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https://www.readbyqxmd.com/read/28086860/nicotiana-attenuata-data-hub-nadh-an-integrative-platform-for-exploring-genomic-transcriptomic-and-metabolomic-data-in-wild-tobacco
#1
Thomas Brockmöller, Zhihao Ling, Dapeng Li, Emmanuel Gaquerel, Ian T Baldwin, Shuqing Xu
BACKGROUND: Nicotiana attenuata (coyote tobacco) is an ecological model for studying plant-environment interactions and plant gene function under real-world conditions. During the last decade, large amounts of genomic, transcriptomic and metabolomic data have been generated with this plant which has provided new insights into how native plants interact with herbivores, pollinators and microbes. However, an integrative and open access platform that allows for the efficient mining of these -omics data remained unavailable until now...
January 13, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28081329/daily-surveillance-with-early-warning-scores-help-predicthospital-mortality-in-medical-wards
#2
Mine Durusu Tanrıöver, Burçin Halaçlı, Bilgin Sait, Serpil Öcal, Arzu Topeli
BACKGROUND/AIM: To analyze the potency of a modified early warning score (EWS) to help predict hospital mortality when used for surveillance in nonacute medical wards. MATERIALS AND METHODS: Patients in internal medicine wards were prospectively recruited. First, highest, and last scores; and mean daily score recordings and values were recorded. Nurses calculated scores for each patient upon admission and every 4 h. The last score was the score before death, discharge, or transfer to another ward...
December 20, 2016: Turkish Journal of Medical Sciences
https://www.readbyqxmd.com/read/28081030/ultrasound-findings-of-young-and-traumatic-amputees-with-lower-extremity-residual-limb-pain-in-turkey
#3
Koray Aydemir, Yasin Demir, Ümüt Güzelküçük, Kutay Tezel, Bilge Yilmaz
OBJECTIVE: The current study was designed to document clinical and ultrasound (US) findings of patients with residual limb pain (RLP) after amputation and to investigate the relationship between these findings. MATERIALS AND METHODS: A chart review was performed to identify demographic and clinical data including the age (current and at the time of injury), time since amputation, gender, reason for amputation, affected limb number, side and level of limb loss, and ultrasonographic findings of young and traumatic amputees with RLP...
January 9, 2017: American Journal of Physical Medicine & Rehabilitation
https://www.readbyqxmd.com/read/28079518/angiotensin-receptor-blockers-and-the-risk-of-cancer-data-mining-of-a-spontaneous-reporting-database-and-a-claims-database%C3%A2
#4
Mai Fujimoto, Migiwa Kanou, Kouichi Hosomi, Mitsutaka Takada
OBJECTIVE: The aim of this study was to examine the associations between angiotensin receptor blockers (ARBs) and the risk of 10 major cancers by employing different pharmacoepidemiological assessments. MATERIALS AND METHODS: Data from the first quarter of 2004 through 2012 were downloaded from the US Food and Drug Administration Adverse Event Reporting System (FAERS). The reporting odds ratio (ROR) and information component (IC) were used to detect the signals...
January 12, 2017: International Journal of Clinical Pharmacology and Therapeutics
https://www.readbyqxmd.com/read/28079128/parallel-meta-3-comprehensive-taxonomical-and-functional-analysis-platform-for-efficient-comparison-of-microbial-communities
#5
Gongchao Jing, Zheng Sun, Honglei Wang, Yanhai Gong, Shi Huang, Kang Ning, Jian Xu, Xiaoquan Su
The number of metagenomes is increasing rapidly. However, current methods for metagenomic analysis are limited by their capability for in-depth data mining among a large number of microbiome each of which carries a complex community structure. Moreover, the complexity of configuring and operating computational pipeline also hinders efficient data processing for the end users. In this work we introduce Parallel-META 3, a comprehensive and fully automatic computational toolkit for rapid data mining among metagenomic datasets, with advanced features including 16S rRNA extraction for shotgun sequences, 16S rRNA copy number calibration, 16S rRNA based functional prediction, diversity statistics, bio-marker selection, interaction network construction, vector-graph-based visualization and parallel computing...
January 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28079125/establishment-of-a-integrative-multi-omics-expression-database-ckddb-in-the-context-of-chronic-kidney-disease-ckd
#6
Marco Fernandes, Holger Husi
Complex human traits such as chronic kidney disease (CKD) are a major health and financial burden in modern societies. Currently, the description of the CKD onset and progression at the molecular level is still not fully understood. Meanwhile, the prolific use of high-throughput omic technologies in disease biomarker discovery studies yielded a vast amount of disjointed data that cannot be easily collated. Therefore, we aimed to develop a molecule-centric database featuring CKD-related experiments from available literature publications...
January 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28079091/chinese-ai-company-plans-to-mine-health-data-faster-than-rivals
#7
David Cyranoski
No abstract text is available yet for this article.
January 10, 2017: Nature
https://www.readbyqxmd.com/read/28077889/differential-diagnosis-of-erythmato-squamous-diseases-using-classification-and-regression-tree
#8
Keivan Maghooli, Mostafa Langarizadeh, Leila Shahmoradi, Mahdi Habibi-Koolaee, Mohamad Jebraeily, Hamid Bouraghi
INTRODUCTION: Differential diagnosis of Erythmato-Squamous Diseases (ESD) is a major challenge in the field of dermatology. The ESD diseases are placed into six different classes. Data mining is the process for detection of hidden patterns. In the case of ESD, data mining help us to predict the diseases. Different algorithms were developed for this purpose. OBJECTIVE: we aimed to use the Classification and Regression Tree (CART) to predict differential diagnosis of ESD...
October 2016: Acta Informatica Medica: AIM
https://www.readbyqxmd.com/read/28077569/rain-rna-protein-association-and-interaction-networks
#9
Alexander Junge, Jan C Refsgaard, Christian Garde, Xiaoyong Pan, Alberto Santos, Ferhat Alkan, Christian Anthon, Christian von Mering, Christopher T Workman, Lars Juhl Jensen, Jan Gorodkin
Protein association networks can be inferred from a range of resources including experimental data, literature mining and computational predictions. These types of evidence are emerging for non-coding RNAs (ncRNAs) as well. However, integration of ncRNAs into protein association networks is challenging due to data heterogeneity. Here, we present a database of ncRNA-RNA and ncRNA-protein interactions and its integration with the STRING database of protein-protein interactions. These ncRNA associations cover four organisms and have been established from curated examples, experimental data, interaction predictions and automatic literature mining...
2017: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/28077563/the-bioc-biogrid-corpus-full-text-articles-annotated-for-curation-of-protein-protein-and-genetic-interactions
#10
Rezarta Islamaj Doğan, Sun Kim, Andrew Chatr-Aryamontri, Christie S Chang, Rose Oughtred, Jennifer Rust, W John Wilbur, Donald C Comeau, Kara Dolinski, Mike Tyers
A great deal of information on the molecular genetics and biochemistry of model organisms has been reported in the scientific literature. However, this data is typically described in free text form and is not readily amenable to computational analyses. To this end, the BioGRID database systematically curates the biomedical literature for genetic and protein interaction data. This data is provided in a standardized computationally tractable format and includes structured annotation of experimental evidence. BioGRID curation necessarily involves substantial human effort by expert curators who must read each publication to extract the relevant information...
2017: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/28077090/gbs-based-single-dosage-markers-for-linkage-and-qtl-mapping-allow-gene-mining-for-yield-related-traits-in-sugarcane
#11
Thiago Willian Almeida Balsalobre, Guilherme da Silva Pereira, Gabriel Rodrigues Alves Margarido, Rodrigo Gazaffi, Fernanda Zatti Barreto, Carina Oliveira Anoni, Cláudio Benício Cardoso-Silva, Estela Araújo Costa, Melina Cristina Mancini, Hermann Paulo Hoffmann, Anete Pereira de Souza, Antonio Augusto Franco Garcia, Monalisa Sampaio Carneiro
BACKGROUND: Sugarcane (Saccharum spp.) is predominantly an autopolyploid plant with a variable ploidy level, frequent aneuploidy and a large genome that hampers investigation of its organization. Genetic architecture studies are important for identifying genomic regions associated with traits of interest. However, due to the genetic complexity of sugarcane, the practical applications of genomic tools have been notably delayed in this crop, in contrast to other crops that have already advanced to marker-assisted selection (MAS) and genomic selection...
January 11, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28076985/two-new-diketopiperazines-from-the-tin-mine-tailings-derived-fungus-schizophyllum-commune-yim-dt-10058
#12
Wei-Xun Chunyu, Zhang-Gui Ding, Jiang-Yuan Zhao, Yong-Xia Wang, Xiu-Lin Han, Ming-Gang Li, Meng-Liang Wen
Two new diketopiperazines, named diphenylalazine C (1) and epicoccin U (2), together with six known compounds (3-8) were isolated from the EtOAc extract of the fermentation broth of the tin mine tailings-derived fungus Schizophyllum commune YIM DT 10058. Their structures were elucidated by detailed analysis of spectroscopic data and comparison with related known compounds. Compounds 1 and 2 exhibited weak antibacterial and cytotoxic activities.
January 11, 2017: Natural Product Research
https://www.readbyqxmd.com/read/28075395/disability-weights-for-chronic-mercury-intoxication-resulting-from-gold-mining-activities-results-from-an-online-pairwise-comparisons-survey
#13
Nadine Steckling, Brecht Devleesschauwer, Julia Winkelnkemper, Florian Fischer, Bret Ericson, Alexander Krämer, Claudia Hornberg, Richard Fuller, Dietrich Plass, Stephan Bose-O'Reilly
In artisanal small-scale gold mining, mercury is used for gold-extraction, putting miners and nearby residents at risk of chronic metallic mercury vapor intoxication (CMMVI). Burden of disease (BoD) analyses allow the estimation of the public health relevance of CMMVI, but until now there have been no specific CMMVI disability weights (DWs). The objective is to derive DWs for moderate and severe CMMVI. Disease-specific and generic health state descriptions of 18 diseases were used in a pairwise comparison survey...
January 10, 2017: International Journal of Environmental Research and Public Health
https://www.readbyqxmd.com/read/28074545/development-and-testing-of-a-database-of-nih-research-funding-of-aapm-members-a-report-from-aapm-working-group-for-the-development-of-a-research-database-wgdrd
#14
Brendan Whelan, Eduardo Moros, Rebecca Fahrig, James Deye, Thomas Yi, Michael Woodward, Paul Keall, Jeff Siewerdsen
PURPOSE: To produce and maintain a database of National Institutes of Health (NIH) funding of American Association of Physicists in Medicine (AAPM) members, to perform a top level analysis of this data, and to make this data (hereafter referred to as the AAPM research database) available for the use of the AAPM and its members. METHODS: NIH funded research dating back to 1985 is available for public download through the NIH exporter website, and AAPM membership information dating back to 2002 was supplied by the AAPM...
January 11, 2017: Medical Physics
https://www.readbyqxmd.com/read/28074110/an-exploratory-study-on-the-impact-of-daily-activities-on-the-pleasure-and-physical-activity-of-older-adults
#15
Miriam Cabrita, Richel Lousberg, Monique Tabak, Hermie J Hermens, Miriam M R Vollenbroek-Hutten
BACKGROUND: Pleasure is one determinant of intrinsic motivation and yet a dimension often forgotten when promoting physical activity among the older population. In this study we investigate the relation between daily activities and physical activity, experience of pleasure, and the interaction between pleasure and physical activity in the daily lives of community-dwelling older adults. METHODS: Participants carried a hip-worn accelerometer during 30 consecutive days resulting in a total of 320 days of data collection...
2017: European Review of Aging and Physical Activity
https://www.readbyqxmd.com/read/28073737/using-real-time-social-media-technologies-to-monitor-levels-of-perceived-stress-and-emotional-state-in-college-students-a-web-based-questionnaire-study
#16
Sam Liu, Miaoqi Zhu, Dong Jin Yu, Alexander Rasin, Sean D Young
BACKGROUND: College can be stressful for many freshmen as they cope with a variety of stressors. Excess stress can negatively affect both psychological and physical health. Thus, there is a need to find innovative and cost-effective strategies to help identify students experiencing high levels of stress to receive appropriate treatment. Social media use has been rapidly growing, and recent studies have reported that data from these technologies can be used for public health surveillance...
January 10, 2017: JMIR Mental Health
https://www.readbyqxmd.com/read/28068916/inferring-condition-specific-targets-of-human-tf-tf-complexes-using-chip-seq-data
#17
Chia-Chun Yang, Min-Hsuan Chen, Sheng-Yi Lin, Erik H Andrews, Chao Cheng, Chun-Chi Liu, Jeremy J W Chen
BACKGROUND: Transcription factors (TFs) often interact with one another to form TF complexes that bind DNA and regulate gene expression. Many databases are created to describe known TF complexes identified by either mammalian two-hybrid experiments or data mining. Lately, a wealth of ChIP-seq data on human TFs under different experiment conditions are available, making it possible to investigate condition-specific (cell type and/or physiologic state) TF complexes and their target genes...
January 10, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28068461/a-new-prediction-model-for-evaluating-treatment-resistant-depression
#18
Alexander Kautzky, Pia Baldinger-Melich, Georg S Kranz, Thomas Vanicek, Daniel Souery, Stuart Montgomery, Julien Mendlewicz, Joseph Zohar, Alessandro Serretti, Rupert Lanzenberger, Siegfried Kasper
OBJECTIVE: Despite a broad arsenal of antidepressants, about a third of patients suffering from major depressive disorder (MDD) do not respond sufficiently to adequate treatment. Using the data pool of the Group for the Study of Resistant Depression and machine learning, we intended to draw new insights featuring 48 clinical, sociodemographic, and psychosocial predictors for treatment outcome. METHOD: Patients were enrolled starting from January 2000 and diagnosed according to DSM-IV...
January 3, 2017: Journal of Clinical Psychiatry
https://www.readbyqxmd.com/read/28068344/an-empirical-analysis-of-rough-set-categorical-clustering-techniques
#19
Jamal Uddin, Rozaida Ghazali, Mustafa Mat Deris
Clustering a set of objects into homogeneous groups is a fundamental operation in data mining. Recently, many attentions have been put on categorical data clustering, where data objects are made up of non-numerical attributes. For categorical data clustering the rough set based approaches such as Maximum Dependency Attribute (MDA) and Maximum Significance Attribute (MSA) has outperformed their predecessor approaches like Bi-Clustering (BC), Total Roughness (TR) and Min-Min Roughness(MMR). This paper presents the limitations and issues of MDA and MSA techniques on special type of data sets where both techniques fails to select or faces difficulty in selecting their best clustering attribute...
2017: PloS One
https://www.readbyqxmd.com/read/28065840/mace-prediction-of-acute-coronary-syndrome-via-boosted-resampling-classification-using-electronic-medical-records
#20
Zhengxing Huang, Tak-Ming Chan, Wei Dong
OBJECTIVES: Major adverse cardiac events (MACE) of acute coronary syndrome (ACS) often occur suddenly resulting in high mortality and morbidity. Recently, the rapid development of electronic medical records (EMR) provides the opportunity to utilize the potential of EMR to improve the performance of MACE prediction. In this study, we present a novel data-mining based approach specialized for MACE prediction from a large volume of EMR data. METHODS: The proposed approach presents a new classification algorithm by applying both over-sampling and under-sampling on minority-class and majority-class samples, respectively, and integrating the resampling strategy into a boosting framework so that it can effectively handle imbalance of MACE of ACS patients analogous to domain practice...
January 5, 2017: Journal of Biomedical Informatics
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