cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Additional file 4: of In silico evidence of de novo interactions between ribosomal and Epstein - Barr virus proteins
Creators: name: Sim, Edmund
name: Talwar, Shruti
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Molecular Biology
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Table S7. Probable interfacial residues of EBNA1 and uL11 explored through the dual docking protocols. The interacting residues of EBNA1 and uL11 binding sites are indicated. Table S8. Predicted interfacial residues involved in hydrophobic and ionic interactions within the EBNA1-uL11 complex. (DOCX 17 kb)
Population Estimates for Electromagnetically-Distinguishable Supermassive Binary Black Holes
Creators: name: Krolik, Julian H.
name: Volonteri, Marta
name: Dubois, Yohan
name: Devriendt, Julien
Publisher: name: arXiv
Year: 2019
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: Distinguishing the photon output of an accreting supermassive black hole binary system from that of a single supermassive black hole accreting at the same rate is intrinsically difficult because the majority of the light emerges from near the ISCOs of the black holes. However, there are two possible signals that can distinctively mark binaries, both arising from the gap formed in circumbinary accretion flows inside approximately twice the binary separation. One of these is a "notch" cut into the thermal spectra of these systems in the IR/optical/UV, the other a periodically-varying excess hard X-ray luminosity whose period is of order the binary orbital period. Using data from detailed galaxy evolution simulations, we estimate the distribution function in mass, mass ratio, and accretion rate for accreting supermassive black hole binaries as a function of redshift and then transform this distribution function into predicted source counts for these two potential signals. At flux levels >~10^{-13}~erg~cm^{-2}~s^{-1}, there may be ~O(10^2) such systems in the sky, mostly in the redshift range ~0.5 < z < ~1. Roughly 10% should have periods short enough (
description: accepted to Ap.J
Metaphire Sims & Easton 1972
Creators: name: Nguyen, Tung. T.
name: Trinh, Binh K. T.
name: Le, Nhan V.
name: Nguyen, Anh D.
Publisher: name: Zenodo
Year: 2015
Subjects: Biodiversity
Taxonomy
Animalia
Annelida
Clitellata
Opisthopora
Megascolecidae
Metaphire

description: Metaphire Sims & Easton, 1972
 Type species. Rhodopis javanica Kinberg, 1867, by monotypy
 Distribution. The genus is widely distributed in the Oriental region, from Japan through the Indo- Australasian archipelago to the rain forests of Australasia eastwards through Oceania (Sims & Easton, 1972).
description: Published as part of Nguyen, Tung. T., Trinh, Binh K. T., Le, Nhan V. & Nguyen, Anh D., 2015, On the polythecate earthworms of the genus Metaphire (Oligochaeta: Megascolecidae) from Vietnam, with descriptions of three new species, pp. 461-470 in Raffles Bulletin of Zoology 63 on page 461, DOI: 10.5281/zenodo.5385803
Additional file 3: of In silico evidence of de novo interactions between ribosomal and Epstein - Barr virus proteins
Creators: name: Sim, Edmund
name: Talwar, Shruti
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Molecular Biology
subject: Pharmacology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Table S5. Predicted interfacial residues of EBNA1 and uL10 explored through the dual docking protocols. The interacting residues of EBNA1 and uL10 binding sites are indicated. Table S6. Predicted interfacial residues involved in hydrophobic and ionic interactions within the EBNA1-uL10 complex (DOCX 18 kb)
Additional file 1 of A cross-case analyses of laboratory professionals-patients interaction for patients accessing laboratory services at University of Cape Coast hospital and Ewim Polyclinic in the Cape Coast Metropolis, Ghana
Creators: name: Adu, Patrick
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Additional file 1: Supplementary data 1. Patient questinnaire. Supplementary data 2. Questionnaire for laboratory staff only.
The Halo Black-Hole X-ray Transient XTE J1118+480
Creators: name: Wagner, R. M.
name: Foltz, C. B.
name: Shahbaz, T.
name: Casares, J.
name: Charles, P. A.
name: Starrfield, S. G.
name: Hewett, P.
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: Optical spectra were obtained of the optical counterpart of the high latitude soft X-ray transient XTE J1118+480 near its quiescent state with the new 6.5 m MMT and the 4.2 m WHT. The spectrum exhibits broad, double-peaked, emission lines of hydrogen from an accretion disk superposed with absorption lines of a K7V-M0V secondary star. Cross-correlation of the 27 individual spectra with late-type stellar template spectra reveals a sinusoidal variation in radial velocity with amplitude K = 701 +/- 10 km/s and orbital period P = 0.169930 +/- 0.000004 d. The mass function, 6.1 +/- 0.3 solar masses, is a firm lower limit on the mass of the compact object and strongly implies that it is a black hole. Photometric observations (R-band) with the IAC 0.8 m telescope reveal ellipsoidal light variations of full amplitude 0.2 mag. Modeling gives a large mass ratio (M1/M2 ~ 20) and a high orbital inclination (i = 81 +/- 2 deg). Our combined fits yield a mass of the black hole in the range M1 = 6.0-7.7 solar masses (90% confidence) for plausible secondary star masses of M2 = 0.09-0.5 solar masses. The photometric period measured during the outburst is 0.5% longer than our orbital period and probably reflects superhump modulations as observed in some other soft X-ray transients. The estimated distance is d = 1.9 +/- 0.4 kpc corresponding to a height of 1.7 +/- 0.4 kpc above the Galactic plane. The spectroscopic, photometric, and dynamical results indicate that XTE J1118+480 is the first firmly identified black hole X-ray system in the Galactic halo.
description: 8 pages, 3 figures, AASTeX 5.0, To Appear in the Astrophysical Journal, Part 1, Volume 556, July 20, 2001
Computer-aided diagnosis in histopathological images of the endometrium using a convolutional neural network and attention mechanisms
Creators: name: Sun, Hao
name: Zeng, Xianxu
name: Xu, Tao
name: Peng, Gang
name: Ma, Yutao
Publisher: name: arXiv
Year: 2019
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: FOS: Computer and information sciences
subject: 92C55

description: Uterine cancer, also known as endometrial cancer, can seriously affect the female reproductive organs, and histopathological image analysis is the gold standard for diagnosing endometrial cancer. However, due to the limited capability of modeling the complicated relationships between histopathological images and their interpretations, these computer-aided diagnosis (CADx) approaches based on traditional machine learning algorithms often failed to achieve satisfying results. In this study, we developed a CADx approach using a convolutional neural network (CNN) and attention mechanisms, called HIENet. Because HIENet used the attention mechanisms and feature map visualization techniques, it can provide pathologists better interpretability of diagnoses by highlighting the histopathological correlations of local (pixel-level) image features to morphological characteristics of endometrial tissue. In the ten-fold cross-validation process, the CADx approach, HIENet, achieved a 76.91 $\pm$ 1.17% (mean $\pm$ s. d.) classification accuracy for four classes of endometrial tissue, namely normal endometrium, endometrial polyp, endometrial hyperplasia, and endometrial adenocarcinoma. Also, HIENet achieved an area-under-the-curve (AUC) of 0.9579 $\pm$ 0.0103 with an 81.04 $\pm$ 3.87% sensitivity and 94.78 $\pm$ 0.87% specificity in a binary classification task that detected endometrioid adenocarcinoma (Malignant). Besides, in the external validation process, HIENet achieved an 84.50% accuracy in the four-class classification task, and it achieved an AUC of 0.9829 with a 77.97% (95% CI, 65.27%-87.71%) sensitivity and 100% (95% CI, 97.42%-100.00%) specificity. In summary, the proposed CADx approach, HIENet, outperformed three human experts and four end-to-end CNN-based classifiers on this small-scale dataset composed of 3,500 hematoxylin and eosin (H&E) images regarding overall classification performance.
description: 22 pages, 8 figures, and 4 tables
Additional file 4: of A novel population of extracellular vesicles smaller than exosomes promotes cell proliferation
Creators: name: Lee, Sang-Soo
name: Jong-Hoon Won
name: Gippeum Lim
name: Jeongran Han
name: Lee, Ji
name: Cho, Kyung-Ok
name: Young-Kyung Bae
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Figure S4. FBS enhances exosome production. (a) Fold changes in number of particles per mL media and per final cell count in the P100 fractions when HEK293 and THP-1 cells were cultured in 10% FBS compared to SF conditions for 48 h. (b,c) These bar graphs show the number of exosomes (b) per mL media and (c) per final cell count when P100 exosomes were isolated from HEK293 CM grown in 10% FBS (blue) and in SF (red) for 48 h. (d) The number of particles per mL media were measured before (shaded) and 48 h after (solid) supplied to HEK293 cells. Exosome samples were isolated by ultracentrifugation (P100). Media were prepared in three types: SF (gray), 10% ED-FBS (exosome depleted FBS) (blue), and 10% FBS (red). (e,f) Time-series analysis of extracellular exosomes of (e) THP-1 cells and (f) HEK293 cells in either SF media (blue), SF media supplemented with the liposomes (orange), and P100 extracted from FBS (red). (g) Histograms showing the size distribution and concentrations of liposomes. (h) The graph shows the number of particles per mL in each ultracentrifugal sub-fraction from 10% FBS media. The exosomes were isolated by Exo-quick-TC. Experiments were repeated three times, each including six technical repeats. The results are displayed as mean ± S.E.M. *Significant difference analyzed by t-test (**p
Additional file 1 of LncRNA:DNA triplex-forming sites are positioned at specific areas of genome organization and are predictors for Topologically Associated Domains
Creators: name: Soibam, Benjamin
name: Zhamangaraeva, Ayzhamal
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 1
The pulse phase-dependent spectrum of the anomalous X-ray pulsar 1RXS J170849-400910
Creators: name: Israel, G. L.
name: Oosterbroek, T.
name: Stella, L.
name: Campana, S.
name: Mereghetti, S.
name: Parmar, A. N.
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: We report on the results of a 50ks BeppoSAX observation of 1RXS J170849-400910, one of the five (plus a candidate) known anomalous X-ray pulsars. The BeppoSAX data are consistent with a power-law plus blackbody spectral decomposition, making 1RXS J170849-400910 the fourth source of this class for which such a spectral decomposition was found. The inferred power-law slope and blackbody temperature are Gamma~2.6 and kT_BB~0.46keV, respectively. We found significant energy-dependence of the pulse profile, a remarkable feature for an AXP. By using the power-law plus blackbody decomposition we detected a significant variation in at least one spectral parameter, the power-law photon index, as a function of the pulse phase. This is the first significant detection of spectral parameter variation in an AXP. The implications of these results are briefly discussed.
description: 5 pages. Accepted for publication on ApJ Letters. emulateapj5.sty macro used
Anisakis simplex
Creators: name: Nagasawa, K.
name: Moravec, F.
Publisher: name: Zenodo
Year: 2002
Subjects: Biodiversity
Taxonomy
Animalia
Nematoda
Secernentea
Ascaridida
Anisakidae
Anisakis
Anisakis simplex

description: Anisakis simplex (Rudolphi, 1809)
(®gure 2)
 Third-stage larva ( W ve specimens). Body 21 820±27 320 long and 412±474 wide; cuticle with very ®ne transverse striations. Cephalic end rounded, with prominent ventral cuticular tooth; latter 8±10 long, ventrally bent, sharply pointed. Anlagen of lips weakly developed. Oesophagus almost cylindrical, muscular, light-coloured, 1730±2580 long. Nerve ring 305±392 from anterior extremity. Ventriculus long, 960±1480, width 209±287, its posterior end obliquely shaped in lateral view. Renette cell very long, darkly coloured, extending anteriorly along ventral side of intestine to level of posterior end of ventriculus; excretory canal narrow, colourless, opening in excretory pore situated below ventral cephalic tooth. Intestine straight. Rectum short, hyaline; three small round unicellular rectal glands present. Tail rounded, 100±157 long, ending in sharp cuticular spike 12±20 long.
 Hosts. Onychoteuthis borealijaponica Okada, 1927 (Onychoteuthidae) and Gonatopsis borealis Sasaki, 1920 (Gonatidae).
 Site of infection. Encapsulated in stomach wall.
 Localities. Central North Paci®c Ocean (42ss39¾N, 179ss30¾W and 43ss39¾N, 179ss30¾W, both 23 June 1993 Ð O. borealijaponica; 44ss39¾N, 179ss30¾W, 24 June 1993 Ð G. borealis) and western North Paci®c Ocean (41ss20¾N, 147ss00¾E, 12 May 1982 Ð O. borealijaponic a).
 Voucher specimens deposited. National Science Museum, Tokyo (NSMT, as 2935 to 2937) and Institute of Parasitology, ASCR, C ÏeskeÂ BudeÏjovice (Cat. No. N-617).
 Comments
 Larvae of the present material are morphologically identical with those reported by Nagasawa and Moravec (1995) from the Japanese common squid, Todarodes japonicus Steenstrup, of the Sea of Japan, but their body size and measurements are generally somewhat smaller, which may be considered an intraspeci®c variability. In the western North Paci®c Ocean, A. simplex larvae were reported from three species of squid hosts, T. paci W cus, O. bartramii and O. borealijaponica (Oshima, 1972; Bagrov, 1982; Kurochkin and Solov’eva, 1982), but there are no records of this parasite from squids in the central North Paci®c Ocean.
 Adult A. simplex is a parasite mainly of cetaceans and pinnipeds in cold temperate and polar waters (Davey, 1971; Kuramochi et al., 1996) and conspeci®c third-stage larvae occur largely in various ®sh species, but also crustaceans, cephalopods and some other invertebrates (Nagasawa, 1990b). This species is known as the main agent of human anisakiosis.
description: Published as part of Nagasawa, K. & Moravec, F., 2002, Larval anisakid nematodes from four species of squid (Cephalopoda: Teuthoidea) from the central and western North Paci ® c Ocean, pp. 883-891 in Journal of Natural History 36 (8) on pages 885-886, DOI: 10.1080/00222930110051752, http://zenodo.org/record/5300179
Lattice Vertex Algebras on General Even, Self-dual Lattices
Creators: name: Kleinschmidt, Axel
Publisher: name: arXiv
Year: 2002
Subjects: subject: Quantum Algebra (math.QA)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Mathematics
subject: FOS: Physical sciences
subject: 17B65; 17B69

description: In this note we analyse the Lie algebras of physical states stemming from lattice constructions on general even, self-dual lattices Gamma^{p,q} with p greater or equal to q. It is known that if the lattice is at most Lorentzian, the resulting Lie algebra is of generalized Kac-Moody type (or has a quotient that is). We show that this is not true as soon as q is larger than 1. By studying a certain sublattice in the case q>1 we obtain results that lead to the conjecture that the resulting non-GKM Lie algebra cannot be described conveniently in terms of generators and relations and belongs to a new and qualitatively different class of Lie algebras.
description: 1+15 pages, LaTeX2e;corrected proof in sect. 5, added references
Metaphire dipapillata
Creators: name: Nguyen, Tung. T.
name: Trinh, Binh K. T.
name: Le, Nhan V.
name: Nguyen, Anh D.
Publisher: name: Zenodo
Year: 2015
Subjects: Biodiversity
Taxonomy
Animalia
Annelida
Clitellata
Opisthopora
Megascolecidae
Metaphire
Metaphire dipapillata

description: Metaphire dipapillata (Thai et Tran, 1986)
(Fig. 4, Table 3)
 Pheretima multitheca dipapillata Thai et Tran, 1986: 9, fig. 3C.
 Metaphire multitheca dipapillata – Blakemore, 2007: 68, “ species inquirenda ”.
 Metaphire dipapillata – Nguyen & Nguyen, 2015: 132.
 Type locality. Vietnam (Nghe An: Ky Son).
 Examined material. 5C (SORC-PV.70.01) Muong Long, Ky Son, Nghe An, 1/1/1986, coll. Tran Ba Cu.
 Diagnosis. First dorsal pore in 11/12. Four thecal segments, multiple spermathecal pores in intersegments 5/6/7/8/9. Male pores located inside highly elevated copulatory pouches in xviii. A pair of round genital markings in intersegment 17/18. Intestinal origin at xvi, caeca simple from xxvii. Septa 8/9/10 absent.
 Remarks. The species was originally described as subspecies Pheretima multitheca dipapillata Thai et Tran, 1986. Blakemore (2007) allocated it to the genus Metaphire but listed it as “ species inquirenda ” without explanation. However, the species is clearly different from Metaphire multitheca (Chen, 1938) in having a pair of genital markings in 17/18, multiple spermathecal pores in 5/6/7/8/9 and first dorsal pore in 11/12. Metaphire multitheca (Chen, 1938) has two pairs of genital markings in front of and behind male porophores in xviii, multiple spermathecal pores on posterior border of segments vi, vii and viii, and first dorsal pore in 12/13 (Table 3). As a result, the species has been raised to full rank and assigned to the genus Metaphire (Nguyen & Nguyen, 2015).
description: Published as part of Nguyen, Tung. T., Trinh, Binh K. T., Le, Nhan V. & Nguyen, Anh D., 2015, On the polythecate earthworms of the genus Metaphire (Oligochaeta: Megascolecidae) from Vietnam, with descriptions of three new species, pp. 461-470 in Raffles Bulletin of Zoology 63 on page 470, DOI: 10.5281/zenodo.5385803
Additional file 1 of Base-substitution mutation rate across the nuclear genome of Alpheus snapping shrimp and the timing of isolation by the Isthmus of Panama
Creators: name: Silliman, Katherine
name: Indorf, Jane L.
name: Knowlton, Nancy
name: Browne, William E.
name: Hurt, Carla
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 1. Table S1. Description of different datasets used in the paper. Table S2. Configuration parameters for G-PhoCS. Figure S1. Distribution of gene ontology annotations from Blast2GO for putative protein-coding loci. Figure S2. Ordination plots of locus-sharing matrices for additional datasets. Figure S3. Quantitative modelling of bias in the number of shared loci between samples.
Hybrid coupling of CG and HDG discretizations based on Nitsche's method
Creators: name: La Spina, Andrea
name: Giacomini, Matteo
name: Huerta, Antonio
Publisher: name: arXiv
Year: 2019
Subjects: subject: Numerical Analysis (math.NA)
subject: Computational Engineering, Finance, and Science (cs.CE)
subject: FOS: Mathematics
subject: FOS: Computer and information sciences
subject: 65N30, 74S05, 74B05, 65N12

description: A strategy to couple continuous Galerkin (CG) and hybridizable discontinuous Galerkin (HDG) discretizations based only on the HDG hybrid variable is presented for linear thermal and elastic problems. The hybrid CG-HDG coupling exploits the definition of the numerical flux and the trace of the solution on the mesh faces to impose the transmission conditions between the CG and HDG subdomains. The continuity of the solution is imposed in the CG problem via Nitsche's method, whereas the equilibrium of the flux at the interface is naturally enforced as a Neumann condition in the HDG global problem. The proposed strategy does not affect the core structure of CG and HDG discretizations. In fact, the resulting formulation leads to a minimally-intrusive coupling, suitable to be integrated in existing CG and HDG libraries. Numerical experiments in two and three dimensions show optimal global convergence of the stress and superconvergence of the displacement field, locking-free approximation, as well as the potential to treat structural problems of engineering interest featuring multiple materials with compressible and nearly incompressible behaviors.
description: 28 pages, 14 figures
Additional file 23 of Transcriptome analysis and molecular mechanism of linseed (Linum usitatissimum L.) drought tolerance under repeated drought using single-molecule long-read sequencing
Creators: name: Wang, Wei
name: Wang, Lei
name: Wang, Ling
name: Tan, Meilian
name: Ogutu, Collins O.
name: Yin, Ziyan
name: Zhou, Jian
name: Wang, Jiaomei
name: Wang, Lijun
name: Yan, Xingchu
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Plant Biology

description: Additional file 23: Table S19. Primers designed for RT-PCR validation.
Structures and decay properties of extremely proton-rich nuclei $^{11,12}$O
Creators: name: Wang, S. M.
name: Nazarewicz, W.
name: Charity, R. J.
name: Sobotka, L. G.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: ${\rm \bf Background:}$ The recent observation of the unbound nucleus $^{11}$O offers the unique possibility to study how the structure and dynamics of two-proton ($2p$) decay is affected by the removal of one neutron from $^{12}$O, and provides important information on the Thomas-Ehrman effect in the mirror pairs $^{11}_{~8}$O$_3$-$^{11}_{~3}$Li$_8$ and $^{12}_{~8}$O$_4$-$^{12}_{~4}$Be$_8$, which involve the $2p$ emitters $^{11}$O and $^{12}$O. ${\rm \bf Purpose:}$ We investigate how continuum effects impact the structure and decay properties of $^{11}$O and $^{12}$O, and their mirror partners. ${\rm \bf Methods:}$ We solve the three-body core-nucleon-nucleon problem using the Gamow coupled-channel (GCC) method. The GCC Hamiltonian employs a realistic finite-range valence nucleon-nucleon interaction and the deformed cores of $^{9,10}$C, $^{9}$Li, and $^{10}$Be. ${\rm \bf Results:}$ We calculate the energy spectra and decay widths of $^{11}$O and $^{12}$O as well as those of their mirror nuclei. In particular, we investigate the dynamics of the $2p$ decay in the ground state of $^{12}$O by analyzing the evolution of the $2p$ configuration of the emitted protons as well as their angular correlations in the coordinate space. We also show how the analytic structure of the resonant states of $^{10}$Li and $^{10}$N impacts the low-lying states of $^{11}$Li and $^{11}$O. ${\rm \bf Conclusions:}$ We demonstrate that, in both nuclei $^{11}$O and $^{12}$O, there is a competition between direct and "democratic" $2p$ ground-state emission. The broad structure observed in $^{11}$O is consistent with four broad resonances, with the predicted $3/2^-_1$ ground state strongly influenced by the broad threshold resonant state in $^{10}$N, which is an isobaric analog of the antibound (or virtual) state in $^{10}$Li.
description: 9 pages, 8 figures
Pions in the Pionless Effective Field Theory
Creators: name: Beane, Silas R.
name: Savage, Martin J.
Publisher: name: arXiv
Year: 2002
Subjects: subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: We show that processes involving pions that remain very near their mass-shell can be reliably computed in the pionless effective field theory, with the pion integrated in as a heavy field. As an application, we compute the pion-deuteron scattering amplitude near threshold to next-to-leading order in the momentum expansion. This amplitude is formally dominated by an infrared logarithm of the form log(gamma/mpi), where gamma is the deuteron binding momentum, and mpi is the mass of the pion. The coefficient of this logarithm is determined by the S-wave pion-nucleon scattering lengths.
description: 10 pages LaTeX, 4 eps figs
Radio jets from AGN in dwarf galaxies in the COSMOS survey: mechanical feedback out to redshift $\sim$3.4
Creators: name: Mezcua, M.
name: Suh, H.
name: Civano, F.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: Dwarf galaxies are thought to host the remnants of the early Universe seed black holes (BHs) and to be dominated by supernova feedback. However, recent studies suggest that BH feedback could also strongly impact their growth. We report the discovery of 35 dwarf galaxies hosting radio AGN out to redshift $\sim$3.4, which constitutes the highest-redshift sample of AGN in dwarf galaxies. The galaxies are drawn from the VLA-COSMOS 3 GHz Large Project and all are star-forming. After removing the contribution from star formation to the radio emission, we find a range of AGN radio luminosities of $L^\mathrm{AGN}_\mathrm{1.4 GHz} \sim 10^{37}$-$10^{40}$ erg s$^{-1}$. The bolometric luminosities derived from the fit of their spectral energy distribution are $\gtrsim 10^{42}$ erg s$^{-1}$, in agreement with the presence of AGN in these dwarf galaxies. The 3 GHz radio emission of most of the sources is compact and the jet powers range from $Q_\mathrm{jet} \sim 10^{42}$ to 10$^{44}$ erg s$^{-1}$. These values, as well as the finding of jet efficiencies $\geq 10$ \% in more than 50\% of the sample, indicate that dwarf galaxies can host radio jets as powerful as those of massive radio galaxies whose jet mechanical feedback can strongly affect the formation of stars in the host galaxy. We conclude that AGN feedback can also have a very strong impact on dwarf galaxies, either triggering or hampering star formation and possibly the material available for BH growth. This implies that those low-mass AGN hosted in dwarf galaxies might not be the untouched relics of the early seed BHs, which has important implications for seed BH formation models.
description: 12 pages, 5 figures, accepted for publication in MNRAS
Proliferation of SDDS Support for Various Platforms and Languages
Creators: name: Soliday, Robert
Publisher: name: arXiv
Year: 2001
Subjects: subject: Databases (cs.DB)
subject: FOS: Computer and information sciences
subject: H.2.8

description: Since Self-Describing Data Sets (SDDS) were first introduced, the source code has been ported to many different operating systems and various languages. SDDS is now available in C, Tcl, Java, Fortran, and Python. All of these versions are supported on Solaris, Linux, and Windows. The C version of SDDS is also supported on VxWorks. With the recent addition of the Java port, SDDS can now be deployed on virtually any operating system. Due to this proliferation, SDDS files serve to link not only a collection of C programs, but programs and scripts in many languages on different operating systems. The platform independent binary feature of SDDS also facilitates portability among operating systems. This paper presents an overview of various benefits of SDDS platform interoperability.
description: 3 pages, 2 figures, submitted to ICALEPCS 2001
Additional file 3: of A novel population of extracellular vesicles smaller than exosomes promotes cell proliferation
Creators: name: Lee, Sang-Soo
name: Jong-Hoon Won
name: Gippeum Lim
name: Jeongran Han
name: Lee, Ji
name: Cho, Kyung-Ok
name: Young-Kyung Bae
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Cancer
subject: Hematology

description: Figure S3. Exosomes and the smaller EVs from HEK293 cells do not affect S2 cells. (a-d) These bar graphs show the number of exosomes per mL media about (a) Fig. 4c, (b) Fig. 4d, (c) Fig. 5c, and (d) Fig. 5d. Red arrows indicate the P100 effects. (e-h) These bar graphs show the number of exosomes per mL media about (e) Fig. 4f, (f) Fig. 5f, (g) Fig. 4h and (h) Fig. 5h. Red arrows indicate the P100 effects. (i-l) The P100 fraction and P200 fraction isolated from HEK293 CM with control AS (artificial serum) were treated to Drosophila S2 cells. (i) Final number of cells, (j) number of exosomes per mL media, (k) number of exosomes per cell, (l) and cell viability (all comparisons: p > 0.05). Experiments were repeated three times, each including six technical repeats. The results are displayed as mean ± S.E.M. *Significant difference analyzed by t-test (*p
Additional file 1 of A comparative analysis on risk communication between international and Chinese literature from the perspective of knowledge domain visualization
Creators: name: Dong, Huiling
name: Wu, Qunhong
name: Pang, Yue
name: Wu, Bingyi
Publisher: name: figshare
Year: 2021
Subjects: Science Policy

description: Additional file 1: Table S1. Top 10 authors in the published volume and centrality of international database. Table S2. Top 10 authors in the published volume and centrality of Chinese database. Table S3. Top 10 keywords ranked by citation counts and centrality of international database. Table S4. Top 10 keywords ranked by citation counts and centrality of Chinese database. Figure S1. Co-author network of Chinese database. Figure S2. Co-institution network of International database.
Borneodessus zetteli subsp. zetteli Balke & Hendrich & Mazzoldi & Biström 2002, sp. nov.
Creators: name: Balke, M.
name: Hendrich, L.
name: Mazzoldi, P.
name: Biström, O.
Publisher: name: Zenodo
Year: 2002
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Dytiscidae
Borneodessus
Borneodessus zetteli
Borneodessus zetteli zetteli

description: Borneodessus zetteli zetteli sp. nov.
(®gures 1, 4, 6, 7)
 Type material. HOLOTYPE male. Malaysia, Sabah, Danum Valley, Sapat Kalisan, locality 15, 12 February 1997, H. Zettel (NMW). PARATYPE: 1 female, same label data as holotype (NMW).
 Size. Length of beetle 2.9 mm (male), 2.8 mm (female); width 1.6 mm (male), 1.5 mm (female).
 Description (male). Colour. Beetle almost completely ferruginous. Elytron with dark brown, barely contrasting maculations (®gure 1).
 Sculpture. Beetle dorsally and ventrally shiny. Head smooth medially, with small punctures laterally along eyes; with microreticulation and some minute punctures posterior of an imaginary line connecting hind margins of eyes. Pronotum with dense punctation, punctures larger than those on head, regularly spaced, separated by about twice their diameter; no microreticulation present; basal stria sinuate and faint, about one-third of pronotal length. Elytron with dense punctation as on pronotum, not microreticulate; no serial rows of larger punctures present. Metasternum and metacoxal plates microreticulate and with larger punctures; sternites microreticulate with few smaller punctures.
 Median lobe. Median lobe of aedeagus simple, symmetrical in ventral view. Rather straight and only slightly bent distally in lateral view; in ventral view broad, more or less parallel-sided over most of its length, narrowing apically, apex pointed. Paramere two-segmented, apical segment almost as long as basal segment; tip twisted (®gures 4, 6, 7).
 Female. As in male except: beetle dull because of distinct microreticulation of small cells present all over the head, pronotum and elytron.
 Etymology. Named for our colleague and friend, the collector of this species, Herbert Zettel (Vienna Museum).
 Distribution. East Malaysia, northern Sabah (Borneo), see ®gure 8.
 Collecting notes. In shallow, small isolated puddles, at the edge of a river.
description: Published as part of Balke, M., Hendrich, L., Mazzoldi, P. & Biström, O., 2002, Borneodessus zetteli, new genus and new species, notes on biogeography and a checklist of Dytiscidae from Borneo (Insecta: Coleoptera: Dytiscidae), pp. 963-978 in Journal of Natural History 36 (8) on page 967, DOI: 10.1080/00222930110062345, http://zenodo.org/record/5301013
Gigantotrichoderes Tippmann 1953
Creators: name: Botero, Juan Pablo
name: Tirant, Stéphane Le
name: Santos-Silva, Antonio
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Gigantotrichoderes

description: KEY TO THE SPECIES OF ADULT GIGANTOTRICHODERES
 1. Elytra entirely dark brown. Venezuela (Amazonas).................  G. brunneus Joly, 2017
 1 ʹ. Elytra yellowish brown with or without darker brown areas........................................ 2
 2. Prothorax with lateral tubercles more projected and slightly acute at apex in males, slightly elevated and rounded at apex in females (Figs. 1–2). Mexico, Honduras, Costa Rica, Panama, Colombia (Cundinamarca, Valle del Cauca), Suriname, Guyana, French Guiana, Ecuador, Peru........  G. conicicollis Tippmann, 1953
 2 ʹ. Prothorax without lateral tubercles........... 3
 3. Distance between superior ocular lobes greater than width of upper ocular lobe; sides of prothorax converging anteriorly; pronotum covered by dense pubescence (except on surface of tubercles); humeri and elytral apices concolorous with remaining elytral surface (Figs. 3–7). Mexico (Veracruz)................................  G. cummingi Botero, Le Tirant, and Santos-Silva, new species
 3 ʹ. Distance between superior ocular lobes smaller than width of upper ocular lobe; sides of prothorax subparallel; pronotum with glabrous or nearly glabrous central area; humeri and elytral apices dark brown (Fig. 8). Nicaragua, Costa Rica, Panama, Colombia (Vichada), Venezuela, Suriname, Guyana, French Guiana, Ecuador, Peru, Bolivia, Brazil (Amazonas, Pará, Maranh~ ao)....................................  G. flabellicornis (Zajciw, 1965)
description: Published as part of Botero, Juan Pablo, Tirant, Stéphane Le & Santos-Silva, Antonio, 2018, A New Species of GigantotrichoderesTippmann, 1953 (Coleoptera: Cerambycidae: Cerambycinae: Torneutini) from Mexico, pp. 805-809 in The Coleopterists Bulletin 72 (4) on page 806, DOI: 10.1649/0010-065X-72.4.805, http://zenodo.org/record/5386067
Orbital perturbations on transiting planets: A possible method to measure stellar quadrupoles and to detect Earth-mass planets
Creators: name: Miralda-Escude, Jordi
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: The recent discovery of a planetary transit in the star HD 209458, and the subsequent highly precise observation of the transit lightcurve with Hubble Space Telescope, is encouraging to search for any phenomena that might induce small changes in the light curve. Here we consider the effect of the quadrupole moment of the parent star and of a possible second planet perturbing the orbit of the transiting planet. Both of these cause a precession of the orbital plane and of the periastron of the planet, which result in a long-term variation of the duration and the period of the transits. For a transiting planet at 0.05 AU, either a quadrupole moment similar to that of the Sun or the gravitational tug from an Earth-like planet on an orbit of semimajor axis ~ 0.2 AU and a relative inclination near the optimal 45 degrees would cause a transit duration time derivative of ~ 1 second per year.
description: submitted to ApJ
Additional file 1 of A phylogenetic approach for weighting genetic sequences
Creators: name: De Maio, Nicola
name: Alekseyenko, Alexander V.
name: Coleman-Smith, William J.
name: Pardi, Fabio
name: Suchard, Marc A.
name: Tamuri, Asif U.
name: Truszkowski, Jakub
name: Goldman, Nick
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Additional file 1. Supplementary Methods and Figures.
Polarization shaping of high-order harmonics in laser-aligned molecules
Creators: name: Skantzakis, E.
name: Chatziathansiou, S.
name: Carpeggiani, P. A.
name: Sansone, G.
name: Nayak, A.
name: Gray, D.
name: Tzallas, P.
name: Charalambidis, D.
name: Hertz, E.
name: Faucher, O.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Atomic Physics (physics.atom-ph)
subject: FOS: Physical sciences

description: The present work reports on the generation of short-pulse coherent extreme ultraviolet radiation of controlled polarization. The proposed strategy is based on high-order harmonics generated in pre-aligned molecules. Field-free molecular alignment produced by a short linearly-polarized infrared laser pulse is used to break the isotropy of a gas medium. Driving the aligned molecules by a circularly-polarized infrared pulse allows to transfer the anisotropy of the medium to the polarization of the generated harmonic light. The ellipticity of the latter is controlled by adjusting the angular distribution of the molecules at the time they interact with the driving pulse. Extreme ultraviolet radiation produced with high degree of ellipticity (close to circular) is demonstrated.
Gigantotrichoderes conicicollis Tippmann 1953
Creators: name: Botero, Juan Pablo
name: Tirant, Stéphane Le
name: Santos-Silva, Antonio
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Gigantotrichoderes
Gigantotrichoderes conicicollis

description: Gigantotrichoderes conicicollis Tippmann, 1953
 Distribution. Mexico, Honduras, Costa Rica, Panama, Colombia (Cundinamarca), Suriname, Guyana, French Guiana, Ecuador, Peru. A new department record for Colombia (Valle del Cauca) is added.
 Specimens Examined. COLOMBIA, Valle del Cauca, male, no date indicated, L.C. Pardo Locarno leg. (MZSP).
description: Published as part of Botero, Juan Pablo, Tirant, Stéphane Le & Santos-Silva, Antonio, 2018, A New Species of GigantotrichoderesTippmann, 1953 (Coleoptera: Cerambycidae: Cerambycinae: Torneutini) from Mexico, pp. 805-809 in The Coleopterists Bulletin 72 (4) on pages 808-809, DOI: 10.1649/0010-065X-72.4.805, http://zenodo.org/record/5386067
Additional file 1 of Ethanologenesis and respiration in a pyruvate decarboxylase-deficient Zymomonas mobilis
Creators: name: Rutkis, Reinis
name: Strazdina, Inese
name: Lasa, Zane
name: Bruheim, Per
name: Kalnenieks, Uldis
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology

description: Additional file 1: The sequence, primers and PCR products of pdc gene in the parent and mutant strain.
A non-integrable quench from AdS/dCFT
Creators: name: de Leeuw, Marius
name: Kristjansen, Charlotte
name: Vardinghus, Kasper E.
Publisher: name: arXiv
Year: 2019
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: We study the matrix product state which appears as the boundary state of the AdS/dCFT set-up where a probe D7 brane wraps two two-spheres stabilized by fluxes. The matrix product state plays a dual role, on one hand acting as a tool for computing one-point functions in a domain wall version of N=4 SYM and on the other hand acting as the initial state in the study of quantum quenches of the Heisenberg spin chain. We derive a number of selection rules for the overlaps between the matrix product state and the eigenstates of the Heisenberg spin chain and in particular demonstrate that the matrix product state does not fulfill a recently proposed integrability criterion. Accordingly, we find that the overlaps can not be expressed in the usual factorized determinant form. Nevertheless, we derive some exact results for one-point functions of simple operators and present a closed formula for one-point functions of more general operators in the limit of large spin-chain length.
description: 6 pages
Additional file 2: of In silico evidence of de novo interactions between ribosomal and Epstein - Barr virus proteins
Creators: name: Sim, Edmund
name: Talwar, Shruti
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Molecular Biology
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Table S3. Probable interface residues of EBNA1 and eS25 explored through the dual docking protocols. The interacting residues of EBNA1 and eS25 binding sites are indicated. Table S4. Predicted interfacial residues involved in hydrophobic and ionic interactions within the EBNA1-eS25 complex. (DOCX 18 kb)
Additional file 1 of The association between opening a short stay paediatric assessment unit and trends in short stay hospital admissions
Creators: name: Turner, Steve
name: Raja, Edwin-Amalraj
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Molecular Biology
subject: Pharmacology
subject: Biotechnology
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Cancer
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 60506 Virology
subject: FOS: Biological sciences
subject: Computational Biology

description: Additional file 1: Figure S1. The trend (based on model) in zero day admission before opening of SSPAU in NHS Forth Valley (solid line) and counterfactual scenario as a dashed line in the post SSPAU opening period (interaction model). Figure S2. The trend (based on model) in zero day admission before opening of SSPAU in NHS Borders (solid line) and counterfactual scenario as a dashed line in the post SSPAU opening period (interaction model). Figure S3. The trend (based on model) in zero day admission before opening of SSPAU in NHS Dumfries and Galloway (solid line) and counterfactual scenario as a dashed line in the post SSPAU opening period (interaction model). Table S1. Descriptives available for analysis. Table S2. Results from the interrupted item series analysis where initial months (i.e. before SSPUA opened) were excluded from the analysis in three boards: months 0–50 for Fife; 0–30 for Forth valley; and months 0–25 for Lanarkshire. Step change and percentage change data are provided from the interaction model for NHS Forth Valley and NHS Fife (where the interaction term was significant) and from the main effects only model for NHS Lanarkshire. The values from the model including all data from table four are in italics and grey for comparison. Figure S4. The trend (based on model) in zero day in all NHS Fife (omitting data from months 0–50), Forth Valley (omitting data from months 0–30) and NHS Lanarkshire (omitting data form months 0–25). The solid line represents the trend and the dashed line is the counterfactual scenario (i.e. what would be expected to happen had the SSPAU not opened) from the interaction model. Table S3. Results from the interrupted item series analysis limited to 24 months before and after the SSPAU opened. p
Additional file 5 of Transcriptome analysis and molecular mechanism of linseed (Linum usitatissimum L.) drought tolerance under repeated drought using single-molecule long-read sequencing
Creators: name: Wang, Wei
name: Wang, Lei
name: Wang, Ling
name: Tan, Meilian
name: Ogutu, Collins O.
name: Yin, Ziyan
name: Zhou, Jian
name: Wang, Jiaomei
name: Wang, Lijun
name: Yan, Xingchu
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Plant Biology

description: Additional file 5: Table S5. Sequence summary of PacBio subreads.
A Chandra Study of the Circinus Galaxy Point-Source Population
Creators: name: Bauer, F. E.
name: Brandt, W. N.
name: Sambruna, R. M.
name: Chartas, G.
name: Garmire, G. P.
name: Kaspi, S.
name: Netzer, H.
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: We have used the Chandra X-ray Observatory to resolve spatially and spectrally the X-ray emission from the Circinus Galaxy. We report here on the nature of the X-ray emission from the off-nuclear point sources associated with the disk of Circinus. We find that many of the serendipitous X-ray sources are concentrated along the optical disk of the galaxy, but few have optical counterparts within 1" of their X-ray positions down to V=23-25. At 3.8 Mpc, their intrinsic 0.5-10 keV luminosities range from approx. 2E37 erg/s to 4E39 erg/s. One quarter of the sources are variable over the duration of the 67 ks observation, and spectral fitting of these off-nuclear sources shows a diverse range of spectral properties. The properties of the two strongest off-nuclear sources are remarkable, with average X-ray luminosities of 3.7E39 erg/s and 3.4E39 erg/s. The former displays large and periodic flux variations every 7.5 hr and is well fit by a multicolor blackbody accretion-disk model with T_in=1.35 keV, properties consistent with an eclipsing >50 M_sun black-hole binary. The latter appears to be a young supernova remnant, as it coincides with a non-thermal radio counterpart and an Hα-detected HII region. This source exhibits both long-term (approx. 4 yr) X-ray variability and a 6.67-6.97 keV iron emission-line blend with a 1.6 keV equivalent width. These two objects further support the notion that super-Eddington X-ray sources in nearby galaxies can be explained by a mixture of intermediate-mass black holes in X-ray binaries and young supernova remnants. (abridged)
description: LaTex using emulateApJ5, 12 pages with 11 embedded figures, AJ in press. Also available at http://www.astro.psu.edu/~fbauer/RESEARCH/Circinus.ps.gz
The complex iron line of NGC 5506
Creators: name: Matt, G.
name: Guainazzi, M.
name: Perola, G. C.
name: Fiore, F.
name: Nicastro, F.
name: Cappi, M.
name: Piro, L.
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: The bright Narrow Emission Line Galaxy, NGC 5506, has been observed simultaneously by XMM-Newton and BeppoSAX. The iron line is complex, with at least two components: one narrow and corresponding to neutral iron, the second one broad and corresponding to ionized iron. The latter line is equally well fitted by a truly broad line or by a blend of He- and H-like narrow lines. The bulk of the Compton reflection continuum originates in neutral matter, and is therefore associated with the narrow line: they are most likely emitted in distant matter. The origin of the ionized line(s) is less certain, but the solution in terms of a blend of narrow lines from photoionized matter seems to be preferable to emission from an ionized, relativistic accretion disc.
description: accepted for publication in A&A Letters