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de Vasconcelos Melo Francisco Tiago - - 2013
Brasicystis bennetti Thatcher, 1979 was first described from specimens obtained from the subcutaneous tissues of the mouth and operculum of Plagioscyion squamosissimus from the Amazon River in Brazil, however since 2008, Brasicystis has been considered a genus inquirendum. This study reviews some of the diagnostic characters from the original description ...
Pfeifer John D - - 2013
Occult specimen provenance complications (SPCs), which occur when there is an absence of any direct or indirect indication that a specimen switch or contamination may have occurred, constitute a significant patient safety and medical-legal problem because they can lead to misdiagnosis. However, the rate at which occult SPCs occur is ...
Hariri Tabrizi Sanaz - - 2013
ABSTRACT. We have assessed the value of single fiber reflectance (SFR) spectroscopy in prediction of cervical squamous intraepithelial lesions (SIL). SFR was used to measure reflected light from 32 patients undergoing standard colposcopy. Seven parameters extracted from the spectra in addition to two biographic parameters were compared in biopsy-confirmed SIL ...
Torralba-Burrial Antonio - - 2013
Odonata are represented from the Iberian Peninsula by 79 species. However, there exists a significant gap in accessible knowledge about these species,especially regarding their distribution. This data paper describes the specimen-based Odonata data of the Arthropod Collection of the Department of Biología de Organismos y Sistemas (BOS), University of Oviedo, ...
Anthony Simon J - - 2013
ABSTRACT The majority of emerging zoonoses originate in wildlife, and many are caused by viruses. However, there are no rigorous estimates of total viral diversity (here termed "virodiversity") for any wildlife species, despite the utility of this to future surveillance and control of emerging zoonoses. In this case study, we ...
Sowa Jan-Peter JP Department of Gastroenterology and Hepatology, University Hospital, University Duisburg-Essen, Essen, - - 2013
Various conditions of liver disease and the downsides of liver biopsy call for a non-invasive option to assess liver fibrosis. A non-invasive score would be especially useful to identify patients with slow advancing fibrotic processes, as in Non-Alcoholic Fatty Liver Disease (NAFLD), which should undergo histological examination for fibrosis. Classic ...
Tang Liang L Department of Biology, Shanghai Normal University, 100 Guilin Road, 1st Educational Building 323 Room, Shanghai, 200234 P. R. - - 2013
Brathinus satoi Kishimoto & Shimada, 2003 is recorded from Longwangshan Nature Reserve, Zhejiang, China. Some diagnostic characters of the species are discussed based on more specimens, and some biological notes are made on the species.
Luo Yongting Y Department of Biology, Shanghai Normal University, Guilin Road 100, Shanghai, - - 2013
During the study of rotifers collected in Eastern DR Congo, we rediscovered specimens that correspond to Monostyla dorsicornuta Van Oye, 1926. This species, which we redescribe, had not been seen since it's summary description, and lacked type material. Our analysis reveals that the animal belongs to Trichotriidae rather than to ...
Hoffmann Dorothee D Museum Wiesbaden - Hessisches Landesmuseum für Kunst und Natur, Naturhistorische Sammlungen, Friedrich-Ebert-Allee 2, 65185 Wiesbaden, - - 2013
Bird specimens collected by 19(th) century explorer and ornithologist Prince Maximilian of Wied-Neuwied form one of the foundation collections of the American Museum of Natural History in New York. However, parts of his collection remained in Germany and came to the Museum Wiesbaden. Since Wied described numerous new species without ...
Yin Zi-Wei ZW Department of Biology, College of Life and Environmental Sciences, Shanghai Normal University, 100 Guilin Road, Shanghai, 200234, P. R. China ; Department of Biology, School of Life Sciences, East China Normal University, 3663 North Zhongshan Road, Shanghai,200062, P. R. - - 2013
Tangius indicus sp. n. (Batrisitae: Batrisini) is described and illustrated from the Indian States of Meghalaya (Khasi Hills, type locality) and West Bengal (Darjeeling). Specimens of the new species are similar to those of the recently described T. glabellus Yin & Li from Tibet, Southwest China, and can be separated ...
Wiig Oystein O Natural History Museum, University of Oslo, POB 1172 Blindern, 0318 Oslo, Norway; Email: - - 2013
A catalog of mammalian type specimens in the collections of Natural History Museum, University of Oslo, Norway, is presented. All type specimens in the Museum's mammal collection were revisited and the respective label information was compared with the data provided in the original descriptions. Most taxa were described from type ...
Malavaud Bernard - - 2012
Abstract Objective: A recent expert study (RAND Appropriateness Method (RAM)) including a panel of 12 European urologists reported that the PCA3 score may be instrumental in taking appropriate prostate biopsy (PBx) decisions, mainly for repeat PBx. This study determined the cost/benefit balance of introducing PCA3 in the decision-making for PBx ...
Wylie Mj - - 2012
Abstract AIM: To establish a method of gonad biopsy for ovarian tissue collection in the declining giant kokopu Galaxias argenteus (Gmelin 1789) as an alternative to lethal sampling in order to understand the species' reproductive biology. METHODS: Six female giant kokopu weighing between 200 and 350 g were caught from the ...
Machado Angelo B M - - 2012
Carajathemis simone n. gen., n.sp. from the state of Pará, Brazil, is described and illustrated based on 22 specimens collected in a "canga" (laterite) lake within the forest at the Flona de Carajás, Parauapebas Municipality. The new libellulid genus fits in the subfamily Sympetrinae and the male keys out to ...
Truong Matthew M University of Wisconsin School of Medicine and Public Health, Madison, Wisconsin, - - 2013
We determined whether a novel combination of field defect DNA methylation markers could predict the presence of prostate cancer using histologically normal transrectal ultrasound guided biopsy cores. Methylation was assessed using quantitative Pyrosequencing® in a training set consisting of 65 nontumor and tumor associated prostate tissues from University of Wisconsin. ...
Socolovschi Cristina - - 2012
Canine monocytic ehrlichiosis caused by Ehrlichia canis is distributed globally, but its prevalence in Africa is poorly known. In the study reported herein, 27% of Rhipicephalus sanguineus ticks collected from watchdogs in Abidjan, Ivory Coast, were positive for E. canis using quantitative real-time PCR. A new molecular strategy is proposed ...
Mulder Daniel J - - 2012
ABSTRACT: Diagnosing eosinophilic esophagitis (EoE) depends on intraepithelial eosinophil count of ≥15 eosinophils per high power field (HPF). However, differentiating EoE from gastroesophageal reflux disease (GERD) continues to be a challenge, as no true 'gold standard' criteria exist. Identifying clinical and endoscopic characteristics that distinguish EoE could provide a more ...
Silcox Mary T - - 2012
Primates underwent a period of diversification following the extinction of non-avian dinosaurs. Although the Order first appeared near the Cretaceous-Paleogene boundary, it is not until the Torrejonian (the second North American Land Mammal Age of the Paleocene) that a diversity of families began to emerge. One of the lithological units ...
Hwang Sang-Hyun - - 2012
BACKGROUND: The probability of a prostate cancer-positive biopsy result varies with PSA concentration. Thus, we applied information theory on classification and regression tree analysis (CART) for decision making predicting the probability of a biopsy result at various PSA concentrations. METHODS: From 2007 to 2009, prostate biopsies were performed in 664 ...
Lubina Zvonimir Ivan - - 2012
PURPOSE: To present a new model derived from Ross's model for the assessment of the total amount of epidural fibrosis and to present inter- and intravariability study. METHODS: Two readers blinded to each other and blinded to their first and second reading retrospectively evaluated the magnetic resonance examinations in 32 ...
Agarwal Ritesh - - 2012
BACKGROUND AND AIM: Flexible bronchoscopic procedures are currently the most often employed technique for demonstrating granulomatous inflammation in sarcoidosis. Conventional transbronchial needle aspiration (TBNA) has been used for over three decades; however it remains an underutilized technique, primarily due to the wide variations in the reported success rates and unconfirmed ...
Prentice Heather A HA Department of Epidemiology, University of Alabama at Birmingham, Birmingham, Alabama, USA. - - 2012
The dynamics of HIV-1 viremia is a complex and evolving landscape with clinical and epidemiological (public health) implications. Most studies have relied on the use of set-point viral load (VL) as a readily available proxy of viral dynamics to assess host and viral correlates. This review highlights recent findings from ...
Achdou Yves - - 2012
In this paper we present a mathematical model for the aggregation and diffusion of A[Formula: see text] amyloid in the brain affected by Alzheimer's disease, at the early stage of the disease. The model is based on a classical discrete Smoluchowski aggregation equation modified to take diffusion into account. We ...
Wang Yan - - 2012
AIM: As liver biopsy has considerable limitations in the assessment of liver fibrosis, non-invasive models have achieved great progress in the past. However, many tests consist of variables that are not readily available, and there are few data about patients with hepatitis B e-antigen (HBeAg) negative chronic hepatitis B (CHB). ...
Romero-Canyas Rainer - - 2012
Gauging one's impression on a potential mate is challenging. There is a need to make reasonably accurate inferences from subtle, dynamic facial expressions and to maintain motivation to connect despite the risk of rejection. The interpersonal optimism of people low in rejection sensitivity (RS), people who confidently expect acceptance rather ...
Cordero Pablo P Department of Biomedical Informatics, Stanford University, Stanford, CA 94305, - - 2012
For decades, dimethyl sulfate (DMS) mapping has informed manual modeling of RNA structure in vitro and in vivo. Here, we incorporate DMS data into automated secondary structure inference using an energy minimization framework developed for 2'-OH acylation (SHAPE) mapping. On six noncoding RNAs with crystallographic models, DMS-guided modeling achieves overall ...
Anderson Stephan W - - 2012
The purpose of this study was to evaluate the non-Gaussian behavior of diffusion related signal decay of the ex vivo murine liver tissues from a dietary model of hepatic fibrosis. To this end, a biexponential formalism was used to model high b-value diffusion imaging (up to 3500 s/mm(2)), the findings ...
Yilmaz Yusuf - - 2012
BACKGROUND: Although liver biopsy remains the best diagnostic standard for nonalcoholic steatohepatitis (NASH), non-invasive tests are eagerly awaited. In this study, we sought to develop a support vector machine (SVM) algorithm to discriminate with high accuracy between subjects with NASH and controls using a blood-based biomarker panel. METHODS: A total ...
Sükösd Zsuzsanna Z Interdisciplinary Nanoscience Center, Aarhus University, Aarhus N, Denmark. - - 2012
PPfold is a multi-threaded implementation of the Pfold algorithm for RNA secondary structure prediction. Here we present a new version of PPfold, which extends the evolutionary analysis with a flexible probabilistic model for incorporating auxiliary data, such as data from structure probing experiments. Our tests show that the accuracy of ...
Aqvist Johan - - 2012
The wealth of structural and biochemical data now available for protein synthesis on the ribosome presents major new challenges for computational biochemistry. Apart from technical difficulties in modeling ribosome systems, the complexity of the overall translation cycle with a multitude of different kinetic steps presents a formidable problem for computational ...
Lan Tian - - 2012
In this paper, we go beyond recognizing the actions of individuals and focus on group activities. This is motivated from the observation that human actions are rarely performed in isolation; the contextual information of what other people in the scene are doing provides a useful cue for understanding high-level activities. ...
Keating Kevin S - - 2012
RNA crystals typically diffract to much lower resolutions than protein crystals. This low-resolution diffraction results in unclear density maps, which cause considerable difficulties during the model-building process. These difficulties are exacerbated by the lack of computational tools for RNA modeling. Here, RCrane, a tool for the partially automated building of ...
Parlato E - - 2012
The objective of this study was to evaluate the effect of parentage misidentification on estimation of genetic parameters for the Italian buffalo population for milk yield from 45,194 lactation records of 23,104 Italian buffalo cows. Animals were grouped into 10 data sets in which sires and dams were DNA identified, ...
Brisco Michael J - - 2012
RNA degradation can distort or prevent measurement of RNA transcripts. A mathematical model for degradation was constructed, based on random RNA damage and exponential polymerase chain reaction (PCR) amplification. Degradation, measured as the number of lesions/base, can be quantified by amplifying several sequences of a reference gene, calculating the regression ...
Hausmann Nina Z NZ Department of Chemistry, Saint Louis University, Saint Louis, MO 63103, - - 2012
To better elucidate RNA structure-function relationships and to improve the design of pharmaceutical agents that target specific RNA motifs, an understanding of RNA primary, secondary, and tertiary structure is necessary. The prediction of RNA secondary structure from sequence is an intermediate step in predicting RNA three-dimensional structure. RNA secondary structure ...
McGovern Andrew P - - 2012
Recent advances have highlighted the central role of DNA methylation in leukemogenesis and have led to clinical trials of epigenetic therapy, notably hypomethylating agents, in myelodysplasia and acute myeloid leukemia. However, despite these advances, our understanding of the dynamic regulation of the methylome remains poor. We have attempted to address ...
Fatima Sabiha - - 2012
Poly (ADP-ribose) polymerase-1 (PARP-1) operates in a DNA damage signaling network. Molecular docking and three dimensional-quantitative structure activity relationship (3D-QSAR) studies were performed on human PARP-1 inhibitors. Docked conformation obtained for each molecule was used as such for 3D-QSAR analysis. Molecules were divided into a training set and a test ...
Lohse Marc - - 2012
Recent rapid advances in next generation RNA sequencing (RNA-Seq)-based provide researchers with unprecedentedly large data sets and open new perspectives in transcriptomics. Furthermore, RNA-Seq-based transcript profiling can be applied to non-model and newly discovered organisms because it does not require a predefined measuring platform (like e.g. microarrays). However, these novel ...
Wolfe Kevin C KC Department of Mechanical Engineering, Johns Hopkins University, Baltimore, Maryland, United - - 2012
Several different mechanical models of double-helical nucleic-acid structures that have been presented in the literature are reviewed here together with a new analysis method that provides a reconciliation between these disparate models. In all cases, terminology and basic results from the theory of Lie groups are used to describe rigid-body ...
Seo Sangjae - - 2012
KOSMOS is the first online morph server to be able to address the structural dynamics of DNA/RNA, proteins and even their complexes, such as ribosomes. The key functions of KOSMOS are the harmonic and anharmonic analyses of macromolecules. In the harmonic analysis, normal mode analysis (NMA) based on an elastic ...
Touleimat Nizar - - 2012
Background: Huge progress has been made in the development of array- or sequencing-based technologies for DNA methylation analysis. The Illumina Infinium(®) Human Methylation 450K BeadChip (Illumina Inc., CA, USA) allows the simultaneous quantitative monitoring of more than 480,000 CpG positions, enabling large-scale epigenotyping studies. However, the assay combines two different ...
Mollazadeh-Beidokhti Laleh - - 2012
We studied the dynamical behavior of a mononucleosome under tension using a theoretical model that takes into account the nucleosomal geometry, DNA elasticity, nonspecific DNA-protein binding, and effective repulsion between the two DNA turns. Using a dynamical Monte-Carlo simulation algorithm, we demonstrate that this model shows a behavior that for ...
Anderson James Wj - - 2012
ABSTRACT: BACKGROUND: Stochastic Context-Free Grammars (SCFGs) were applied successfully to RNA secondary structure prediction in the early 90s, and used in combination with comparative methods in the late 90s. The set of SCFGs potentially useful for RNA secondary structure prediction is very large, but a few intuitively designed grammars have ...
Iancu Ovidiu D OD Department of Behavioral Neuroscience, Oregon Health & Science University, Portland, OR 97239-3098, USA. - - 2012
RNA-Seq experiments have shown great potential for transcriptome profiling. While sequencing increases the level of biological detail, integrative data analysis is also important. One avenue is the construction of coexpression networks. Because the capacity of RNA-Seq data for network construction has not been previously evaluated, we constructed a coexpression network ...
Lebon Florence - - 2012
A multi-disciplinary approach was used to identify the first pharmacophore model for KCC2 blockers: several physico-chemical studies such as XRD and NMR were combined to molecular modelling techniques, SAR analysis and synthesis of constrained analogues in order to determine a minimal conformational space regrouping few potential bioactive conformations. These conformations ...
Loinger Adiel - - 2012
Two major classes of small regulatory RNAs--small interfering RNAs (siRNAs) and microRNA (miRNAs)--are involved in a common RNA interference processing pathway. Small RNAs within each of these families were found to compete for limiting amounts of shared components, required for their biogenesis and processing. Association with Argonaute (Ago), the catalytic ...
Chen Jonathan L - - 2012
Thermodynamic parameters for GU pairs are important for predicting the secondary structures of RNA and for finding genomic sequences that code for structured RNA. Optical melting curves were measured for 29 RNA duplexes with GU pairs to improve nearest neighbor parameters for predicting stabilities of helixes. The updated model eliminates ...
Zabet Nicolae Radu - - 2012
Gene activity is mediated by site-specific transcription factors (TFs). Their binding to defined regions in the genome determines the rate at which their target genes are transcribed. We present a comprehensive computational model of the search process of TF for their genomic target site(s). The computational model considers: the DNA ...
Chuah Tong Kuan - - 2012
This paper presents a termination criterion for active contour that does not involve alteration of the energy functional. The criterion is based on the area difference of the contour during evolution. In this criterion, the evolution of the contour terminates when the area difference fluctuates around a constant. The termination ...
Sim Adelene Y L AY Department of Applied Physics, Stanford University, Stanford, CA 94305-4090, USA. - - 2012
Ribonucleic acid (RNA) molecules play important roles in a variety of biological processes. To properly function, RNA molecules usually have to fold to specific structures, and therefore understanding RNA structure is vital in comprehending how RNA functions. One approach to understanding and predicting biomolecular structure is to use knowledge-based potentials ...
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