cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Evidence of glycoproteins and sulphated proteoglycan-like presence in extracellular polymeric substance from anaerobic granular sludge
Creators: name: Bourven, Isabelle
name: Bachellerie, Guillaume
name: Costa, Guy
name: Guibaud, Gilles
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Ecology
subject: FOS: Biological sciences
subject: Biological Sciences
subject: Chemistry
subject: Biochemistry

description: The protein fraction of extracellular polymeric substance (EPS) from two anaerobic granular sludge samples was characterized with sodium dodecyl sulphate-polyacrylamide gel electrophoresis (SDS-PAGE) and a far western blotting method. SDS-PAGE was used with various staining applications to obtain a protein (silver), glycoprotein [periodic acid–Shiff's (PAS)] or proteoglycan-like (Alcian blue at pH 2.5 (carboxylic group) or 1 (sulphated group)) fingerprint. The fingerprints of the EPS denatured protein from the two sludge samples differed. Some proteins are specific to Soluble (S) or Bound (B)-EPS (20–100 kDa). Denatured proteins with a polysaccharide moieties characterization are more present in B-EPS. Glycoproteins with α-d-mannosyl and/or α-d-glucosyl (90, 50, 40 kDa) were detected. Proteoglycan-like and sulphated proteoglycan-like substances are also detected, mainly in B-EPS. A 68 kDa sulphated proteoglycan-like substance contains two glucidic residue types: α-d-mannosyl and/or α-d-glucosyl and N-acetyl-β-d-glucosamine. Such heteroproteins are present around the membrane as well as the surface-layer from Archaea and from some bacteria. The glycoprotein and sulphated proteoglycan-like substance are assumed to contribute to anaerobic granule strength, thanks to their ability to perform interactions of various nature (ionic, hydrophobic, Ca2+ as divalent cation bridging, etc.).
Bayesian Network and Machine Learning based reconstruction of Global Terrestrial Water Storage Anomalies
Creators: name: Mandal, Nehar
name: Das, Prabal
name: Chanda, Kironmala
Publisher: name: figshare
Year: 2024
Subjects: classificationCode: 370704
subject: Surface water hydrology

description: # The file 'Mississippi_JPL_grids.csv' contains the latitude and longitude coordinates of all JPL mascon grid points within the Mississippi River basin.# In the 'Model_Input' folder, the grid-wise file serves as the input and target dataset necessary for running the machine learning models for a specific grid.# The grid-wise file in the 'BN_Predictors' folder comprises optimal predictors identified by the Bayesian Network (BN) for a specific grid.# For very few grids BN is not identifying any predictors or only one predictor. Grids with zero or one optimal predictor identified by BN are trained using all 15 potential predictors ('P', 'T', 'NOAH_TWSA', 'CLSM_TWSA', 'DMI', 'NAO', 'ONI', 'P1', 'T1', 'NOAH_TWSA_1', 'CLSM_TWSA_1', 'P2', 'T2', 'NOAH_TWSA_2', 'CLSM_TWSA_2').# Forecast_Results: The folder contains grid-wise forecast time series# Hindcast_Results: The folder contains grid-wise hindcast time seriesNote: In the later stage of publication, the complete global dataset will be made available publicly.
Volatile Pd–Pb and Cu–Pb heterometallic complexes: structure, properties, and trans-to-cis isomerization under cocrystallization of Pd and Cu β-diketonates with Pb hexafluoroacetylacetonate
Creators: name: Krisyuk, Vladislav V.
name: Tkachev, Sergey V.
name: Baidina, Iraida A.
name: Korolkov, Ilya V.
name: Turgambaeva, Asiya E.
name: Igumenov, Igor K.
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Sociology
subject: FOS: Sociology
subject: Chemistry
subject: Cell Biology
subject: Biochemistry
subject: Biophysics

description: Preparation of volatile heterometallic precursors is a significant step on the way to advanced multicomponent materials. Study of molecular transformations in solution upon precursor synthesis is of importance to optimize the preparation of the stable solid product of desired composition. Two new volatile heterobimetallic complexes, cis-PdL2*Pb(hfa)2 and cis-CuL2*Pb(hfa)2, were obtained (L = 2-methoxy-2,6,6-trimethylheptane-3,5-dionate, hfa = 1,1,1,5,5,5-hexafluoropentane-2,4-dionate) under cocrystallization of trans-bis-beta-diketonates of Pd(II) and Cu(II) with Pb(hfa)2 from organic solvents. Crystals of these compounds are built of discrete bimetallic molecules where transition metal complex isomerized from trans-to-cis form. Complexation followed by isomerization was studied by solution NMR. The bimetallic molecular species were formed early in solution. Enthalpy and activation energy of isomerization were estimated to be 49 and 93 kJ mol−1, respectively. A new synthesis technique of Pd(II) beta-diketonates which is distinguished by simplicity and selectivity as well as the crystal structure of trans-PdL2 is described. Volatility of all obtained compounds was confirmed by thermogravimetric analysis and fractional sublimation in vacuum; Pd-containing heterobimetallic complex appeared to be more volatile than both the initial monometallic complexes and Cu-containing complex.
IMPROVEMENT OF LEGAL MEASURES TO COMBAT THE DISSEMINATION OF ANTI-SOCIAL BEHAVIOR AMONG YOUTH
Creators: name: Qushboqov, Shohrux
name: Usmonaliyev, Samandar
Publisher: name: Zenodo
Year: 2024

description: The article analyzes national and foreign legislation, theoretical opinions of legal scholars, and judicial and investigative practice related to combating the spread of antisocial behavior among youth. Based on the research findings, proposals and recommendations have been developed to prevent the spread of antisocial behavior among youth, particularly to improve responsibility for involving a person in antisocial behavior.
Isolation and screening of endophytes from the rhizomes of some Zingiberaceae plants for L-asparaginase production
Creators: name: Prajna Rao Krishnapura
name: Prasanna D. Belur
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: 60506 Virology
subject: Computational Biology

description: Endophytes are described as microorganisms that colonize the internal tissues of healthy plants without causing any disease. Endophytes isolated from medicinal plants have been attracting considerable attention due to their high biodiversity and their predicted potential to produce a plethora of novel compounds. In this study, an attempt was made to isolate endophytes from rhizomes of five medicinal plants of Zingiberaceae family, and to screen the endophytes for L-asparaginase activity. In total, 50 endophytes (14 bacteria, 22 actinomycetes, and 14 fungi) were isolated from Alpinia galanga, Curcuma amada, Curcuma longa, Hedychium coronarium, and Zingiber officinale; of these, 31 endophytes evidenced positive for L-asparaginase production. All the L-asparaginase-positive isolates showed L-asparaginase activity in the range of 54.17–155.93 U/mL in unoptimized medium. An endophytic fungus isolated from Curcuma amada, identified as Talaromyces pinophilus, was used for further experiments involving studies on the effect of certain nutritional and nonnutritional factors on L-asparaginase production in submerged fermentation. Talaromyces pinophilus initially gave an enzyme activity of 108.95 U/mL, but gradually reduced to 80 U/mL due to strain degeneration. Perhaps this is the first report ever on the production of L-asparaginase from endophytes isolated from medicinal plants of Zingiberaceae family.
Isolation and screening of endophytes from the rhizomes of some Zingiberaceae plants for L-asparaginase production
Creators: name: Prajna Rao Krishnapura
name: Prasanna D. Belur
Publisher: name: Taylor & Francis
Year: 2016
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: 60506 Virology
subject: Computational Biology

description: Endophytes are described as microorganisms that colonize the internal tissues of healthy plants without causing any disease. Endophytes isolated from medicinal plants have been attracting considerable attention due to their high biodiversity and their predicted potential to produce a plethora of novel compounds. In this study, an attempt was made to isolate endophytes from rhizomes of five medicinal plants of Zingiberaceae family, and to screen the endophytes for L-asparaginase activity. In total, 50 endophytes (14 bacteria, 22 actinomycetes, and 14 fungi) were isolated from Alpinia galanga, Curcuma amada, Curcuma longa, Hedychium coronarium, and Zingiber officinale; of these, 31 endophytes evidenced positive for L-asparaginase production. All the L-asparaginase-positive isolates showed L-asparaginase activity in the range of 54.17–155.93 U/mL in unoptimized medium. An endophytic fungus isolated from Curcuma amada, identified as Talaromyces pinophilus, was used for further experiments involving studies on the effect of certain nutritional and nonnutritional factors on L-asparaginase production in submerged fermentation. Talaromyces pinophilus initially gave an enzyme activity of 108.95 U/mL, but gradually reduced to 80 U/mL due to strain degeneration. Perhaps this is the first report ever on the production of L-asparaginase from endophytes isolated from medicinal plants of Zingiberaceae family.
Evidence of glycoproteins and sulfated proteoglycan-like presence in EPS from anaerobic granular sludge
Creators: name: Bourven, Isabelle
name: Bachellerie, Guillaume
name: Costa, Guy
name: Guibaud, Gilles
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Ecology
subject: FOS: Biological sciences
subject: Biological Sciences
subject: Chemistry
subject: Biochemistry

description: The protein fraction of EPS from two anaerobic granular sludge samples was characterized with Polyacrylamide gel electrophoresis (SDS-PAGE) and far western blotting method. SDS-PAGE was used with various staining applications to obtain a protein (silver), glycoprotein (PAS (Periodic Acid and Shiff's)) or proteoglycan-like (Alcian blue at pH 2.5 (carboxylic group) or 1 (sulfated group)) fingerprint. The fingerprints of the EPS denatured protein from the two sludge samples differed. Some proteins are specific to Soluble (S) or Bound (B) -EPS (20–100 kDa). Denatured proteins with a polysaccharide moieties characterization are more present in B-EPS. Glycoproteins with αD-mannosyl and/or αD-glucosyl (90, 50, 40 kDa) were detected. Proteoglycan-like and sulfated proteoglycan-like are also detected, mainly in B-EPS. A 68 kDa sulfated proteoglycan-like contains two glucidic residue types: αD-mannosyl and/or αD-glucosyl and N-acetyl-β-D-glucosamine. Such heteroproteins are present around the membrane as well as Surface-layer from Archaea and from some Bacteria. The glycoprotein and sulfated proteoglycan-like are assumed to contribute to anaerobic granule strength thank to their ability to perform interactions of various nature (ionic, hydrophobic, Ca2+as divalent cation bridging … ).
Isolation and Screening of Endophytes from the Rhizomes of Some Zingiberaceae Plants for L-Asparaginase Production
Creators: name: Prajna Rao Krishnapura
name: Prasanna D. Belur
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Computational Biology
subject: 60506 Virology
subject: FOS: Biological sciences
subject: Science Policy
subject: Biological Sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Ecology
subject: Earth and Environmental Sciences
subject: Biotechnology
subject: Cell Biology
subject: Microbiology
subject: Medicine
subject: Biochemistry

description: Endophytes are described as microorganisms that colonize the internal tissues of healthy plants without causing any disease. Endophytes isolated from medicinal plants have been attracting considerable attention due to their high biodiversity, and predicted potential to produce a plethora of novel compounds. In the current study, an attempt was made to isolate endophytes from rhizomes of five medicinal plants of Zingiberaceae family, and to screen the endophytes for L-asparaginase activity. A total of fifty endophytes (fourteen bacteria, twenty two actinomycetes and fourteen fungi) were isolated from Alpinia galanga, Curcuma amada, Curcuma longa, Hedychium coronarium and Zingiber officinale; of them, thirty one endophytes evidenced positive for L-asparaginase production. All the L-asparaginase-positive isolates showed L-asparaginase activity in the range of 54.17 - 155.93 U/mL in unoptimized medium. An endophytic fungus isolated from Curcuma amada, identified as Talaromyces pinophilus was used for further experiments involving studies on the effect of certain nutritional and non-nutritional factors on L-asparaginase production in submerged fermentation. Talaromyces pinophilus initially gave an enzyme activity of 108.95 U/mL, but gradually reduced to 80 U/mL due to strain degeneration. Perhaps, this is the first report ever, on the production of L-asparaginase from endophytes isolated from medicinal plants of Zingiberaceae family.
A new minor diketopiperazine from the sponge-derived fungus Simplicillium sp. YZ-11
Creators: name: Bing-Fei Yan
name: Sheng-Tao Fang
name: Wen-Zuo Li
name: Liu, Su-Jing
name: Wang, Jian-Hua
name: Chuan-Hai Xia
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biological Sciences
subject: Ecology
subject: FOS: Biological sciences
subject: Chemistry
subject: Earth and Environmental Sciences
subject: Biochemistry

description: Chemical investigation of the cultures of a sponge-derived fungus Simplicillium sp. YZ-11 led to the isolation of a new minor diketopiperazine alkaloid cyclo-(2-hydroxy-Pro-Gly) (1) and a natural lactone (S)-dihydro-5-[(S)- hydroxyphenylmethyl]-2(3H)-furanone (2), together with five known ergostane-type sterols (3–7). Their structures were established based on extensive spectroscopic methods (1H and 13C NMR, 1H-1H COSY, HSQC and HMBC) and optical rotation analysis.
A cis-regulatory antisense RNA represses translation in Vibrio cholerae through extensive complementarity and proximity to the target locus
Creators: name: Chang, Howard
name: Replogle, John Michael
name: Vather, Naomi
name: Tsao-Wu, Maya
name: Mistry, Ronak
name: Liu, Jane M
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Computational Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Biological Sciences
subject: Ecology
subject: FOS: Biological sciences
subject: Earth and Environmental Sciences
subject: Molecular Biology
subject: Genetics
subject: Cell Biology
subject: Microbiology
subject: Biochemistry
subject: Biophysics

description: As with all facultative pathogens, Vibrio cholerae must optimize its cellular processes to adapt to different environments with varying carbon sources and to environmental stresses. More specifically, in order to metabolize mannitol, V. cholerae must regulate the synthesis of MtlA, a mannitol transporter protein produced exclusively in the presence of mannitol. We previously showed that a cis-acting small RNA (sRNA) expressed by V. cholerae, MtlS, appears to post-transcriptionally downregulate the expression of mtlA and is produced in the absence of mannitol. We hypothesized that since it is complementary to the 5′ untranslated region (UTR) of mtlA mRNA, MtlS may affect synthesis of MtlA by forming an mtlA-MtlS complex that blocks translation of the mRNA through occlusion of its ribosome binding site. To test this hypothesis, we used in vitro translation assays in order to examine the role MtlS plays in mtlA regulation and found that MtlS is sufficient to suppress translation of transcripts harboring the 5′ UTR of mtlA. However, in a cellular context, the 5′ UTR of mtlA is not sufficient for targeted repression by endogenous MtlS; additional segments from the coding region of mtlA play a role in the ability of the sRNA to regulate translation of mtlA mRNA. Additionally, proximity of transcription sites between the sRNA and mRNA significantly affects the efficacy of MtlS.
Volatile Pd-Pb and Cu-Pb heterometallic complexes: Structure, properties and trans-to-cis isomerization under cocrystallization of Pd and Cu β-diketonates with Pb hexafluoroacetylacetonate
Creators: name: Krisyuk, Vladislav V.
name: Tkachev, Sergey V.
name: Baidina, Iraida A.
name: Korolkov, Ilya V.
name: Turgambaeva, Asiya E.
name: Igumenov, Igor K.
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Sociology
subject: FOS: Sociology
subject: Chemistry
subject: Cell Biology
subject: Biochemistry
subject: Biophysics

description: Preparation of volatile heterometallic precursors is a significant step on the way to advanced multicomponent materials. Study of molecular transformations in solution upon precursor synthesis is of importance to optimize the preparation of the stable solid product of desired composition. Two new volatile heterobimetallic complexes, cis-PdL2*Pb(hfa)2 and cis-CuL2*Pb(hfa)2, were obtained (L = 2-methoxy-2,6,6-trimethylheptane-3,5-dionate, hfa = 1,1,1,5,5,5-hexafluoropentane-2,4-dionate) under cocrystallization of trans-bis-beta-diketonates of Pd(II) and Cu(II) with Pb(hfa)2 from organic solvents. Crystals of these compounds are built of discrete bimetallic molecules where transition metal complex isomerized from trans- to cis-form. Complexation followed by isomerization was studied by solution NMR. The bimetallic molecular species were formed early in solution. Enthalpy and activation energy of isomerization were estimated to be 49 and 93 kJ mol−1, respectively. A new synthesis technique of Pd(II) beta-diketonates which is distinguished by simplicity and selectivity as well as the crystal structure of trans-PdL2 are described. Volatility of all obtained compounds was confirmed by thermogravimetric analysis and fractional sublimation in vacuum; Pd-containing heterobimetallic complex appeared to be more volatile than both the initial monometallic complexes and Cu-containing complex.
Additional file 1 of Magnitude and associated factors of needle stick and sharps injuries among health care workers in Dessie City Hospitals, north east Ethiopia
Creators: name: Assen, Solomon
name: Mamo Wubshet
name: Manay Kifle
name: Tewelde Wubayehu
name: Berihu Gidey Aregawi
Publisher: name: figshare
Year: 2020
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 1. English Version Questionnaire to Collect Data on the Magnitude and Associated Factors of Needle Stick and Sharps Injuries among Health Care Workers in Dessie City Hospitals, North East Ethiopia
PVNAS: 3D Neural Architecture Search with Point-Voxel Convolution
Creators: name: Liu, Zhijian
name: Tang, Haotian
name: Zhao, Shengyu
name: Shao, Kevin
name: Han, Song
Publisher: name: arXiv
Year: 2022
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Machine Learning (cs.LG)
subject: FOS: Computer and information sciences

description: 3D neural networks are widely used in real-world applications (e.g., AR/VR headsets, self-driving cars). They are required to be fast and accurate; however, limited hardware resources on edge devices make these requirements rather challenging. Previous work processes 3D data using either voxel-based or point-based neural networks, but both types of 3D models are not hardware-efficient due to the large memory footprint and random memory access. In this paper, we study 3D deep learning from the efficiency perspective. We first systematically analyze the bottlenecks of previous 3D methods. We then combine the best from point-based and voxel-based models together and propose a novel hardware-efficient 3D primitive, Point-Voxel Convolution (PVConv). We further enhance this primitive with the sparse convolution to make it more effective in processing large (outdoor) scenes. Based on our designed 3D primitive, we introduce 3D Neural Architecture Search (3D-NAS) to explore the best 3D network architecture given a resource constraint. We evaluate our proposed method on six representative benchmark datasets, achieving state-of-the-art performance with 1.8-23.7x measured speedup. Furthermore, our method has been deployed to the autonomous racing vehicle of MIT Driverless, achieving larger detection range, higher accuracy and lower latency.
description: Journal extension of arXiv:1907.03739 and arXiv:2007.16100 (IEEE TPAMI, 2021). The first two authors contributed equally to this work
THE MODERN APPROACHES AND METHODS FOR DEVELOPING READING COMPREHENSION
Creators: name: Olimova, D.J.
name: Gilyazetdinov, E.Z
Publisher: name: Zenodo
Year: 2024

description: Teaching reading comprehension in a foreign language at secondary school is based on the stimulation of cognitive processes in the first stages of working with a foreign language text, which requires mainly the effort of simpler cognitive processes such as attention, memory and perception.
Survival of superconducting correlations across the 2D superconductor-insulator transition: A finite frequency study
Creators: name: Crane, R. W.
name: Armitage, N. P.
name: Johansson, A.
name: Sambandamurthy, G.
name: Shahar, D.
name: Gruner, G.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: Disordered Systems and Neural Networks (cond-mat.dis-nn)
subject: FOS: Physical sciences

description: The complex ac conductivity of thin highly disordered InOx films was studied as a function of magnetic field through the nominal two-dimensional superconductor-insulator transition. We have resolved a significant finite-frequency superfluid stiffness well into the insulating regime, giving direct evidence for quantum superconducting fluctuations around an insulating ground state and a state of matter with localized Cooper pairs. A phase diagram is established that includes the superconducting state, a transition to a "Bose" insulator, and an eventual crossover to a "Fermi" insulating state at high fields. We speculate on the consequences of these observations, their impact on our understanding of the insulating state, and its relevance as a prototype for other insulating states of matter that derive from superconductors.
description: 7 pages, 4 figures
Engineering electron and hole tunneling with asymmetric InAs quantum dot molecules
Creators: name: Bracker, A. S.
name: Scheibner, M.
name: Doty, M. F.
name: Stinaff, E. A.
name: Ponomarev, I. V.
name: Kim, J. C.
name: Whitman, L. J.
name: Reinecke, T. L.
name: Gammon, D.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Most self-assembled quantum dot molecules are intrinsically asymmetric with inequivalent dots resulting from imperfect control of crystal growth. We have grown vertically-aligned pairs of InAs/GaAs quantum dots by molecular beam epitaxy, introducing intentional asymmetry that limits the influence of intrinsic growth fluctuations and allows selective tunneling of electrons or holes. We present a systemic investigation of tunneling energies over a wide range of interdot barrier thickness. The concepts discussed here provide an important tool for the systematic design and characterization of more complicated quantum dot nanostructures.
description: 9 pages, 4 figures. To be published in Applied Physics Letters. version 2: Typographical corrections and reference format for journal
Diverse selective regimes shape genetic diversity at ADAR genes and at their coding targets
Creators: name: Forni, Diego
name: Mozzi, Alessandra
name: Pontremoli, Chiara
name: Vertemara, Jacopo
name: Pozzoli, Uberto
name: Biasin, Mara
name: Bresolin, Nereo
name: Clerici, Mario
name: Cagliani, Rachele
name: Sironi, Manuela
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Computational Biology
subject: 60506 Virology
subject: FOS: Biological sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Evolutionary Biology
subject: Molecular Biology
subject: Genetics

description: A-to-I RNA editing operated by ADAR enzymes is extremely common in mammals. Several editing events in coding regions have pivotal physiological roles and affect protein sequence (recoding events) or function. We analyzed the evolutionary history of the 3 ADAR family genes and of their coding targets. Evolutionary analysis indicated that ADAR evolved adaptively in primates, with the strongest selection in the unique N-terminal domain of the interferon-inducible isoform. Positively selected residues in the human lineage were also detected in the ADAR deaminase domain and in the RNA binding domains of ADARB1 and ADARB2. During the recent history of human populations distinct variants in the 3 genes increased in frequency as a result of local selective pressures. Most selected variants are located within regulatory regions and some are in linkage disequilibrium with eQTLs in monocytes. Finally, analysis of conservation scores of coding editing sites indicated that editing events are counter-selected within regions that are poorly tolerant to change. Nevertheless, a minority of recoding events occurs at highly conserved positions and possibly represents the functional fraction. These events are enriched in pathways related to HIV-1 infection and to epidermis/hair development. Thus, both ADAR genes and their targets evolved under variable selective regimes, including purifying and positive selection. Pressures related to immune response likely represented major drivers of evolution for ADAR genes. As for their coding targets, we suggest that most editing events are slightly deleterious, although a minority may be beneficial and contribute to antiviral response and skin homeostasis.
A new minor diketopiperazine from the sponge-derived fungus Simplicillium sp. YZ-11
Creators: name: Bing-Fei Yan
name: Sheng-Tao Fang
name: Wen-Zuo Li
name: Liu, Su-Jing
name: Wang, Jian-Hua
name: Chuan-Hai Xia
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biochemistry
subject: Space Science
subject: Pharmacology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: FOS: Biological sciences

description: Chemical investigation of the cultures of a sponge-derived fungus Simplicillium sp. YZ-11 led to the isolation of a new minor diketopiperazine alkaloid cyclo-(2-hydroxy-Pro-Gly) (1) and a natural lactone (S)-dihydro-5-[(S)- hydroxyphenylmethyl]-2(3H)-furanone (2), together with five known ergostane-type sterols (3–7). Their structures were established based on extensive spectroscopic methods (1H and 13C NMR, 1H-1H COSY, HSQC and HMBC) and optical rotation analysis.
Mud-Filtrate Invasion Modeling to Quantify Static and Dynamic Petrophysical Properties of Fractured and Vuggy Carbonate Formations
Creators: name: Miranda, Luis Javier
Publisher: name: The University of Texas at Austin
Year: 2008
Subjects: Petrophysical
Permeability

description: We develop and validate a new method to estimate secondary porosity and effective permeability of fractured and vuggy carbonate formations based on the numerical simulation of the process of mud-filtrate invasion. The method includes the geological characterization of core measurements and their integration with well logs and fluid production measurements. Applications of the new method are focused to the interpretation of data acquired in a carbonate reservoir in the Barinas-Apure Basin in southwest Venezuela, which is a triple-porosity system exhibiting inter-crystalline, intra-crystalline, moldic, vuggy (connected and non-connected) and fractured porosity, all embedded in a tight matrix. Rock-core data and image logs indicate that vugs are the mayor component of secondary porosity whereas fractures and interconnected vugs account for most of the permeability. The initial phase of our method consists of integrating core measurements with conventional and non-conventional well logs to calculate static and dynamic petrophysical properties via formation evaluation methods typically used to assess carbonate formations. Starting with the petrophysical variables calculated from standard formation-evaluation procedures, we simulate the process of invasion with both water- and oil-base muds. Resulting spatial distributions of water saturation and salt concentration give rise to spatial distributions of electrical resistivity which are used to calculate laterolog and induction logs. Comparison of simulated logs and measurements provides an effective means to assess whether the petrophysical properties calculated with standard interpretation methods are reliable. Specifically, if the calculated values of porosity and permeability are not correct the simulation of mud-filtrate invasion and resistivity logs will yield a poor match with measurements. In such cases, we update both variables until securing a good match between measurements and simulations. We find that permeability and porosity values estimated with our method reproduce values observed for the entire fluid-flow network system (well test data and core observations). Differences between simulations are measurements are diagnostic of presence of vugs and/or fractures. This procedure was tested on several key wells with and without core measurements, borehole images, and well-testing measurements. We conclusively find that our updated values of porosity and permeability are in very good agreement with the properties of the global petrophysical system. Differences between porosity and permeability values before and after simulation of the process of invasion are reliable indicators of presence and influence of vugs and/or fractures in the displacement of hydrocarbons by mud filtrate.
Surface Dissolution: Addressing Technical Challenges of CO2 Injection and Storage in Brine Aquifers
Creators: name: Burton, McMillan
Publisher: name: The University of Texas at Austin
Year: 2008
Subjects: CO2
Brine aquifer

description: Sequestration of CO2 in geologic formations will be part of any campaign to mitigate greenhouse gas emissions. The risk of leakage from the target formation must be weighed against economic feasibilities for this technology to gain stakeholder acceptance. The standard approach to large-scale geologic sequestration assumes that CO2 will be injected as a bulk phase into a saline aquifer. The primary driver for leakage in this approach is the buoyancy of CO2 under typical deep reservoir conditions. This research investigates an alternative storage approach that eliminates the buoyant leakage concern and addresses other injection and storage concerns. The tradeoff for this added storage assurance is increased cost, which is quantified and compared to the standard approach. The prototypical surface dissolution process uses the brine extracted from the target aquifer as a solvent. Captured CO2 is dissolved into this brine in a surface facility prior to injection into the aquifer. The CO2-laden brine is slightly denser than brine containing no CO2, so ensuring the complete dissolution of all CO2 into brine at the surface eliminates the risk of buoyancy-driven leakage. The displacement volume is about 30% smaller than the volume of water displaced in the standard approach, so surface dissolution reduces the overall impact on groundwater resources. However, the operational costs of the surface dissolution process are about 10-18% greater than for the standard process. Also, the capital costs are about 25%-50% greater, mainly because of the larger number of wells needed. In terms of $/t-CO2, the surface dissolution process will be about 20% more than the standard approach to geologic sequestration. This alternative strategy is particularly attractive in shallow aquifers (2,000 to 4,000 ft) which are less likely targets for the standard approach. The potential risk of buoyant migration along faults and the complications of multi-phase flow are not concerns for surface dissolution. Two bulk phase storage and injection issues are discussed in conjunction with the surface dissolution. First, natural geologic uncertainty like fault conductivity poses important risk to buoyant mobile CO2. As time progresses, more fault-prone sites are likely to be selected as the need for storage space increases. In this research, methods currently used to determine fault sealing behavior and studies of petrophysical fault zone descriptions are presented and discussed in detail. Also, during bulk phase CO2 injection, salt precipitation and multi-phase flow effects can reduce the injectivity. An injectivity model was developed to help understand the injectivity mechanisms and determine the potential injectivity reduction because of near wellbore drying and phase interaction.
The Universal Cut Function and Type II Metrics
Creators: name: Kozameh, C.
name: Newman, E. T.
name: Santiago-Santiago, J. G.
name: Silva-Ortigoza, G.
Publisher: name: arXiv
Year: 2006
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: In analogy with classical electromagnetic theory, where one determines the total charge and both electric and magnetic multipole moments of a source from certain surface integrals of the asymptotic (or far) fields, it has been known for many years - from the work of Hermann Bondi - that energy and momentum of gravitational sources could be determined by similar integrals of the asymptotic Weyl tensor. Recently we observed that there were certain overlooked structures, {defined at future null infinity,} that allowed one to determine (or define) further properties of both electromagnetic and gravitating sources. These structures, families of {complex} `slices' or `cuts' of Penrose's null infinity, are referred to as Universal Cut Functions, (UCF). In particular, one can define from these structures a (complex) center of mass (and center of charge) and its equations of motion - with rather surprising consequences. It appears as if these asymptotic structures contain in their imaginary part, a well defined total spin-angular momentum of the source. We apply these ideas to the type II algebraically special metrics, both twisting and twist-free.
description: 32 pages
CO2 Sequestration: Understanding the Plume Dynamics and Estimating Risk
Creators: name: Kumar, Navanit
Publisher: name: The University of Texas at Austin
Year: 2008
Subjects: CO2
Plume dynamic

description: Geological sequestration of CO2 in deep saline aquifers is one of the ways to remove combustion emissions in sufficient volumes to mitigate the greenhouse effect. The sequestration efficiency can be defined as maximizing trapping of CO2 and minimizing CO2 leakage. The leakage risk is parameterized into three response variables: time the plume takes to hit the top seal, maximum lateral extent after certain time and total mobile gas. Extensive compositional reservoir simulations were carried out to quantify these risk parameters for different reservoir and operating parameters including permeability, porosity, aquifer thickness, perforation interval, dip, permeability anisotropy, depth and type of well. A database has been generated which can be used for predicting the risk parameters for any aquifer using interpolation between the database cases or by using simplified models. A general methodology for such predictions is discussed and illustrated for two filed cases. Several simplified analytical or semi-analytical models are developed to understand some of the characteristics of CO2 plume in saline aquifer. The models include plume migration in dipping aquifer, approximating shale barrier by equivalent permeability anisotropy in homogeneous medium, optimizing perforation interval or injection rate in order to utilize all the perforations. The behavior of plume and effect of horizontal well length on sequestration efficiency is also discussed. The various reservoir and operating parameters can be grouped in dimensionless gravity number which is the ratio of gravity forces and viscous forces. It is shown that higher gravity number lowers the CO2 sequestration efficiency. One of the risk parameter (time to hit the top seal) is studied in detail and a correlation is developed between dimensionless time to hit the top seal and gravity number. The importance of using appropriate relative permeability curves is shown. The laboratory measured relative permeability needs to be extended to account for drying region near wellbore. An analytical model of predicting the pressure profile away from injector is explained. The simulation database and simplified models are useful in ranking the prospective aquifers in terms of risk of CO2 storage. These models can act as screening tools for commissioning and decommissioning the geological sites for CO2 storage. Thus it reduces the time and money to do full scale simulation for each individual aquifer.
Linear electric field frequency shift (important for next generation electric dipole moment searches) induced in confined gases by a magnetic field gradient
Creators: name: Barabanov, A. L.
name: Golub, R.
name: Lamoreaux, S. K.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Nuclear Experiment (nucl-ex)
subject: FOS: Physical sciences

description: The search for particle electric dipole moments (edm) represents a most promising way to search for physics beyond the standard model. A number of groups are planning a new generation of experiments using stored gases of various kinds. In order to achieve the target sensitivities it will be necessary to deal with the systematic error resulting from the interaction of the well-known $\overrightarrow{v}\times \overrightarrow{E}$ field with magnetic field gradients (often referred to as the geometric phase effect (Commins, ED; Am. J. Phys. \QTR{bf}{59}, 1077 (1991), Pendlebury, JM \QTR{em}{et al;} Phys. Rev. \QTR{bf}{A70}, 032102 (2004)). This interaction produces a frequency shift linear in the electric field, mimicking an edm. In this work we introduce an analytic form for the velocity auto-correlation function which determines the velocity-position correlation function which in turn determines the behavior of the frequency shift (Lamoreaux, SK and Golub, R; Phys. Rev \QTR{bf}{A71}, 032104 (2005)) and show how it depends on the operating conditions of the experiment. We also discuss some additional issues.
description: 21 pages, 5 figures
Nathorstoceras adnatum Kröger 2013, sp. nov.
Creators: name: Kröger, Björn
Publisher: name: Zenodo
Year: 2013
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Cephalopoda
Orthocerida
Eriditidae
Nathorstoceras
Nathorstoceras adnatum

description: Nathorstoceras adnatum sp. nov.
urn:lsid:zoobank.org:act: 58064C88-D4A3-4CA4-B6EA-DE719EE0F724
Figs 10C, 13F, 19A, 20A, 21B
Diagnosis
Nathorstoceras with nearly straight and very weakly annulated conch with angle of expansion of 8°; annulations more pronounced in late growth stages; shell ornamented with regularly spaced transverse lirae and distance between annulations ca. 0.2 of corresponding conch height; annuli and lirae form shallow sinus on prosiphuncular side; conch cross section compressed with width/height ratio of ca. 0.8; septal distance ca. 0.24 of corresponding conch height; siphuncle subcentral with SPR 0.41; septal perforation with diameter of ca. 0.05 of corresponding conch height; siphuncular segments abruptly expanded at septal foramen with maximum diameter of ca. 0.14 of corresponding conch cross section; endosiphuncular deposits unknown.
Etymology
Refers to the strongly expanded, adnate siphuncular segments of this species.
Holotype
PMU 26733.
Type locality and horizon
Kallholn, Siljan District, Sweden, Boda Limestone, Boda Core Member, late Katian, Ordovician.
Description
The specimen is a portion of phragmocone ca. 50 mm long, with a height of 37–44 mm and a width at the adoral end of 30 mm (width/height ratio 0.81, angle of expansion 8°) (Fig. 10C, 19A). The conch is faintly annulated with a distance between two successive annuli of ca. 0.2 of the corresponding conch cross section, and ornamented with pronounced, regularly spaced lirae, with a distance between two subsequent lirae of ca. 1. 5 mm. The conch is is nearly straight, with a subcentrally positioned siphuncle; at the apical end of the specimen its distance from the conch margin is 15 mm (SPR 0.41). The connecting ring is much wider than the septal perforation (Figs 20A, 21B). At the adapical end of the specimen the septal perforation is ca. 2 mm and the maximum diameter of the siphuncle is 5 mm (0.05 and 0.14 of the corresponding conch cross section, respectively). The sutures are directly transverse and form shallow lateral lobes. At the adapical end of the specimen the distance between two septa is 9 mm (0.24 of corresponding conch cross section). The septal necks are achoanitic and the siphuncular segments are adnate, abruptly expanded at septal foramen. No cameral and endosiphuncular deposits occur.
Comparison
See comparison with Nathorstoceras kallholnense sp. nov. (above).
Family Geisonoceratidae Zhuravleva, 1959
description: Published as part of Kröger, Björn, 2013, The cephalopods of the Boda Limestone, Late Ordovician, of Dalarna, Sweden, pp. 1-110 in European Journal of Taxonomy 41 on pages 42-43, DOI: 10.5852/ejt.2013.41, http://zenodo.org/record/3814221
Micromegas TPC studies at high magnetic fields using the charge dispersion signal
Creators: name: Dixit, M.
name: Attie, D.
name: Bellerive, A.
name: Boudjemline, K.
name: Colas, P.
name: Giganon, P.
name: Giomataris, I.
name: Lepeltier, V.
name: Liu, S.
name: Martin, J. -P.
name: Sachs, K.
name: Shin, Y.
name: Turnbull, S.
Publisher: name: arXiv
Year: 2007
Subjects: subject: Instrumentation and Detectors (physics.ins-det)
subject: FOS: Physical sciences

description: The International Linear Collider (ILC) Time Projection Chamber (TPC) transverse space-point resolution goal is 100 microns for all tracks including stiff 90 degree tracks with the full 2 meter drift. A Micro Pattern Gas Detector (MPGD) readout TPC can achieve the target resolution with existing techniques using 1 mm or narrower pads at the expense of increased detector cost and complexity. The new MPGD readout technique of charge dispersion can achieve good resolution without resorting to narrow pads. This has been demonstrated previously for 2 mm x 6 mm pads with GEMs and Micromegas in cosmic ray tests and in a KEK beam test in a 1 Tesla magnet. We have recently tested a Micromegas-TPC using the charge dispersion readout concept in a high field super-conducting magnet at DESY. The measured Micromegas gain was found to be constant within 0.5% for magnetic fields up to 5 Tesla. With the strong suppression of transverse diffusion at high magnetic fields, we measure a flat 50 micron resolution at 5 Tesla over the full 15 cm drift length of our prototype TPC.
description: 7 pages, 3 figures
Supplementary Material and Methods from Ancient DNA reveals a southern presence of the Northeast Arctic cod during the Holocene
Creators: name: Martinez-Garcia, Lourdes
name: Ferrari, Giada
name: Hufthammer, Anne Karin
name: Jakobsen, Kjetill S.
name: Jentoft, Sissel
name: Barrett, James H.
name: Star, Bastiaan
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: Evolutionary Biology
subject: FOS: Biological sciences
subject: Ecology

description: Supplementary Figures and Tables S1, S2 and S3
Numerical Modeling of the VAPEX Process in Heterogeneous Media
Creators: name: Forster, Louis Jaime
Publisher: name: The University of Texas at Austin
Year: 2008
Subjects: Heterogeneous media
Permeability

description: Interest in using VAPEX as an alternative to thermal methods to recover heavy oil and bitumen is gaining interest. The main difference between methods is that while thermal methods rely on conduction of heat as well as mass transfer, VAPEX only relies on mass transfer. This limits mass diffusion and convection solely to occur through the pore space, whereas heat from thermal methods can conduct through solids. Therefore, it has been postulated that VAPEX is more sensitive to heterogeneity than thermal methods. The interest here was to see to what extent VAPEX is affected by spatial heterogeneity. The theory generated for the VAPEX process assumes permeability to be a scalar. The idea explored here was for the same permeability distribution, does the spatial heterogeneity affect recovery and to what extent? A two dimensional compositional simulator was constructed with permeability fields varying in the horizontal and vertical directions. The permeability fields were accompanied by appropriately scaled capillary pressures by use of the Leverett J-function. The correlation lengths were varied and the production data was noted to see what effect spatial heterogeneity had on the recovery. Other sensitivity analysis were performed such as injection well location, permeability anisotropy, and coarsening of the permeability field. A random walker was implemented to further understand gravity drainage and to attempt to assess the limitations of grid block size for homogenous and heterogeneous cases.
Additional file 1 of IGF-1C domain–modified hydrogel enhanced the efficacy of stem cells in the treatment of AMI
Creators: name: Yao, Yong
name: Yang, Liang
name: Feng, Li-Feng
name: Yue, Zhi-Wei
name: Nian-Huan Zhao
name: Zongjin Li
name: He, Zuo-Xiang
Publisher: name: figshare
Year: 2020
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Hematology

description: Additional file 1: Table S1. RT-PCR primer sequences (human).
Geisonoceras Hyatt 1884
Creators: name: Kröger, Björn
Publisher: name: Zenodo
Year: 2013
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Cephalopoda
Orthocerida
Geisonoceratidae
Geisonoceras

description: Genus Geisonoceras Hyatt, 1884
Type species
Orthoceras rivale Barrande, 1866, Prague Basin, Czech Republic, Ludlovian, Silurian; by original designation.
Diagnosis
Slender longiconic orthocones or slightly cyrtoconic longicones with circular to subcircular cross section; ornamented with broad transverse bands between which are fine growth lines; transverse bands are slightly oblique forming shallow hyponomic sinus; sutures directly transverse or slightly
oblique; siphuncle subcentral; septal necks short orthochoanitic; connecting rings slightly expanding within chambers; weak annulosiphonate deposits concentrated at septal foramen in adapical siphuncular segments; camerae with episeptal and hyposeptal deposits. (Adopted from Sweet 1964c).
description: Published as part of Kröger, Björn, 2013, The cephalopods of the Boda Limestone, Late Ordovician, of Dalarna, Sweden, pp. 1-110 in European Journal of Taxonomy 41 on pages 43-44, DOI: 10.5852/ejt.2013.41, http://zenodo.org/record/3814221