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https://www.readbyqxmd.com/read/27918579/a-graph-centric-approach-for-metagenome-guided-peptide-and-protein-identification-in-metaproteomics
#1
Haixu Tang, Sujun Li, Yuzhen Ye
Metaproteomic studies adopt the common bottom-up proteomics approach to investigate the protein composition and the dynamics of protein expression in microbial communities. When matched metagenomic and/or metatranscriptomic data of the microbial communities are available, metaproteomic data analyses often employ a metagenome-guided approach, in which complete or fragmental protein-coding genes are first directly predicted from metagenomic (and/or metatranscriptomic) sequences or from their assemblies, and the resulting protein sequences are then used as the reference database for peptide/protein identification from MS/MS spectra...
December 2016: PLoS Computational Biology
https://www.readbyqxmd.com/read/27914893/near-atomic-resolution-structure-determination-of-a-cypovirus-capsid-and-polymerase-complex-using-cryo-em-at-200kv
#2
Xiaowu Li, Niyun Zhou, Wenyuan Chen, Bin Zhu, Xurong Wang, Bin Xu, Jiawei Wang, Hongrong Liu, Lingpeng Cheng
Single particle cryo-electron microscopy (cryo-EM) allows high-resolution structural determination of biological assemblies in a near-native environment. However, all high-resolution (better than 3.5Å) cryo-EM structures reported to date were obtained by using 300kV transmission electron microscopes (TEMs). We report here the structures of a cypovirus capsid of 750Å diameter at 3.3Å resolution and RNA-dependent RNA polymerase (RdRp) complexes within the capsid at 3.9Å resolution using a 200kV TEM. The newly resolved structure revealed conformational changes of two subdomains in the RdRp...
November 30, 2016: Journal of Molecular Biology
https://www.readbyqxmd.com/read/27910758/antimicrobial-coumarins-from-the-oyster-culinary-medicinal-mushroom-pleurotus-ostreatus-agaricomycetes-from-kenya
#3
Lilechi D Baraza, Wekesa Neser, Korir Cheruiyot Jackson, Juma B Fredrick, Ochieno Dennis, Kamau R Wairimu, Aggrey Osogo Keya, Matthias Heydenreich
Pleurotus ostreatus has been widely used as food because of its nutritional and medicinal properties. These have been attributed to the presence of macronutrients, minerals, vitamins, and amino acids, among other secondary metabolites. There are, however, few reports on the antimicrobial activities of different classes of purified compounds from P. ostreatus. This led to the current study, the objective of which was to chemically characterize the antibiotic activities of P. ostreatus against selected human pathogenic bacteria and endophytic fungi...
2016: International Journal of Medicinal Mushrooms
https://www.readbyqxmd.com/read/27884632/strategies-for-improving-the-value-of-the-radiology-report-a-retrospective-analysis-of%C3%A2-errors-in-formally-over-read-studies
#4
Suraj Jay Kabadi, Arun Krishnaraj
PURPOSE: The radiology report is a critical component of the Imaging Value Chain. Unfortunately, the quality of this aspect of a radiologist's work is often heterogeneous and fails to add significant value to the referring provider and, ultimately, the patient. Gauging what defines quality can be elusive; however, we elucidate techniques that can be employed to ensure that reports are more comprehensible, actionable, and useful to our customers. METHODS: Four hundred consecutive studies (July-August 2015) submitted to our institution with request for a formal over-read were reviewed retrospectively, specifically focused on analyzing differences in language, organization, and impression between the outside reports and the formal over-reads performed at our institution...
November 21, 2016: Journal of the American College of Radiology: JACR
https://www.readbyqxmd.com/read/27870925/quantitative-and-qualitative-analysis-of-student-tutors-as-near-peer-teachers-in-the-gross-anatomy-course
#5
J Walser, A Horneffer, W Oechsner, M Huber-Lang, S Gerhardt-Szep, A Boeckers
INTRODUCTION: Peer teaching is a well-established teaching method in medical education. During the 2012/13 winter term, the Institute of Anatomy and Cell Biology in Ulm, Germany, introduced a longitudinal didactics program ("Train the Tutor": TtT) to train student tutors as near-peer teachers (NPT) in the dissection course (DC). Twenty-three of 38 tutors participated in the programme. Our study describes the educational concept and the NPTs' activities in the dissection course. METHODS: NPTs documented their activities on a daily basis in the form of semi-structured reports...
November 18, 2016: Annals of Anatomy, Anatomischer Anzeiger: Official Organ of the Anatomische Gesellschaft
https://www.readbyqxmd.com/read/27861230/structured-reporting-of-rectal-magnetic-resonance-imaging-in-suspected-primary-rectal-cancer-potential-benefits-for-surgical-planning-and-interdisciplinary-communication
#6
Dominik Nörenberg, Wieland H Sommer, Wolfgang Thasler, Jan DʼHaese, Markus Rentsch, Thomas Kolben, Andreas Schreyer, Carsten Rist, Maximilian Reiser, Marco Armbruster
OBJECTIVES: The aim of this study was to evaluate the effect of structured reports (SRs) in comparison to nonstructured, free-text (FT) rectal magnetic resonance imaging (MRI) reports in patients with histologically proven rectal cancer and potential effects of both types of reporting on referring surgeons' satisfaction, interdisciplinary communication, and further clinical decision making. MATERIALS AND METHODS: The institutional review board approved this retrospective study with waiver of informed consent...
November 17, 2016: Investigative Radiology
https://www.readbyqxmd.com/read/27819104/hydrogen-bonds-vs-%C3%AF-stacking-interactions-in-the-p-aminophenolp-cresol-dimer-an-experimental-and-theoretical-study
#7
M C Capello, F J Hernández, M Broquier, C Dedonder-Lardeux, C Jouvet, G A Pino
The gas phase structure and excited state lifetime of the p-aminophenolp-cresol heterodimer have been investigated by REMPI and LIF spectroscopy with nanosecond laser pulses and pump-probe experiments with picosecond laser pulses as a model system to study the competition between π-π and H-bonding interactions in aromatic dimers. The excitation is a broad and unstructured band. The excited state of the heterodimer is long lived (2.5 ± 0.5) ns with a very broad fluorescence spectrum red-shifted by 4000 cm(-1) with respect to the excitation spectrum...
November 16, 2016: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/27815798/relevance-of-ehealth-standards-for-big-data-interoperability-in-radiology-and-beyond
#8
Paolo Marcheschi
The aim of this paper is to report on the implementation of radiology and related information technology standards to feed big data repositories and so to be able to create a solid substrate on which to operate with analysis software. Digital Imaging and Communications in Medicine (DICOM) and Health Level 7 (HL7) are the major standards for radiology and medical information technology. They define formats and protocols to transmit medical images, signals, and patient data inside and outside hospital facilities...
November 4, 2016: La Radiologia Medica
https://www.readbyqxmd.com/read/27806362/iac-standardized-reporting-of-breast-fine-needle-aspiration-biopsy-cytology
#9
Andrew S Field, Fernando Schmitt, Philippe Vielh
There have been many changes in the roles of fine-needle aspiration biopsy (FNAB) and core needle biopsy (CNB) in the diagnostic workup of breast lesions in routine breast clinics and in mammographic breast screening programs, as well as changes in the management algorithms utilized and the treatments available, since the NCI consensus on breast FNAB cytology in 1996. A standardized approach will improve training and performance of FNAB and smear-making techniques, and structured reporting will improve the quality and reproducibility of reports across departments, cities and countries providing a basis for quality assurance measures and improving patient care and facilitating research...
November 3, 2016: Acta Cytologica
https://www.readbyqxmd.com/read/27793682/preparation-and-characterization-of-poly-itaconic-acid-grafted-crosslinked-chitosan-nanoadsorbent-for-high-uptake-of-hg-2-and-pb-2
#10
Huacai Ge, Tingting Hua, Jincui Wang
A novel nanoadsorbent (PIACS) with average size of 52.6nm was prepared by controlling grafted polymerization of itaconic acid on chitosan to emulsion stage and then crosslinking with glutaraldehyde. The preparation conditions were optimized and PIACS was characterized by FT-IR, XRD, SEM, TEM and TGA. The adsorption of PIACS for some metal ions was studied. The adsorption results showed that PIACS for adsorption of Hg(2+) and Pb(2+) had higher uptakes than some reported adsorbents. Various variables for adsorption of Hg(2+) and Pb(2+) were systematically researched...
October 25, 2016: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/27735189/role-of-single-ion-anisotropy-and-magnetic-exchange-interactions-in-suppressing-zero-field-tunnelling-in-3d-4f-single-molecule-magnets
#11
Tulika Gupta, Mohammad Faizan Beg, Gopalan Rajaraman
Extensive ab initio CASSCF/RASSI-SO/SINGLE_ANISO/POLY_ANISO calculations have been undertaken on eight structurally similar previously synthesized [Cu(II)(L)(C3H6O)Ln(III)(NO3)3] (Ln = Dy (1), Tb (3), Ho (5), and Er (7)) and [V(IV)O(L)(C3H6O)Ln(III)(NO3)3] (Ln = Dy (2), Tb (4), Ho (6), and Er (8)) (here H2L = N,N'-bis(3-methoxysalicylidene)-1,3-diamino-2,2-dimethylpropane) complexes (crystal structures reported earlier). Our estimated exchange interactions (J) using the Lines model for complexes 1-8 (1.55 cm(-1), 0...
October 13, 2016: Inorganic Chemistry
https://www.readbyqxmd.com/read/27722437/in-situ-formation-of-the-first-proteinogenically-functionalized-tew6o24o2-glu-7-structure-reveals-unprecedented-chemical-and-geometrical-features-of-the-anderson-type-cluster
#12
Christian Molitor, Aleksandar Bijelic, Annette Rompel
The chemistry of polyoxometalates (POMs) in a protein environment is an almost unexplored but highly relevant research field as important biological and pharmacological attributes of certain POMs are based on their interactions with proteins. We report on the A-type Anderson-Evans polyoxotungstate, [TeW6O24](6-) (TEW), mediated crystallization of Coreopsis grandiflora aurone synthase (cgAUS1) using ∼0.24 mM protein and 1.0 mM TEW. The 1.78 Å crystal structure reveals the covalent binding of TEW to the protein under the formation of an unprecedented polyoxotungstate cluster, [TeW6O24O2(Glu)](7-) (GluTEW)...
October 11, 2016: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/27704459/enhancement-of-structured-reporting-an-integration-reporting-module-with-radiation-dose-collection-supporting
#13
Ming-Che Lee, Kei-Shih Chuang, Tien-Cheng Hsu, Chien-Ding Lee
Collection of radiation dose derived from radiological examination is necessary not only for radiation protection, but also for fulfillment of structured reports. However, the material regarding of radiation dose cannot be directly utilized by the Radiological Information System (RIS) since it is generated and only stored in the Picture Archiving and Communication System (PACS). In this paper, an integration reporting module is proposed to facilitate handling of dose information and structured reporting by providing two functionalities...
November 2016: Journal of Medical Systems
https://www.readbyqxmd.com/read/27687750/quality-improvement-of-breast-mri-reports-with-standardized-templates-for%C3%A2-structured-reporting
#14
Dorothy A Sippo, Robyn L Birdwell, Katherine P Andriole, Sughra Raza
No abstract text is available yet for this article.
September 24, 2016: Journal of the American College of Radiology: JACR
https://www.readbyqxmd.com/read/27669055/phonon-transport-in-single-layer-boron-nanoribbons
#15
Zhongwei Zhang, Yuee Xie, Qing Peng, Yuanping Chen
Inspired by the successful synthesis of three two-dimensional (2D) allotropes, the boron sheet has recently been one of the hottest 2D materials around. However, to date, phonon transport properties of these new materials are still unknown. By using the non-equilibrium Green's function (NEGF) combined with the first principles method, we study ballistic phonon transport in three types of boron sheets; two of them correspond to the structures reported in the experiments, while the third one is a stable structure that has not been synthesized yet...
November 4, 2016: Nanotechnology
https://www.readbyqxmd.com/read/27660084/psychometric-characteristics-of-the-hebrew-version-of-the-professional-quality-of-life-proqol-scale
#16
Tali Samson, Esther Iecovich, Pesach Shvartzman
CONTEXT: Exposure to human suffering may have ramifications for the professional quality of life (ProQol) of palliative care teams. The ProQol scale was designed to assess both negative and positive work-related outcomes, and has been used recently for the evaluation of work-related outcomes among palliative care workers. However, the assessment of ProQol among Israeli hospice workers is scant. OBJECTIVES: Assessment of the psychometric properties and the factor structure of the Hebrew version of the 30-item ProQol questionnaire...
September 19, 2016: Journal of Pain and Symptom Management
https://www.readbyqxmd.com/read/27645300/structures-and-gene-clusters-of-the-o-specific-polysaccharides-of-the-lipopolysaccharides-of-escherichia-coli-o69-and-o146-containing-glycolactilic-acids-ether-conjugates-of-d-glcnac-and-d-glc-with-r-and-s-lactic-acid
#17
Yuriy A Knirel, Xi Guo, Sof'ya N Senchenkova, Andrei V Perepelov, Bin Liu, Alexander S Shashkov
Based on the O-specific polysaccharides of the lipopolysaccharides (O-polysaccharides, O-antigens), strains of a clonal species Escherichia coli are classified into 184 O serogroups. In this work, structures of the O-polysaccharides of E. coli O69 and O146 were elucidated and gene clusters for their biosynthesis were characterized. The O-polysaccharides were released from the lipopolysaccharides by mild acid hydrolysis and studied by sugar analysis and one- and two-dimensional (1)H and (13)C NMR spectroscopy before and after O-deacetylation...
September 19, 2016: Glycoconjugate Journal
https://www.readbyqxmd.com/read/27638153/how-is-shoulder-ultrasound-done-in-italy-a-survey-of-clinical-practice
#18
Marcello Zappia, Alberto Aliprandi, Simona Pozza, Fabio Martino Doniselli, Salvatore Gitto, Luca Maria Sconfienza
OBJECTIVES: To define when an ultrasound examination of the shoulder can be considered complete and how many examinations currently performed in Italy are actually complete according to that definition. MATERIALS AND METHODS: Reports and images of previously performed ultrasound examinations of the shoulder of patients seen in 2014 for interventional procedures were reviewed for the following items, according to guidelines published by the European Society of Musculoskeletal Radiology: long biceps, subscapularis, supraspinatus, external rotators, acromioclavicular joint, subacromial bursa, subacromial space, coraco-acromial ligament, and the posterior recess...
September 16, 2016: Skeletal Radiology
https://www.readbyqxmd.com/read/27632071/topochemistry-optical-anisotropy-and-ft-ir-microspectroscopy-of-the-cocoon-of-lithurgus-chrysurus-hymenoptera-megachilidae
#19
Maria Luiza S Mello, Eli Heber M Dos Anjos, Benedicto de Campos Vidal, Jerome G Rozen
A previous study has not revealed the participation of a mucous component in the cocoon wall of the solitary bee, Lithurgus chrysurus, differing from the cocoon structure reported for many other bee species. However, uncertainty remains, because only the median and rear zones of this cocoon type have thus far been analyzed. Here, we studied the front zone of this cocoon, searching its components and their organization, to fill this knowledge gap. Topochemical assays, polarization microscopy and Fourier transform-infrared (FT-IR) microspectroscopy were used to study cross sections from L...
November 2016: Micron: the International Research and Review Journal for Microscopy
https://www.readbyqxmd.com/read/27605113/high-resolution-snapshots-of-proteasome-inhibitors-in-action-revise-inhibition-paradigms-and-inspire-next-generation-inhibitor-design
#20
Kimberly Carmony, Wooin Lee, Kyung Bo Kim
New high-resolution crystal structures reported by Schrader and colleagues refine our understanding of how peptide epoxyketone anticancer drugs inactivate their target: the human proteasome. These findings provide important clues for the design of next-generation proteasome inhibitor drugs.
September 8, 2016: Chembiochem: a European Journal of Chemical Biology
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