the ``non-crossing approximation'' and the previous work of Cox and Ruckenstein are discussed.
description: 39 pages, RevTeX, including 5 figures in encapsulated postscript format
The effect of water/carbon interaction strength on interfacial thermal resistance and the surrounding molecular nanolayer of CNT and graphene nanoparticles
Creators: name: Jabbari, Fatemeh
name: Rajabpour, Ali
name: Saedodin, Seyfollah
name: Wongwises, Somchai
Publisher: name: arXiv
Year: 2019
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: FOS: Physical sciences

description: Heat transfer at the liquid/solid interface, especially at the nanoscale, has enormous importance in nanofluids. This study investigates liquid/solid interfacial thermal resistance and structure of the formed molecular nanolayer around a carbon-based nanoparticle. Employing non-equilibrium molecular dynamics simulation and thermal relaxation method, the nanofluid systems with different nanoparticle diameters and different surface wettability were investigated. Simulation results show that carbon nanotubes (CNTs) with a smaller diameter attract more value of the base fluid and lead to a reduced Kapitza resistance. It was found that the thickness of the nanolayer around the nanoparticle is independent of the water/carbon interaction strength. Also, the value of the Kapitza resistance decreases with increasing the interaction strength. Ultimately, a correlation was proposed for the thermal resistance of CNT/water and graphene/water nanofluids in terms of wettability intensity of nanoparticle surface. The proposed correlation in addition to fitting to simulation results can cover the physical conditions of the system.
description: 20 pages, 12 figures
Recombination between two strains of vaccinia virus
Creators: name: Comben, Brian Maxwell
Publisher: name: The Australian National University
Year: 1959
Subjects: Vaccinia
Genetic recombination

description: Two strains of vaccinia virus were selected which differed by five separate markers: pock morphology on the chorioallantoic membrane of the chick embryo, the production of haemagglutinin, heat resistance, mouse virulence when inoculated intracerebrally and type of skin lesion produced in the rabbit. homogeneous for the five markers, and that the markers were stable on pure culture passage. cultures were infected with mixtures of the two strains and an analysis was made of the progeny of such infections. One hundred and forty-nine progeny clones were isolated, and of these seventeen differed from both parental strains in their marker characteristics. It is believed that these arose by genetic recombination. Intermediates were found for the markers: pock morphology, mouse virulence and type of rabbit skin lesion, whereas haemagglutinin production and heat resistance appeared to be all-or-none characters. A preliminary analysis was made of single HeLa cell yields and of the proportion of heat resistant recombinants to the total progeny.
K2 Ultracool Dwarfs Survey. V. High superflare rates on rapidly rotating late-M dwarfs
Creators: name: Paudel, Rishi R.
name: Gizis, John E.
name: Mullan, D. J.
name: Schmidt, Sarah J.
name: Burgasser, Adam J.
name: Williams, Peter K. G.
name: Youngblood, Allison
Publisher: name: arXiv
Year: 2018
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: We observed strong superflares (defined as flares with energy in excess of 10^33 erg) on three late-M dwarfs: 2MASS J08315742+2042213 (hereafter 2M0831+2042; M7 V), 2MASS J08371832+2050349 (hereafter 2M0837+2050; M8 V) and 2MASS J08312608+2244586 (hereafter 2M0831+2244; M9 V). 2M0831+2042 and 2M0837+2050 are members of the young (~700 Myr) open cluster Praesepe. The strong superflare on 2M0831+2042 has an equivalent duration (ED) of 13.7 hr and an estimated energy of 1.3 X 10^35 erg. We observed five superflares on 2M0837+2050, on which the strongest superflare has an ED of 46.4 hr and an estimated energy of 3.5 X 10^35 erg. This energy is larger by 2.7 orders of magnitude than the largest flare observed on the older (7.6 Gyr) planet-hosting M8 dwarf TRAPPIST-1. Furthermore, we also observed five superflares on 2M0831+2244 which is probably a field star. The estimated energy of the strongest superflare on 2M0831+2244 is 6.1 X 10^34 erg. 2M0831+2042, 2M0837+2050 and 2MASS J0831+2244 have rotation periods of 0.556\pm0.002, 0.193\pm0.000 and 0.292\pm0.001 d respectively, which are measured by using K2 light curves. We compare the flares of younger targets with those of TRAPPIST-1 and discuss the possible impacts of such flares on planets in the habitable zone of late-M dwarfs.
description: 10 pages, 10 figures, submitted to MNRAS
Additional file 2 of Cancer-derived exosomal miR-7641 promotes breast cancer progression and metastasis
Creators: name: Shen, Songjie
name: Song, Yu
name: Zhao, Bin
name: Xu, Yali
name: Ren, Xinyu
name: Zhou, Yidong
name: Sun, Qiang
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Plant Biology

description: Additional file 1: Table S1. The primers used for qRT-PCR analysis were purchased from RiboBio (Guangzhou, China) and the catalog numbers of miRNAs were listed as following.
A continual monitoring method of measuring single ion diffusion coefficients
Creators: name: Godbole, Eknath Waman
Publisher: name: The Australian National University
Year: 1959
Subjects: ions
diffusion

description: The limiting expressions derived by Onsager were applied to the problem of single ion diffusion by Gosting and Harned in 1951. At the same time these authors have pointed out the need and significance of testing the validity of the Onsager limiting law. In the discussions of the Faraday Society in 1957, Harned has once again stressed the need for this work. Here he says, "... a more exact proof of the validity of the limiting equation offers a difficult challenge to the experimenter since precise results at concentrations less than 0.01 M will be required." However, these important suggestions had to await the steady advance of the improvements in techniques leading to ever increasing precision in the measurement of the self-diffusion coefficients. (First paragraph of preface.)
Duganella lactea Lu & Deng & Liu & Wang & Yang & Xu 2020, SP. NOV.
Creators: name: Lu, Huibin
name: Deng, Tongchu
name: Liu, Feifei
name: Wang, Yonghong
name: Yang, Xunan
name: Xu, Meiying
Publisher: name: Zenodo
Year: 2020
Subjects: Biodiversity
Taxonomy
Bacteria
Proteobacteria
Betaproteobacteria
Burkholderiales
Oxalobacteraceae
Duganella
Duganella lactea

description: DESCRIPTION OF DUGANELLA LACTEA SP. NOV.
 Duganella lactea (lac’te.a. L. fem. adj. lactea milky, referring to the morphology and colour of colonies).
 Cells are Gram-stain-negative, facultative anaerobic, rod-shaped, motile with several flagella, 2.1–2.7 µm long and 0.7–0.9 µm wide. Colonies are creamy and convex. Growth occurs at 4–34 °C (optimum, 24 °C), pH 4.0–10.5 (optimum, pH 7.0–7.5) and 0–1.5% NaCl (w/v; optimum, 0–0.5%). Positive for oxidase, catalase, urease and nitrate reduction, but negative for H 2 S production, phenylalanine deaminase, VP test, methyl red test and indole production. Hydrolyses Tweens (20, 40, 60 and 80) and aesculin, but not casein or starch. Utilizes maltose monohydrate, lactose monohydrate, D-glucose, sucrose and L-arabinose, but not trehalose dihydrate, starch, glycerol, mannitol, D-sorbitol, L-glutamic acid, L-valine, glycine, L-serine,L-aspartic acid, sodium pyruvate, sodium oxalate, sodium formate dihydrate or disodium fumarate. Negative for esterase (C4), cystine arylamidase, trypsin, α -chymotrypsin, β -glucuronidase, α -glucosidase, α -mannosidase and α -fucosidase; positive for alkaline phosphatase, leucine arylamidase, valine arylamidase, acid phosphatase, naphthol-AS-BI-phosphohydrolase, α -galactosidase, β -galactosidase, β -glucosidase and N - acetylβ -glucosaminidase. The major fatty acids are C 16:1 ω 7 c, C 16:0, C 12:0, C 10:0 3OH and C 18:1 ω7 c. The polar lipids include phosphatidylethanolamine, phosphatidylglycerol and one unidentified phospholipid. The G+C content of genomic DNA is 63.3–63.8%.
 The type strain, FT50WT (=GDMCC 1.1674 T =KACC 21466 T), was isolated from a subtropical stream in PR China. The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA gene sequence and the draft genome of strain FT50WT are MN865818 and WWCP00000000, respectively.
description: Published as part of Lu, Huibin, Deng, Tongchu, Liu, Feifei, Wang, Yonghong, Yang, Xunan & Xu, Meiying, 2020, DUganella laCTea sp. nov., DUganella gUangzHOUensis sp. nov., DUganella flavida sp. nov. and Massilia rivUli sp. nov., isolated from a subtropical stream in PR China and proposal to reclassify DUganella ginsengisOli as Massilia ginsengisOli comb. nov., pp. 4822-4830 in International Journal of Systematic and Evolutionary Microbiology 70 (8) on page 4827, DOI: 10.1099/ijsem.0.004355, http://zenodo.org/record/6224074
Viscous transport and Hall viscosity in a two-dimensional electron system
Creators: name: Gusev, G. M.
name: Levin, A. D.
name: Levinson, E. V.
name: Bakarov, A. K.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Hall viscosity is a nondissipative response function describing momentum transport in two-dimensional (2D) systems with broken time-reversal symmetry. In the classical regime, Hall viscosity contributes to the viscous flow of 2D electrons in the presence of a magnetic field. We observe a pronounced, negative Hall resistivity at low magnetic field in a mesoscopic size, two-dimensional electron system, which is attributed to Hall viscosity in the inhomogeneous charge flow. Experimental results supported by a theoretical analysis confirm that the conditions for observation of Hall viscosity are correlated with predictions.
description: 8 pages, 7 figures
Formation and Evolution of Black Hole X-ray Transient Systems
Creators: name: Brown, G. E.
name: Lee, C. -H.
name: Taruis, T. M.
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: We study the formation of low-mass black hole X-ray binaries with main sequence companions that have formed through case C mass transfer (mass transfer following the helium core burning phase of the black hole progenitor). We identify these objects with the observed soft X-ray transients. Although this scenario requires a set of fine tuned conditions, we are able to produce a current Galactic population of about 2000 objects, in agreement with estimates based on observations. The narrow interval in initial separations leading to case C mass transfer, combined with the allowed narrow range of separations after the common envelope evolution, constrains the common envelope efficiency in this scenario: $λα_{ce} \approx 0.2-0.5$.
description: 14 pages, 3 figures, New Astronomy, accepted. Main changes in Introduction
Additional file 1: of Technology-based cognitive training and rehabilitation interventions for individuals with mild cognitive impairment: a systematic review
Creators: name: Ge, Shaoqing
name: Zhu, Zheng
name: Wu, Bei
name: McConnell, Eleanor
Publisher: name: figshare
Year: 2018
Subjects: Space Science
Medicine
Biotechnology
Environmental Sciences not elsewhere classified
Chemical Sciences not elsewhere classified
Biological Sciences not elsewhere classified
Mathematical Sciences not elsewhere classified
Science Policy
Mental Health

description: Table S1. Searching Strategy. Table S2. Results of quality assessment based on JBI critical appraisal checklist for randomized controlled trials*. Table S3. Results of quality assessment based on JBI critical appraisal checklist for quasi-experimental studies*. Figure S1. Forest plot - RBANS score (computer-based intervention VS. Control). (DOCX 34 kb)
Additional file 1: of Assessment of agreement and interchangeability between the TEG5000 and TEG6S thromboelastography haemostasis analysers: a prospective validation study
Creators: name: P. Lloyd-Donald
name: L. Churilov
name: F. Zia
name: R. Bellomo
name: G. Hart
name: P. McCall
name: J. MĂĽrtensson
name: N. Glassford
name: L. Weinberg
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Medicine
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Science Policy

description: Appendix 1. TEG6S machine 1 and machine 2, and TEG5000 systems coefficient of variation analyses. (DOCX 66 kb)
Intrinsic resistivity and the SO(5) theory of high-temperature superconductors
Creators: name: Sheehy, Daniel E.
name: Goldbart, Paul M.
Publisher: name: arXiv
Year: 1997
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: The topological structure of the order parameter in Zhang's SO(5) theory of superconductivity allows for an unusual type of dissipation mechanism via which current-carrying states can decay. The resistivity due to this mechanism, which involves orientation rather than amplitude order-parameter fluctuations, is calculated for the case of a thin superconducting wire. The approach is a suitably modified version of that pioneered by Langer and Ambegaokar for conventional superconductors.
description: 4 pages, including 1 figure (REVTEX); references added, minor corrections made
Innesoconcha flavescens
Creators: name: Hyman, Isabel T.
name: Caiza, Jennifer
name: Köhler, Frank
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Stylommatophora
Euconulidae
Innesoconcha
Innesoconcha flavescens

description: INNESOCONCHA FLAVESCENS (IREDALE, 1944)
(FIGS 5F, 6D, E, 16D–F, 18, 19)
description: Published as part of Hyman, Isabel T., Caiza, Jennifer & Köhler, Frank, 2023, Dissecting an island radiation: systematic revision of endemic land snails on Lord Howe Island (Gastropoda: Stylommatophora: Microcystidae), pp. 20-75 in Zoological Journal of the Linnean Society 197 (1) on page 61, DOI: 10.1093/zoolinnean/zlac075, http://zenodo.org/record/7499138
Additional file 3: of Targeting interleukin-6 as a strategy to overcome stroma-induced resistance to chemotherapy in gastric cancer
Creators: name: Ham, In-Hye
name: Oh, Hye Jeong
name: Hyejin Jin
name: Bae, Cheong A
name: Sang-Min Jeon
name: Choi, Kyeong Sook
name: Sang-Yong Son
name: Sang-Uk Han
name: Brekken, Rolf
name: Dakeun Lee
name: Hur, Hoon
Publisher: name: figshare
Year: 2019
Subjects: subject: Cell Biology
subject: Molecular Biology
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: 60506 Virology
subject: FOS: Biological sciences

description: Figure S2. a Representative photographs displaying immunofluorescent staining for interleukin-6 (IL-6, in green) and DAPI staining of nuclei in the harvested xenograft tumors derived from MKN-1 cells only or MKN-1 cells mixed with cancer-associated fibroblasts (CAFs) after treatment with 5-fluorouracil (5-FU). b Results from quantitative PCR analysis showing the expression of IL6 mRNA in CAF lysates with and without co-culture with gastric cancer cell lines MKN-45, MKN-28, and KATO-III. c ELISA showing the concentration of IL-6 in the CAF-conditioned media with and without co-culture with MKN-45 cells or treatment with 5-FU. d Western blot analysis demonstrating the expression of the indicated proteins in lysates of CAF cultures with and without co-culture with MKN-45 cells or 5-FU treatment. (DOCX 713 kb)
Membrane penetration and trapping of an active particle
Creators: name: Daddi-Moussa-Ider, Abdallah
name: Goh, Segun
name: Liebchen, Benno
name: Hoell, Christian
name: Mathijssen, Arnold J. T. M.
name: Guzmán-Lastra, Francisca
name: Scholz, Christian
name: Menzel, Andreas M.
name: Löwen, Hartmut
Publisher: name: arXiv
Year: 2019
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: Fluid Dynamics (physics.flu-dyn)
subject: FOS: Physical sciences

description: The interaction between nano- or micro-sized particles and cell membranes is of crucial importance in many biological and biomedical applications such as drug and gene delivery to cells and tissues. During their cellular uptake, the particles can pass through cell membranes via passive endocytosis or by active penetration to reach a target cellular compartment or organelle. In this manuscript, we develop a simple model to describe the interaction of a self-driven spherical particle (moving through an effective constant active force) with a minimal membrane system, allowing for both penetration and trapping. We numerically calculate the state diagram of this system, the membrane shape, and its dynamics. In this context, we show that the active particle may either get trapped near the membrane or penetrates through it, where the membrane can either be permanently destroyed or recover its initial shape by self-healing. Additionally, we systematically derive a continuum description allowing to accurately predict most of our results analytically. This analytical theory helps identifying the generic aspects of our model, suggesting that most of its ingredients should apply to a broad range of membranes, from simple model systems composed of magnetic microparticles to lipid bilayers. Our results might be useful to predict mechanical properties of synthetic minimal membranes.
description: 16 pages, 6 figures. Revised manuscript resubmitted to J. Chem. Phys
Spin Dynamics for the t-J Model
Creators: name: Huang, Zhongbing
name: Feng, Shiping
Publisher: name: arXiv
Year: 1998
Subjects: subject: Condensed Matter (cond-mat)
subject: FOS: Physical sciences

description: The spin dynamics at the finite temperature for the t-J model in the underdoped and optimal doped regimes is studied within the fermion-spin theory. It is shown that the dynamical spin structure factor spectrum at the antiferromagnetic wave vector $Q=(π,π)$ are separated as low- and high-frequency parts, respectively, but the high-frequency part is suppressed in the dynamical susceptibility spectrum $χ^{''}(Q,ω)$, while the low-frequency part is the temperature dependent, which are in qualitative agreement with the experiments and numerical simulations.
description: 3 pages, three figures are added
A prognosis oriented microscopic stock market model
Creators: name: Busshaus, C.
name: Rieger, H.
Publisher: name: arXiv
Year: 1999
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Disordered Systems and Neural Networks (cond-mat.dis-nn)
subject: Trading and Market Microstructure (q-fin.TR)
subject: FOS: Physical sciences
subject: FOS: Economics and business

description: We present a new microscopic stochastic model for an ensemble of interacting investors that buy and sell stocks in discrete time steps via limit orders based on individual forecasts about the price of the stock. These orders determine the supply and demand fixing after each round (time step) the new price of the stock according to which the limited buy and sell orders are then executed and new forecasts are made. We show via numerical simulation of this model that the distribution of price differences obeys an exponentially truncated Levy-distribution with a self similarity exponent mu~5.
description: 14 pages RevTeX, 5 eps-figures included
Integrating Runtime Values with Source Code to Facilitate Program Comprehension
Creators: name: Sulír, Matúš
Publisher: name: arXiv
Year: 2018
Subjects: subject: Software Engineering (cs.SE)
subject: FOS: Computer and information sciences

description: An inherently abstract nature of source code makes programs difficult to understand. In our research, we designed three techniques utilizing concrete values of variables and other expressions during program execution. RuntimeSearch is a debugger extension searching for a given string in all expressions at runtime. DynamiDoc generates documentation sentences containing examples of arguments, return values and state changes. RuntimeSamp augments source code lines in the IDE (integrated development environment) with sample variable values. In this post-doctoral article, we briefly describe these three approaches and related motivational studies, surveys and evaluations. We also reflect on the PhD study, providing advice for current students. Finally, short-term and long-term future work is described.
Additional file 4: of Targeting interleukin-6 as a strategy to overcome stroma-induced resistance to chemotherapy in gastric cancer
Creators: name: Ham, In-Hye
name: Oh, Hye Jeong
name: Hyejin Jin
name: Bae, Cheong A
name: Sang-Min Jeon
name: Choi, Kyeong Sook
name: Sang-Yong Son
name: Sang-Uk Han
name: Brekken, Rolf
name: Dakeun Lee
name: Hur, Hoon
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Molecular Biology
subject: Pharmacology
subject: Biotechnology
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Figure S3. a Western blot analysis demonstrating the expression of the indicated proteins in lysates from MKN-45 cells after 5-FU (5â ÎźM) treatment with and without CAFs and subsequently treated with Ruxolitinib (500â nM/ml). (DOCX 187 kb)
Resolving the Image of Gamma-Ray Burst Afterglows with Gravitational Microlensing
Creators: name: Gaudi, B. Scott
name: Loeb, Abraham
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: Microlensing of a gamma-ray burst afterglow by an intervening star can be used to infer the radial structure of the afterglow image. Near the peak of the microlensing event, the outer edge of the image is more highly magnified than its central region, whereas the situation is reversed at later times due to the rapid radial expansion of the image on the sky. Thus, the microlensed afterglow light curve can be inverted to recover the self-similar radial intensity profile of the afterglow image. We calculate the expected errors in the recovered intensity profile as a function of the number of resolution elements, under the assumption that the afterglow and microlensing event parameters are known. For a point-mass lens and uniform source, we derive a simple scaling relation between these parameters and the resultant errors. The afterglow need not be monitored for its entire duration; rather, observations from the peak magnification time t_p of the microlensing event until 7 t_p are sufficient to resolve the majority of the image. Thus, microlensing events can be alerted by relatively infrequent observations of afterglows and then monitored intensively, without significant loss of information about the afterglow intensity profile. The relative intensity profile of about 1% of all afterglows can be measured with 10 resolution elements to an accuracy of 1% in the optical and 10% in the infrared, using 4m-class telescopes. Weak microlensing events with large impact parameters are more common; we estimate that for about 10% of afterglows the image profile may be inverted to a fractional accuracy 20% through frequent optical observations. We also calculate the effects of external shear due to the host galaxy or a binary companion, and contamination by background light from the host galaxy.
description: Minor changes. 32 pages, 9 figures. Accepted to ApJ. To appear in Sept 10, 2001 issue (v558)
Innesoconcha miranda
Creators: name: Hyman, Isabel T.
name: Caiza, Jennifer
name: Köhler, Frank
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Stylommatophora
Euconulidae
Innesoconcha
Innesoconcha miranda

description: INNESOCONCHA MIRANDA (IREDALE, 1944)
(FIGS 5H, 21; TABLE 1)
description: Published as part of Hyman, Isabel T., Caiza, Jennifer & Köhler, Frank, 2023, Dissecting an island radiation: systematic revision of endemic land snails on Lord Howe Island (Gastropoda: Stylommatophora: Microcystidae), pp. 20-75 in Zoological Journal of the Linnean Society 197 (1) on page 65, DOI: 10.1093/zoolinnean/zlac075, http://zenodo.org/record/7499138
Spectral Representation of Thermal OTO Correlators
Creators: name: Chaudhuri, Soumyadeep
name: Chowdhury, Chandramouli
name: Loganayagam, R.
Publisher: name: arXiv
Year: 2018
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: We study the spectral representation of finite temperature, out of time ordered (OTO) correlators on the multi-time-fold generalised Schwinger-Keldysh contour. We write the contour-ordered correlators as a sum over time-order permutations acting on a funda- mental array of Wightman correlators. We decompose this Wightman array in a basis of column vectors, which provide a natural generalisation of the familiar retarded-advanced basis in the finite temperature Schwinger-Keldysh formalism. The coefficients of this de- composition take the form of generalised spectral functions, which are Fourier transforms of nested and double commutators. Our construction extends a variety of classical results on spectral functions in the SK formalism at finite temperature to the OTO case.
description: 19 pages+appendices, references added
Levinson's theorem and scattering phase shift contributions to the partition function of interacting gases in two dimensions
Creators: name: Portnoi, M. E.
name: Galbraith, I.
Publisher: name: arXiv
Year: 1998
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: We consider scattering state contributions to the partition function of a two-dimensional (2D) plasma in addition to the bound-state sum. A partition function continuity requirement is used to provide a statistical mechanical heuristic proof of Levinson's theorem in two dimensions. We show that a proper account of scattering eliminates singularities in thermodynamic properties of the nonideal 2D gas caused by the emergence of additional bound states as the strength of an attractive potential is increased. The bound-state contribution to the partition function of the 2D gas, with a weak short-range attraction between its particles, is found to vanish logarithmically as the binding energy decreases. A consistent treatment of bound and scattering states in a screened Coulomb potential allowed us to calculate the quantum-mechanical second virial coefficient of the dilute 2D electron-hole plasma and to establish the difference between the nearly ideal electron-hole gas in GaAs and the strongly correlated exciton/free-carrier plasma in wide-gap semiconductors such as ZnSe or GaN.
description: 10 pages, 3 figures; new version corrects some minor typos
Improved Discrete RRT for Coordinated Multi-robot Planning
Creators: name: Hvězda, Jakub
name: Kulich, Miroslav
name: Přeučil, Libor
Publisher: name: arXiv
Year: 2019
Subjects: subject: Robotics (cs.RO)
subject: FOS: Computer and information sciences

description: This paper addresses the problem of coordination of a fleet of mobile robots - the problem of finding an optimal set of collision-free trajectories for individual robots in the fleet. Many approaches have been introduced during the last decades, but a minority of them is practically applicable, i.e. fast, producing near-optimal solutions, and complete. We propose a novel probabilistic approach based on the Rapidly Exploring Random Tree algorithm (RRT) by significantly improving its multi-robot variant for discrete environments. The presented experimental results show that the proposed approach is fast enough to solve problems with tens of robots in seconds. Although the solutions generated by the approach are slightly worse than one of the best state-of-the-art algorithms presented in (ter Mors et al., 2010), it solves problems where ter Mors's algorithm fails.
On Cutting Planes
Creators: name: Schrijver, A
name: Schrijver, A
Publisher: name: Unknown
Year: 1980
Subjects: subject: Research Methods/ Statistical Methods
subject: cutting plane
subject: polyhedron
subject: integer linear programming

description: We give a geometrical description of Chvatal's version of Gomory's cutting plane method. Restricting ourselves to rational spaces, we prove that the derived geometrical objects are polyhedra again, and that the method also works for unbounded polyhedra.
Josephson glass and decoupling of flux lattices in layered superconductors
Creators: name: Horovitz, Baruch
name: Goldin, T. Ruth
Publisher: name: arXiv
Year: 1997
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: Phase transitions of a flux lattice in layered superconductors with magnetic field perpendicular to the layers and in presence of disorder are studied. We find that the Josephson coupling between layers leads to a strongly pinned Josephson glass (JG) phase at low temperatures and fields. The JG phase undergoes either a decoupling transition with increasing field or a depinning transition with increasing temperature. The resulting phases undergo further depinning and decoupling transitions, respectively, resulting in a phase diagram with a multicritical point where four phases meet. The phase diagram accounts for unusual data on Bi_2Sr_2CaCu_2O_8 such as the "second peak" transition and the recently observed depinning transitions.
description: 5 pages, 1 eps figure, Revtex, Phys. Rev. Lett. (submitted)
Faulhaber and Bernoulli
Creators: name: Zielinski, Ryan
Publisher: name: arXiv
Year: 2018
Subjects: subject: History and Overview (math.HO)
subject: FOS: Mathematics

description: In this note we will use Faulhaber's Formula to explain why the odd Bernoulli numbers are equal to zero.
description: 4 pages. In a future issue of "The Fibonacci Quarterly" this work will appear
Additional file of Silencing of MEG3 attenuated the role of lipopolysaccharides by modulating the miR-93-5p/PTEN pathway in Leydig cells
Creators: name: Zhou, Xu
name: He, Jingliang
name: Chen, Jinbo
name: Cui, Yu
name: Ou, Zhenyu
name: Zu, Xiongbing
name: Liu, Nenghui
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Physiology
subject: Pharmacology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: Infectious Diseases
subject: FOS: Health sciences

description: Additional file of Silencing of MEG3 attenuated the role of lipopolysaccharides by modulating the miR-93-5p/PTEN pathway in Leydig cells
Dictionary learning based regularization in quantitative MRI: A nested alternating optimization framework
Creators: name: Dong, Guozhi
name: Hintermüller, Michael
name: Sirotenko, Clemens
Publisher: name: Weierstrass Institute
Year: 2024
Subjects: subject: Quantitative MRI
subject: quantitative image reconstruction
subject: regularization
subject: variational methods
subject: machine learning
subject: non-convex and non-smooth optimization
subject: 35R30
subject: 49J52
subject: 49J53
subject: 92C55
subject: 68T05

description: In this article we propose a novel regularization method for a class of nonlinear inverse problems that is inspired by an application in quantitative magnetic resonance imaging (MRI). It is a special instance of a general dynamical image reconstruction problem with an underlying time discrete physical model. Our regularization strategy is based on dictionary learning, a method that has been proven to be effective in classical MRI. To address the resulting non-convex and non-smooth optimization problem, we alternate between updating the physical parameters of interest via a Levenberg-Marquardt approach and performing several iterations of a dictionary learning algorithm. This process falls under the category of nested alternating optimization schemes. We develop a general such algorithmic framework, integrated with the Levenberg-Marquardt method, of which the convergence theory is not directly available from the literature. Global sub-linear and local strong linear convergence in infinite dimensions under certain regularity conditions for the sub-differentials are investigated based on the Kurdyka?Lojasiewicz inequality. Eventually, numerical experiments demonstrate the practical potential and unresolved challenges of the method.
Additional file 2: of Hyperactivation of proprioceptors induces microglia-mediated long-lasting pain in a rat model of chronic fatigue syndrome
Creators: name: Yasui, Masaya
name: Menjyo, Yuki
name: Tokizane, Kyohei
name: Shiozawa, Akiko
name: Tsuda, Makoto
name: Inoue, Kazuhide
name: Kiyama, Hiroshi
Publisher: name: figshare
Year: 2019
Subjects: Biochemistry
Neuroscience
Developmental Biology
Science Policy

description: Figure S1. Expression profile of ATF3-positive neurons in the dorsal root ganglion (DRG). A: ATF3 was hardly observed in the L5 DRG of control rats (NCS). B–F: ATF3-positive neurons in each DRG (L2–6) were observed after 6 days of continuous stress-loading (CS). Scale bar: 200 μm. G: Rates of ATF3-positive cells per section were measured from L5 sections in the NCS group and L2-L5 sections in the CS group. Note that the rate of ATF3 expression peaked in the L5 DRG and was significantly higher than that in the L5 DRG of NCS rats. n = 5. ***p
Duganella guangzhouensis Lu & Deng & Liu & Wang & Yang & Xu 2020, SP. NOV.
Creators: name: Lu, Huibin
name: Deng, Tongchu
name: Liu, Feifei
name: Wang, Yonghong
name: Yang, Xunan
name: Xu, Meiying
Publisher: name: Zenodo
Year: 2020
Subjects: Biodiversity
Taxonomy
Bacteria
Proteobacteria
Betaproteobacteria
Burkholderiales
Oxalobacteraceae
Duganella
Duganella guangzhouensis

description: DESCRIPTION OF DUGANELLA GUANGZHOUENSIS  SP. NOV.
 Duganella guangzhouensis (guang.zhou.en’sis. N.L. fem. n. guangzhouensis pertaining to Guangzhou, a city of southern China, where the type strain was isolated).
 Cells are Gram-stain-negative, aerobic, facultative anaerobic, rod-shaped, motile with several flagella, 1.3–2.3 µm long and 0.7–0.8 µm wide. Colonies are creamy and concave with a wrinkled margin. Growth occurs at 10–30 °C (optimum, 24 °C), pH 4.5–9.5 (optimum, pH 7.0) and 0–0.5% NaCl (w/v; optimum, 0%). Positive for oxidase, catalase, urease, nitrate reduction and H 2 S production, but negative for phenylalanine deaminase, VP test, methyl red test and indole production. Hydrolyses Tweens (20, 40, 60 and 80), aesculin, gelatin and starch, but not casein. It utilizes maltose monohydrate, lactose monohydrate, D-glucose, sucrose,D-fructose, L-arabinose, starch, sodium pyruvate and L-aspartic acid, but not trehalose dihydrate, glycerol, mannitol, D-sorbitol, L-glutamic acid, L-valine, glycine,L-proline,L-serine, sodium oxalate, sodium formate dihydrate, sodium acetate anhydrous or disodium fumarate. Negative for lipase (C14), cystine arylamidase, β -glucuronidase, α -mannosidase and α -fucosidase; positive for alkaline phosphatase, leucine arylamidase, valine arylamidase, trypsin, α -chymotrypsin, acid phosphatase, naphthol- AS-BI-phosphohydrolase, β -galactosidase, α -glucosidase and N -acetyl- β -glucosaminidase; weakly positive for esterase (C4), esterase lipase (C8), α -galactosidase and β -glucosidase. The major fatty acids are C 16:1 ω 7 c, C 16:0, C 12:0 and C 18:1 ω7 c. The polar lipids include phosphatidylethanolamine, phosphatidylglycerol and one unidentified phospholipid. The G+C content of genomic DNA is 62.4%.
 The type strain, FT80WT (=GDMCC 1.1678 T =KACC 21470 T), was isolated from a subtropical stream in PR China. The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA gene sequence and the draft genome of strain FT80WT are MN548380 and WKJK00000000, respectively.
description: Published as part of Lu, Huibin, Deng, Tongchu, Liu, Feifei, Wang, Yonghong, Yang, Xunan & Xu, Meiying, 2020, DUganella laCTea sp. nov., DUganella gUangzHOUensis sp. nov., DUganella flavida sp. nov. and Massilia rivUli sp. nov., isolated from a subtropical stream in PR China and proposal to reclassify DUganella ginsengisOli as Massilia ginsengisOli comb. nov., pp. 4822-4830 in International Journal of Systematic and Evolutionary Microbiology 70 (8) on page 4828, DOI: 10.1099/ijsem.0.004355, http://zenodo.org/record/6224074
Additional file 3: of Hyperactivation of proprioceptors induces microglia-mediated long-lasting pain in a rat model of chronic fatigue syndrome
Creators: name: Yasui, Masaya
name: Menjyo, Yuki
name: Tokizane, Kyohei
name: Shiozawa, Akiko
name: Tsuda, Makoto
name: Inoue, Kazuhide
name: Kiyama, Hiroshi
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Marine Biology

description: Figure S2. No evidence of inflammation was observed in the soleus or planter skin. Aâ B: Expression of the macrophage markers OX42 (A and C) and Iba1 (B and D) was examined, although no macrophage accumulation was observed in the soleus of CS rats. Scale bar: 100â Îźm. E: Polymerase chain reaction (PCR) analysis was used to examine the mRNA expression of representative inflammatory cytokines. No increases in cytokine expression were observed in the CS group relative to the expression in the NCS group, although CFA injection revealed marked increases in mRNA expression in both groups (PDF 474 kb)
Innesoconcha segna Iredale 1944
Creators: name: Hyman, Isabel T.
name: Caiza, Jennifer
name: Köhler, Frank
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Stylommatophora
Euconulidae
Innesoconcha
Innesoconcha segna

description: INNESOCONCHA SEGNA IREDALE, 1944
(FIGS 5M, 11, 27; TABLE 1)
 Innesoconcha segna Iredale, 1944: 326; Hyman & Köhler, 2020: 103.
 Type material: Holotype, AM C.114789 (Fig. 5M), Boat Harbour (31°33.67′S, 159°5.85′E), 1912, R.Bell.
 Material examined: See Table 1.
 Description
 External morphology: Shell (Fig. 5M) medium-sized (SW 10.7–12.0 mm, SH 5.9–7.2 mm), 5.7–6.1 whorls, glossy, pale yellow-gold, depressed trochoidal with a low spire. Whorls rounded above and below a rounded periphery; sutures slightly impressed. Columella thickened to form a small tooth. Body colour (in alcohol) light orangebrown. Right shell lappet moderately long, narrow, fingershaped; left shell lappet short, narrow, finger-shaped.
 ReproductiƲe system (Fig. 27): Oviduct with four eggs, one embryo. Penis moderately long, coiled approximately twice in penial tunica; epiphallus enters penis through simple pore; penis internally with small transverse ridges, two longitudinal penis pilasters present. Penial tunica enclosing coiled penis and epiphallus. Epiphallus shorter than penis. Spermatophore short, soft-walled, smooth, peanutshaped tube, closed at both ends.
description: Published as part of Hyman, Isabel T., Caiza, Jennifer & Köhler, Frank, 2023, Dissecting an island radiation: systematic revision of endemic land snails on Lord Howe Island (Gastropoda: Stylommatophora: Microcystidae), pp. 20-75 in Zoological Journal of the Linnean Society 197 (1) on page 71, DOI: 10.1093/zoolinnean/zlac075, http://zenodo.org/record/7499138
Solving the Cosmological Entropy Issue with a Higgs Dilaton
Creators: name: Sloan, David
name: Ellis, George
Publisher: name: arXiv
Year: 2018
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: Current cosmological models require the universe to be in a very smooth initial state before the onset of inflation, a situation to which Penrose ascribes a vanishingly small probability, leading to his proposal of a Conformal Cyclic Cosmology. We present an alternative paradigm, in which the Higgs plays the role of dilaton and resolves this problem by weakening gravity at very early times, thus providing a form of inflation that is compatible with observations and in which the inflaton is solidly related to tested particle physics.
description: 13 pages, 1 figure
Additional file 1: of Targeting interleukin-6 as a strategy to overcome stroma-induced resistance to chemotherapy in gastric cancer
Creators: name: Ham, In-Hye
name: Oh, Hye Jeong
name: Hyejin Jin
name: Bae, Cheong A
name: Sang-Min Jeon
name: Choi, Kyeong Sook
name: Sang-Yong Son
name: Sang-Uk Han
name: Brekken, Rolf
name: Dakeun Lee
name: Hur, Hoon
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Molecular Biology
subject: Biotechnology
subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Cancer
subject: Hematology

description: Supplementary Materials and Methods. (DOCX 46 kb)
The proper motion of the neutron star RXJ1856.5-3754 as measured by optical and X-ray imaging
Creators: name: Neuhaeuser, Ralph
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: The proper motion of the faint (V=25.6 mag) neutron star RXJ1856.5-3754 as measured consistently with both the FORS1 optical imager on the ESO Very Large Telescope (VLT) as well as with the ROSAT High Resolution Imager is presented. With two VLT images obtained with a 0.95 year epoch difference in Apr 1999 and Apr 2000, a proper motion of mu_alpha = 0.326 \pm 0.064" per year to the east and no detectable motion in declination is found, consistent with simultaneous findings by Walter (2001) using three HST observations. Also, by comparing the positional differences between the strong X-ray source RXJ1856.5-3754 and other X-ray sources detected in the same ROSAT High Resolution Imager field (observed in Oct 1994 and Oct 1997), a proper motion of 0.34 \pm 0.12" to the east is detected. This may be the first star, where a proper motion is clearly detected in X-ray images. Additional VLT images taken in half-year intervalls give an upper limit to the parallax of about 51 mas. Furthermore, in archived VLT observations, the first B-band detection of this object is found with B=25.14 \pm 0.41 mag.
description: AN, 2001, Vol. 322 (1), in press