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https://www.readbyqxmd.com/read/28441410/creating-and-parameterizing-patient-specific-deep-brain-stimulation-pathway-activation-models-using-the-hyperdirect-pathway-as-an-example
#1
Kabilar Gunalan, Ashutosh Chaturvedi, Bryan Howell, Yuval Duchin, Scott F Lempka, Remi Patriat, Guillermo Sapiro, Noam Harel, Cameron C McIntyre
BACKGROUND: Deep brain stimulation (DBS) is an established clinical therapy and computational models have played an important role in advancing the technology. Patient-specific DBS models are now common tools in both academic and industrial research, as well as clinical software systems. However, the exact methodology for creating patient-specific DBS models can vary substantially and important technical details are often missing from published reports. OBJECTIVE: Provide a detailed description of the assembly workflow and parameterization of a patient-specific DBS pathway-activation model (PAM) and predict the response of the hyperdirect pathway to clinical stimulation...
2017: PloS One
https://www.readbyqxmd.com/read/28437135/d3gb-an-interactive-genome-browser-for-r-python-and-wordpress
#2
David Barrios, Carlos Prieto
Genome browsers are useful not only for showing final results but also for improving analysis protocols, testing data quality, and generating result drafts. Its integration in analysis pipelines allows the optimization of parameters, which leads to better results. New developments that facilitate the creation and utilization of genome browsers could contribute to improving analysis results and supporting the quick visualization of genomic data. D3 Genome Browser is an interactive genome browser that can be easily integrated in analysis protocols and shared on the Web...
February 16, 2017: Journal of Computational Biology: a Journal of Computational Molecular Cell Biology
https://www.readbyqxmd.com/read/28436548/an-open-source-framework-for-analyzing-n-electron-dynamics-i-multideterminantal-wave-functions
#3
Vincent Pohl, Gunter Hermann, Jean Christophe Tremblay
The aim of the present contribution is to provide a framework for analyzing and visualizing the correlated many-electron dynamics of molecular systems, where an explicitly time-dependent electronic wave packet is represented as a linear combination of N-electron wave functions. The central quantity of interest is the electronic flux density, which contains all information about the transient electronic density, the associated phase, and their temporal evolution. It is computed from the associated one-electron operator by reducing the multideterminantal, many-electron wave packet using the Slater-Condon rules...
April 24, 2017: Journal of Computational Chemistry
https://www.readbyqxmd.com/read/28433079/utilization-of-whole-exome-next-generation-sequencing-variant-read-frequency-for-detection-of-lesion-specific-somatic-loss-of-heterozygosity-in-a-neurofibromatosis-type-1-cohort-with-tibial-pseudarthrosis
#4
Rebecca L Margraf, Chad VanSant-Webb, David Sant, John Carey, Heather Hanson, Jacques D'Astous, Dave Viskochil, David A Stevenson, Rong Mao
A subset of neurofibromatosis type 1 patients develop tibial dysplasia, which can lead to pseudarthrosis. The tissue from the tibial pseudarthrosis region commonly has a somatic second hit in NF1: single-nucleotide variants, small deletions, or loss of heterozygosity (LOH). We used exome next-generation sequencing (NGS) variant frequency data (allelic imbalance analysis) to detect somatic LOH in pseudarthrosis tissue from three individuals with clinically and diagnostically confirmed neurofibromatosis type 1, and verified the results with microarray...
May 2017: Journal of Molecular Diagnostics: JMD
https://www.readbyqxmd.com/read/28431529/hirbin-high-resolution-identification-of-differentially-abundant-functions-in-metagenomes
#5
Tobias Österlund, Viktor Jonsson, Erik Kristiansson
BACKGROUND: Gene-centric analysis of metagenomics data provides information about the biochemical functions present in a microbiome under a certain condition. The ability to identify significant differences in functions between metagenomes is dependent on accurate classification and quantification of the sequence reads (binning). However, biological effects acting on specific functions may be overlooked if the classes are too general. METHODS: Here we introduce High-Resolution Binning (HirBin), a new method for gene-centric analysis of metagenomes...
April 21, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28430779/a-coevolution-analysis-for-identifying-protein-protein-interactions-by-fourier-transform
#6
Changchuan Yin, Stephen S-T Yau
Protein-protein interactions (PPIs) play key roles in life processes, such as signal transduction, transcription regulations, and immune response, etc. Identification of PPIs enables better understanding of the functional networks within a cell. Common experimental methods for identifying PPIs are time consuming and expensive. However, recent developments in computational approaches for inferring PPIs from protein sequences based on coevolution theory avoid these problems. In the coevolution theory model, interacted proteins may show coevolutionary mutations and have similar phylogenetic trees...
2017: PloS One
https://www.readbyqxmd.com/read/28424704/draco-stem-an-automatic-tool-to-generate-high-quality-3d-meshes-of-shoot-apical-meristem-tissue-at-cell-resolution
#7
Guillaume Cerutti, Olivier Ali, Christophe Godin
Context: The shoot apical meristem (SAM), origin of all aerial organs of the plant, is a restricted niche of stem cells whose growth is regulated by a complex network of genetic, hormonal and mechanical interactions. Studying the development of this area at cell level using 3D microscopy time-lapse imaging is a newly emerging key to understand the processes controlling plant morphogenesis. Computational models have been proposed to simulate those mechanisms, however their validation on real-life data is an essential step that requires an adequate representation of the growing tissue to be carried out...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28423778/developing-healthcare-data-analytics-apps-with-open-data-science-tools
#8
Bibo Hao, Wen Sun, Yiqin Yu, Guotong Xie
Recent advances in big data analytics provide more flexible, efficient, and open tools for researchers to gain insight from healthcare data. Whilst many tools require researchers to develop programs with programming languages like Python, R and so on, which is not a skill set grasped by many researchers in the healthcare data analytics area. To make data science more approachable, we explored existing tools and developed a practice that can help data scientists convert existing analytics pipelines to user-friendly analytics APPs with rich interactions and features of real-time analysis...
2017: Studies in Health Technology and Informatics
https://www.readbyqxmd.com/read/28420344/erratum-to-the-jbei-quantitative-metabolic-modeling-library-jqmm-a-python-library-for-modeling-microbial-metabolism
#9
Garrett W Birkel, Amit Ghosh, Vinay S Kumar, Daniel Weaver, David Ando, Tyler W H Backman, Adam P Arkin, Jay D Keasling, Héctor García Martín
No abstract text is available yet for this article.
April 18, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28416765/lolopicker-detecting-low-allelic-fraction-variants-from-low-quality-cancer-samples
#10
Jian Carrot-Zhang, Jacek Majewski
INTRODUCTION: Although several programs are designed to identify variants with low allelic-fraction, further improvement is needed, especially to push the detection limit of low allelic-faction variants in low-quality, "noisy" tumor samples. RESULTS: We developed LoLoPicker, an efficient tool dedicated to calling somatic variants from next-generation sequencing (NGS) data of tumor sample against the matched normal sample plus a user-defined control panel of additional normal samples...
March 12, 2017: Oncotarget
https://www.readbyqxmd.com/read/28415074/navicom-a-web-application-to-create-interactive-molecular-network-portraits-using-multi-level-omics-data
#11
Mathurin Dorel, Eric Viara, Emmanuel Barillot, Andrei Zinovyev, Inna Kuperstein
Human diseases such as cancer are routinely characterized by high-throughput molecular technologies, and multi-level omics data are accumulated in public databases at increasing rate. Retrieval and visualization of these data in the context of molecular network maps can provide insights into the pattern of regulation of molecular functions reflected by an omics profile. In order to make this task easy, we developed NaviCom, a Python package and web platform for visualization of multi-level omics data on top of biological network maps...
January 1, 2017: Database: the Journal of Biological Databases and Curation
https://www.readbyqxmd.com/read/28409116/prepare_taxa_charts-py-a-python-program-to-automate-generation-of-publication-ready-taxonomic-pie-chart-images-from-qiime
#12
Vijay Lakhujani, Chandan Badapanda
QIIME (Quantitative Insights Into Microbial Ecology) is one of the most popular open-source bioinformatics suite for performing metagenome, 16S rRNA amplicon and Internal Transcribed Spacer (ITS) data analysis. Although, it is very comprehensive and powerful tool, it lacks a method to provide publication ready taxonomic pie charts. The script plot_taxa_summary.py bundled with QIIME generate a html file and a folder containing taxonomic pie chart and legend as separate images. The images have randomly generated alphanumeric names...
June 2017: Genomics Data
https://www.readbyqxmd.com/read/28408859/measurement-of-the-formula-see-text-production-cross-section-using-events-in-the-formula-see-text-final-state-in-pp-collisions-at-formula-see-text
#13
V Khachatryan, A M Sirunyan, A Tumasyan, W Adam, E Asilar, T Bergauer, J Brandstetter, E Brondolin, M Dragicevic, J Erö, M Flechl, M Friedl, R Frühwirth, V M Ghete, C Hartl, N Hörmann, J Hrubec, M Jeitler, A König, I Krätschmer, D Liko, T Matsushita, I Mikulec, D Rabady, N Rad, B Rahbaran, H Rohringer, J Schieck, J Strauss, W Waltenberger, C-E Wulz, O Dvornikov, V Makarenko, V Zykunov, V Mossolov, N Shumeiko, J Suarez Gonzalez, S Alderweireldt, E A De Wolf, X Janssen, J Lauwers, M Van De Klundert, H Van Haevermaet, P Van Mechelen, N Van Remortel, A Van Spilbeeck, S Abu Zeid, F Blekman, J D'Hondt, N Daci, I De Bruyn, K Deroover, S Lowette, S Moortgat, L Moreels, A Olbrechts, Q Python, S Tavernier, W Van Doninck, P Van Mulders, I Van Parijs, H Brun, B Clerbaux, G De Lentdecker, H Delannoy, G Fasanella, L Favart, R Goldouzian, A Grebenyuk, G Karapostoli, T Lenzi, A Léonard, J Luetic, T Maerschalk, A Marinov, A Randle-Conde, T Seva, C Vander Velde, P Vanlaer, R Yonamine, F Zenoni, F Zhang, A Cimmino, T Cornelis, D Dobur, A Fagot, G Garcia, M Gul, I Khvastunov, D Poyraz, S Salva, R Schöfbeck, A Sharma, M Tytgat, W Van Driessche, E Yazgan, N Zaganidis, H Bakhshiansohi, C Beluffi, O Bondu, S Brochet, G Bruno, A Caudron, S De Visscher, C Delaere, M Delcourt, B Francois, A Giammanco, A Jafari, P Jez, M Komm, V Lemaitre, A Magitteri, A Mertens, M Musich, C Nuttens, K Piotrzkowski, L Quertenmont, M Selvaggi, M Vidal Marono, S Wertz, N Beliy, W L Aldá Júnior, F L Alves, G A Alves, L Brito, C Hensel, A Moraes, M E Pol, P Rebello Teles, E Belchior Batista Das Chagas, W Carvalho, J Chinellato, A Custódio, E M Da Costa, G G Da Silveira, D De Jesus Damiao, C De Oliveira Martins, S Fonseca De Souza, L M Huertas Guativa, H Malbouisson, D Matos Figueiredo, C Mora Herrera, L Mundim, H Nogima, W L Prado Da Silva, A Santoro, A Sznajder, E J Tonelli Manganote, A Vilela Pereira, S Ahuja, C A Bernardes, S Dogra, T R Fernandez Perez Tomei, E M Gregores, P G Mercadante, C S Moon, S F Novaes, Sandra S Padula, D Romero Abad, J C Ruiz Vargas, A Aleksandrov, R Hadjiiska, P Iaydjiev, M Rodozov, S Stoykova, G Sultanov, M Vutova, A Dimitrov, I Glushkov, L Litov, B Pavlov, P Petkov, W Fang, M Ahmad, J G Bian, G M Chen, H S Chen, M Chen, Y Chen, T Cheng, C H Jiang, D Leggat, Z Liu, F Romeo, S M Shaheen, A Spiezia, J Tao, C Wang, Z Wang, H Zhang, J Zhao, Y Ban, G Chen, Q Li, S Liu, Y Mao, S J Qian, D Wang, Z Xu, C Avila, A Cabrera, L F Chaparro Sierra, C Florez, J P Gomez, C F González Hernández, J D Ruiz Alvarez, J C Sanabria, N Godinovic, D Lelas, I Puljak, P M Ribeiro Cipriano, T Sculac, Z Antunovic, M Kovac, V Brigljevic, D Ferencek, K Kadija, S Micanovic, L Sudic, T Susa, A Attikis, G Mavromanolakis, J Mousa, C Nicolaou, F Ptochos, P A Razis, H Rykaczewski, D Tsiakkouri, M Finger, M Finger, E Carrera Jarrin, Y Assran, T Elkafrawy, A Mahrous, B Calpas, M Kadastik, M Murumaa, L Perrini, M Raidal, A Tiko, C Veelken, P Eerola, J Pekkanen, M Voutilainen, J Härkönen, T Järvinen, V Karimäki, R Kinnunen, T Lampén, K Lassila-Perini, S Lehti, T Lindén, P Luukka, J Tuominiemi, E Tuovinen, L Wendland, J Talvitie, T Tuuva, M Besancon, F Couderc, M Dejardin, D Denegri, B Fabbro, J L Faure, C Favaro, F Ferri, S Ganjour, S Ghosh, A Givernaud, P Gras, G Hamel de Monchenault, P Jarry, I Kucher, E Locci, M Machet, J Malcles, J Rander, A Rosowsky, M Titov, A Zghiche, A Abdulsalam, I Antropov, S Baffioni, F Beaudette, P Busson, L Cadamuro, E Chapon, C Charlot, O Davignon, R Granier de Cassagnac, M Jo, S Lisniak, P Miné, M Nguyen, C Ochando, G Ortona, P Paganini, P Pigard, S Regnard, R Salerno, Y Sirois, T Strebler, Y Yilmaz, A Zabi, J-L Agram, J Andrea, A Aubin, D Bloch, J-M Brom, M Buttignol, E C Chabert, N Chanon, C Collard, E Conte, X Coubez, J-C Fontaine, D Gelé, U Goerlach, A-C Le Bihan, K Skovpen, P Van Hove, S Gadrat, S Beauceron, C Bernet, G Boudoul, E Bouvier, C A Carrillo Montoya, R Chierici, D Contardo, B Courbon, P Depasse, H El Mamouni, J Fan, J Fay, S Gascon, M Gouzevitch, G Grenier, B Ille, F Lagarde, I B Laktineh, M Lethuillier, L Mirabito, A L Pequegnot, S Perries, A Popov, D Sabes, V Sordini, M Vander Donckt, P Verdier, S Viret, T Toriashvili, Z Tsamalaidze, C Autermann, S Beranek, L Feld, A Heister, M K Kiesel, K Klein, M Lipinski, A Ostapchuk, M Preuten, F Raupach, S Schael, C Schomakers, J Schulz, T Verlage, H Weber, V Zhukov, A Albert, M Brodski, E Dietz-Laursonn, D Duchardt, M Endres, M Erdmann, S Erdweg, T Esch, R Fischer, A Güth, M Hamer, T Hebbeker, C Heidemann, K Hoepfner, S Knutzen, M Merschmeyer, A Meyer, P Millet, S Mukherjee, M Olschewski, K Padeken, T Pook, M Radziej, H Reithler, M Rieger, F Scheuch, L Sonnenschein, D Teyssier, S Thüer, V Cherepanov, G Flügge, F Hoehle, B Kargoll, T Kress, A Künsken, J Lingemann, T Müller, A Nehrkorn, A Nowack, I M Nugent, C Pistone, O Pooth, A Stahl, M Aldaya Martin, T Arndt, C Asawatangtrakuldee, K Beernaert, O Behnke, U Behrens, A A Bin Anuar, K Borras, A Campbell, P Connor, C Contreras-Campana, F Costanza, C Diez Pardos, G Dolinska, G Eckerlin, D Eckstein, T Eichhorn, E Eren, E Gallo, J Garay Garcia, A Geiser, A Gizhko, J M Grados Luyando, P Gunnellini, A Harb, J Hauk, M Hempel, H Jung, A Kalogeropoulos, O Karacheban, M Kasemann, J Keaveney, C Kleinwort, I Korol, D Krücker, W Lange, A Lelek, J Leonard, K Lipka, A Lobanov, W Lohmann, R Mankel, I-A Melzer-Pellmann, A B Meyer, G Mittag, J Mnich, A Mussgiller, E Ntomari, D Pitzl, R Placakyte, A Raspereza, B Roland, M Ö Sahin, P Saxena, T Schoerner-Sadenius, C Seitz, S Spannagel, N Stefaniuk, G P Van Onsem, R Walsh, C Wissing, V Blobel, M Centis Vignali, A R Draeger, T Dreyer, E Garutti, D Gonzalez, J Haller, M Hoffmann, A Junkes, R Klanner, R Kogler, N Kovalchuk, T Lapsien, T Lenz, I Marchesini, D Marconi, M Meyer, M Niedziela, D Nowatschin, F Pantaleo, T Peiffer, A Perieanu, J Poehlsen, C Sander, C Scharf, P Schleper, A Schmidt, S Schumann, J Schwandt, H Stadie, G Steinbrück, F M Stober, M Stöver, H Tholen, D Troendle, E Usai, L Vanelderen, A Vanhoefer, B Vormwald, M Akbiyik, C Barth, S Baur, C Baus, J Berger, E Butz, R Caspart, T Chwalek, F Colombo, W De Boer, A Dierlamm, S Fink, B Freund, R Friese, M Giffels, A Gilbert, P Goldenzweig, D Haitz, F Hartmann, S M Heindl, U Husemann, I Katkov, S Kudella, P Lobelle Pardo, H Mildner, M U Mozer, Th Müller, M Plagge, G Quast, K Rabbertz, S Röcker, F Roscher, M Schröder, I Shvetsov, G Sieber, H J Simonis, R Ulrich, J Wagner-Kuhr, S Wayand, M Weber, T Weiler, S Williamson, C Wöhrmann, R Wolf, G Anagnostou, G Daskalakis, T Geralis, V A Giakoumopoulou, A Kyriakis, D Loukas, I Topsis-Giotis, S Kesisoglou, A Panagiotou, N Saoulidou, E Tziaferi, I Evangelou, G Flouris, C Foudas, P Kokkas, N Loukas, N Manthos, I Papadopoulos, E Paradas, N Filipovic, G Bencze, C Hajdu, P Hidas, D Horvath, F Sikler, V Veszpremi, G Vesztergombi, A J Zsigmond, N Beni, S Czellar, J Karancsi, A Makovec, J Molnar, Z Szillasi, M Bartók, P Raics, Z L Trocsanyi, B Ujvari, S Bahinipati, S Choudhury, P Mal, K Mandal, A Nayak, D K Sahoo, N Sahoo, S K Swain, S Bansal, S B Beri, V Bhatnagar, R Chawla, U Bhawandeep, A K Kalsi, A Kaur, M Kaur, R Kumar, P Kumari, A Mehta, M Mittal, J B Singh, G Walia, Ashok Kumar, A Bhardwaj, B C Choudhary, R B Garg, S Keshri, S Malhotra, M Naimuddin, N Nishu, K Ranjan, R Sharma, V Sharma, R Bhattacharya, S Bhattacharya, K Chatterjee, S Dey, S Dutt, S Dutta, S Ghosh, N Majumdar, A Modak, K Mondal, S Mukhopadhyay, S Nandan, A Purohit, A Roy, D Roy, S Roy Chowdhury, S Sarkar, M Sharan, S Thakur, P K Behera, R Chudasama, D Dutta, V Jha, V Kumar, A K Mohanty, P K Netrakanti, L M Pant, P Shukla, A Topkar, T Aziz, S Dugad, G Kole, B Mahakud, S Mitra, G B Mohanty, B Parida, N Sur, B Sutar, S Banerjee, S Bhowmik, R K Dewanjee, S Ganguly, M Guchait, Sa Jain, S Kumar, M Maity, G Majumder, K Mazumdar, T Sarkar, N Wickramage, S Chauhan, S Dube, V Hegde, A Kapoor, K Kothekar, A Rane, S Sharma, H Behnamian, S Chenarani, E Eskandari Tadavani, S M Etesami, A Fahim, M Khakzad, M Mohammadi Najafabadi, M Naseri, S Paktinat Mehdiabadi, F Rezaei Hosseinabadi, B Safarzadeh, M Zeinali, M Felcini, M Grunewald, M Abbrescia, C Calabria, C Caputo, A Colaleo, D Creanza, L Cristella, N De Filippis, M De Palma, L Fiore, G Iaselli, G Maggi, M Maggi, G Miniello, S My, S Nuzzo, A Pompili, G Pugliese, R Radogna, A Ranieri, G Selvaggi, L Silvestris, R Venditti, P Verwilligen, G Abbiendi, C Battilana, D Bonacorsi, S Braibant-Giacomelli, L Brigliadori, R Campanini, P Capiluppi, A Castro, F R Cavallo, S S Chhibra, G Codispoti, M Cuffiani, G M Dallavalle, F Fabbri, A Fanfani, D Fasanella, P Giacomelli, C Grandi, L Guiducci, S Marcellini, G Masetti, A Montanari, F L Navarria, A Perrotta, A M Rossi, T Rovelli, G P Siroli, N Tosi, S Albergo, M Chiorboli, S Costa, A Di Mattia, F Giordano, R Potenza, A Tricomi, C Tuve, G Barbagli, V Ciulli, C Civinini, R D'Alessandro, E Focardi, V Gori, P Lenzi, M Meschini, S Paoletti, G Sguazzoni, L Viliani, L Benussi, S Bianco, F Fabbri, D Piccolo, F Primavera, V Calvelli, F Ferro, M Lo Vetere, M R Monge, E Robutti, S Tosi, L Brianza, M E Dinardo, S Fiorendi, S Gennai, A Ghezzi, P Govoni, M Malberti, S Malvezzi, R A Manzoni, D Menasce, L Moroni, M Paganoni, D Pedrini, S Pigazzini, S Ragazzi, T Tabarelli de Fatis, S Buontempo, N Cavallo, G De Nardo, S Di Guida, M Esposito, F Fabozzi, F Fienga, A O M Iorio, G Lanza, L Lista, S Meola, P Paolucci, C Sciacca, F Thyssen, P Azzi, N Bacchetta, L Benato, D Bisello, A Boletti, R Carlin, A Carvalho Antunes De Oliveira, P Checchia, M Dall'Osso, P De Castro Manzano, T Dorigo, U Dosselli, F Gasparini, U Gasparini, A Gozzelino, S Lacaprara, M Margoni, A T Meneguzzo, J Pazzini, N Pozzobon, P Ronchese, F Simonetto, E Torassa, M Zanetti, P Zotto, G Zumerle, A Braghieri, A Magnani, P Montagna, S P Ratti, V Re, C Riccardi, P Salvini, I Vai, P Vitulo, L Alunni Solestizi, G M Bilei, D Ciangottini, L Fanò, P Lariccia, R Leonardi, G Mantovani, M Menichelli, A Saha, A Santocchia, K Androsov, P Azzurri, G Bagliesi, J Bernardini, T Boccali, R Castaldi, M A Ciocci, R Dell'Orso, S Donato, G Fedi, A Giassi, M T Grippo, F Ligabue, T Lomtadze, L Martini, A Messineo, F Palla, A Rizzi, A Savoy-Navarro, P Spagnolo, R Tenchini, G Tonelli, A Venturi, P G Verdini, L Barone, F Cavallari, M Cipriani, D Del Re, M Diemoz, S Gelli, E Longo, F Margaroli, B Marzocchi, P Meridiani, G Organtini, R Paramatti, F Preiato, S Rahatlou, C Rovelli, F Santanastasio, N Amapane, R Arcidiacono, S Argiro, M Arneodo, N Bartosik, R Bellan, C Biino, N Cartiglia, F Cenna, M Costa, R Covarelli, A Degano, N Demaria, L Finco, B Kiani, C Mariotti, S Maselli, E Migliore, V Monaco, E Monteil, M M Obertino, L Pacher, N Pastrone, M Pelliccioni, G L Pinna Angioni, F Ravera, A Romero, M Ruspa, R Sacchi, K Shchelina, V Sola, A Solano, A Staiano, P Traczyk, S Belforte, M Casarsa, F Cossutti, G Della Ricca, A Zanetti, D H Kim, G N Kim, M S Kim, S Lee, S W Lee, Y D Oh, S Sekmen, D C Son, Y C Yang, A Lee, H Kim, J A Brochero Cifuentes, T J Kim, S Cho, S Choi, Y Go, D Gyun, S Ha, B Hong, Y Jo, Y Kim, B Lee, K Lee, K S Lee, S Lee, J Lim, S K Park, Y Roh, J Almond, J Kim, H Lee, S B Oh, B C Radburn-Smith, S H Seo, U K Yang, H D Yoo, G B Yu, M Choi, H Kim, J H Kim, J S H Lee, I C Park, G Ryu, M S Ryu, Y Choi, J Goh, C Hwang, J Lee, I Yu, V Dudenas, A Juodagalvis, J Vaitkus, I Ahmed, Z A Ibrahim, J R Komaragiri, M A B Md Ali, F Mohamad Idris, W A T Wan Abdullah, M N Yusli, Z Zolkapli, H Castilla-Valdez, E De La Cruz-Burelo, I Heredia-De La Cruz, A Hernandez-Almada, R Lopez-Fernandez, R Magaña Villalba, J Mejia Guisao, A Sanchez-Hernandez, S Carrillo Moreno, C Oropeza Barrera, F Vazquez Valencia, S Carpinteyro, I Pedraza, H A Salazar Ibarguen, C Uribe Estrada, A Morelos Pineda, D Krofcheck, P H Butler, A Ahmad, M Ahmad, Q Hassan, H R Hoorani, W A Khan, A Saddique, M A Shah, M Shoaib, M Waqas, H Bialkowska, M Bluj, B Boimska, T Frueboes, M Górski, M Kazana, K Nawrocki, K Romanowska-Rybinska, M Szleper, P Zalewski, K Bunkowski, A Byszuk, K Doroba, A Kalinowski, M Konecki, J Krolikowski, M Misiura, M Olszewski, M Walczak, P Bargassa, C Beirão Da Cruz E Silva, A Di Francesco, P Faccioli, P G Ferreira Parracho, M Gallinaro, J Hollar, N Leonardo, L Lloret Iglesias, M V Nemallapudi, J Rodrigues Antunes, J Seixas, O Toldaiev, D Vadruccio, J Varela, P Vischia, V Alexakhin, M Gavrilenko, I Golutvin, A Kamenev, V Karjavin, V Korenkov, A Lanev, A Malakhov, V Matveev, V V Mitsyn, V Palichik, V Perelygin, S Shmatov, S Shulha, N Skatchkov, V Smirnov, E Tikhonenko, A Zarubin, L Chtchipounov, V Golovtsov, Y Ivanov, V Kim, E Kuznetsova, V Murzin, V Oreshkin, V Sulimov, A Vorobyev, Yu Andreev, A Dermenev, S Gninenko, N Golubev, A Karneyeu, M Kirsanov, N Krasnikov, A Pashenkov, D Tlisov, A Toropin, V Epshteyn, V Gavrilov, N Lychkovskaya, V Popov, I Pozdnyakov, G Safronov, A Spiridonov, M Toms, E Vlasov, A Zhokin, A Bylinkin, M Chadeeva, O Markin, E Popova, V Andreev, M Azarkin, I Dremin, M Kirakosyan, A Leonidov, S V Rusakov, A Terkulov, A Baskakov, A Belyaev, E Boos, V Bunichev, M Dubinin, L Dudko, A Ershov, V Klyukhin, N Korneeva, I Lokhtin, I Miagkov, S Obraztsov, M Perfilov, S Petrushanko, V Savrin, V Blinov, Y Skovpen, I Azhgirey, I Bayshev, S Bitioukov, D Elumakhov, V Kachanov, A Kalinin, D Konstantinov, V Krychkine, V Petrov, R Ryutin, A Sobol, S Troshin, N Tyurin, A Uzunian, A Volkov, P Adzic, P Cirkovic, D Devetak, M Dordevic, J Milosevic, V Rekovic, J Alcaraz Maestre, M Barrio Luna, E Calvo, M Cerrada, M Chamizo Llatas, N Colino, B De La Cruz, A Delgado Peris, A Escalante Del Valle, C Fernandez Bedoya, J P Fernández Ramos, J Flix, M C Fouz, P Garcia-Abia, O Gonzalez Lopez, S Goy Lopez, J M Hernandez, M I Josa, E Navarro De Martino, A Pérez-Calero Yzquierdo, J Puerta Pelayo, A Quintario Olmeda, I Redondo, L Romero, M S Soares, J F de Trocóniz, M Missiroli, D Moran, J Cuevas, J Fernandez Menendez, I Gonzalez Caballero, J R González Fernández, E Palencia Cortezon, S Sanchez Cruz, I Suárez Andrés, J M Vizan Garcia, I J Cabrillo, A Calderon, J R Castiñeiras De Saa, E Curras, M Fernandez, J Garcia-Ferrero, G Gomez, A Lopez Virto, J Marco, C Martinez Rivero, F Matorras, J Piedra Gomez, T Rodrigo, A Ruiz-Jimeno, L Scodellaro, N Trevisani, I Vila, R Vilar Cortabitarte, D Abbaneo, E Auffray, G Auzinger, M Bachtis, P Baillon, A H Ball, D Barney, P Bloch, A Bocci, A Bonato, C Botta, T Camporesi, R Castello, M Cepeda, G Cerminara, M D'Alfonso, D d'Enterria, A Dabrowski, V Daponte, A David, M De Gruttola, A De Roeck, E Di Marco, M Dobson, B Dorney, T du Pree, D Duggan, M Dünser, N Dupont, A Elliott-Peisert, S Fartoukh, G Franzoni, J Fulcher, W Funk, D Gigi, K Gill, M Girone, F Glege, D Gulhan, S Gundacker, M Guthoff, J Hammer, P Harris, J Hegeman, V Innocente, P Janot, J Kieseler, H Kirschenmann, V Knünz, A Kornmayer, M J Kortelainen, K Kousouris, M Krammer, C Lange, P Lecoq, C Lourenço, M T Lucchini, L Malgeri, M Mannelli, A Martelli, 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Theofilatos, R Wallny, T K Aarrestad, C Amsler, L Caminada, M F Canelli, A De Cosa, C Galloni, A Hinzmann, T Hreus, B Kilminster, J Ngadiuba, D Pinna, G Rauco, P Robmann, D Salerno, Y Yang, A Zucchetta, V Candelise, T H Doan, Sh Jain, R Khurana, M Konyushikhin, C M Kuo, W Lin, Y J Lu, A Pozdnyakov, S S Yu, Arun Kumar, P Chang, Y H Chang, Y W Chang, Y Chao, K F Chen, P H Chen, C Dietz, F Fiori, W-S Hou, Y Hsiung, Y F Liu, R-S Lu, M Miñano Moya, E Paganis, A Psallidas, J F Tsai, Y M Tzeng, B Asavapibhop, G Singh, N Srimanobhas, N Suwonjandee, A Adiguzel, M N Bakirci, S Cerci, S Damarseckin, Z S Demiroglu, C Dozen, I Dumanoglu, S Girgis, G Gokbulut, Y Guler, I Hos, E E Kangal, O Kara, A Kayis Topaksu, U Kiminsu, M Oglakci, G Onengut, K Ozdemir, B Tali, S Turkcapar, I S Zorbakir, C Zorbilmez, B Bilin, S Bilmis, B Isildak, G Karapinar, M Yalvac, M Zeyrek, E Gülmez, M Kaya, O Kaya, E A Yetkin, T Yetkin, A Cakir, K Cankocak, S Sen, B Grynyov, L Levchuk, P Sorokin, R Aggleton, F Ball, L Beck, J J Brooke, D Burns, E Clement, D Cussans, H Flacher, J Goldstein, M Grimes, G P Heath, H F Heath, J Jacob, L Kreczko, C Lucas, D M Newbold, S Paramesvaran, A Poll, T Sakuma, S Seif El Nasr-Storey, D Smith, V J Smith, K W Bell, A Belyaev, C Brew, R M Brown, L Calligaris, D Cieri, D J A Cockerill, J A Coughlan, K Harder, S Harper, E Olaiya, D Petyt, C H Shepherd-Themistocleous, A Thea, I R Tomalin, T Williams, M Baber, R Bainbridge, O Buchmuller, A Bundock, D Burton, S Casasso, M Citron, D Colling, L Corpe, P Dauncey, G Davies, A De Wit, M Della Negra, R Di Maria, P Dunne, A Elwood, D Futyan, Y Haddad, G Hall, G Iles, T James, R Lane, C Laner, R Lucas, L Lyons, A-M Magnan, S Malik, L Mastrolorenzo, J Nash, A Nikitenko, J Pela, B Penning, M Pesaresi, D M Raymond, A Richards, A Rose, C Seez, S Summers, A Tapper, K Uchida, M Vazquez Acosta, T Virdee, J Wright, S C Zenz, J E Cole, P R Hobson, A Khan, P Kyberd, D Leslie, I D Reid, P Symonds, L Teodorescu, M Turner, A Borzou, K Call, J Dittmann, K Hatakeyama, H Liu, N Pastika, O Charaf, S I Cooper, C Henderson, P Rumerio, C West, D Arcaro, A Avetisyan, T Bose, D Gastler, D Rankin, C Richardson, J Rohlf, L Sulak, D Zou, G Benelli, E Berry, D Cutts, A Garabedian, J Hakala, U Heintz, J M Hogan, O Jesus, K H M Kwok, E Laird, G Landsberg, Z Mao, M Narain, S Piperov, S Sagir, E Spencer, R Syarif, R Breedon, G Breto, D Burns, M Calderon De La Barca Sanchez, S Chauhan, M Chertok, J Conway, R Conway, P T Cox, R Erbacher, C Flores, G Funk, M Gardner, W Ko, R Lander, C Mclean, M Mulhearn, D Pellett, J Pilot, S Shalhout, J Smith, M Squires, D Stolp, M Tripathi, S Wilbur, R Yohay, C Bravo, R Cousins, P Everaerts, A Florent, J Hauser, M Ignatenko, N Mccoll, D Saltzberg, C Schnaible, E Takasugi, V Valuev, M Weber, K Burt, R Clare, J Ellison, J W Gary, S M A Ghiasi Shirazi, G Hanson, J Heilman, P Jandir, E Kennedy, F Lacroix, O R Long, M Olmedo Negrete, M I Paneva, A Shrinivas, W Si, H Wei, S Wimpenny, B R Yates, J G Branson, G B Cerati, S Cittolin, M Derdzinski, R Gerosa, A Holzner, D Klein, V Krutelyov, J Letts, I Macneill, D Olivito, S Padhi, M Pieri, M Sani, V Sharma, S Simon, M Tadel, A Vartak, S Wasserbaech, C Welke, J Wood, F Würthwein, A Yagil, G Zevi Della Porta, N Amin, R Bhandari, J Bradmiller-Feld, C Campagnari, A Dishaw, V Dutta, K Flowers, M Franco Sevilla, P Geffert, C George, F Golf, L Gouskos, J Gran, R Heller, J Incandela, S D Mullin, A Ovcharova, J Richman, D Stuart, I Suarez, J Yoo, D Anderson, A Apresyan, J Bendavid, A Bornheim, J Bunn, Y Chen, J Duarte, J M Lawhorn, A Mott, H B Newman, C Pena, M Spiropulu, J R Vlimant, S Xie, R Y Zhu, M B Andrews, V Azzolini, T Ferguson, M Paulini, J Russ, M Sun, H Vogel, I Vorobiev, M Weinberg, J P Cumalat, W T Ford, F Jensen, A Johnson, M Krohn, T Mulholland, K Stenson, S R Wagner, J Alexander, J Chaves, J Chu, S Dittmer, K Mcdermott, N Mirman, G Nicolas Kaufman, J R Patterson, A Rinkevicius, A Ryd, L Skinnari, L Soffi, S M Tan, Z Tao, J Thom, J Tucker, P Wittich, M Zientek, D Winn, S Abdullin, M Albrow, G Apollinari, S Banerjee, L A T Bauerdick, A Beretvas, J Berryhill, P C Bhat, G Bolla, K Burkett, J N Butler, H W K Cheung, F Chlebana, S Cihangir, M Cremonesi, V D Elvira, I Fisk, J Freeman, E Gottschalk, L Gray, D Green, S Grünendahl, O Gutsche, D Hare, R M Harris, S Hasegawa, J Hirschauer, Z Hu, B Jayatilaka, S Jindariani, M Johnson, U Joshi, B Klima, B Kreis, S Lammel, J Linacre, D Lincoln, R Lipton, M Liu, T Liu, R Lopes De Sá, J Lykken, K Maeshima, N Magini, J M Marraffino, S Maruyama, D Mason, P McBride, P Merkel, S Mrenna, S Nahn, C Newman-Holmes, V O'Dell, K Pedro, O Prokofyev, G Rakness, L Ristori, E Sexton-Kennedy, A Soha, W J Spalding, L Spiegel, S Stoynev, J Strait, N Strobbe, L Taylor, S Tkaczyk, N V Tran, L Uplegger, E W Vaandering, C Vernieri, M Verzocchi, R Vidal, M Wang, H A Weber, A Whitbeck, D Acosta, P Avery, P Bortignon, D Bourilkov, A Brinkerhoff, A Carnes, M Carver, D Curry, S Das, R D Field, I K Furic, J Konigsberg, A Korytov, J F Low, P Ma, K Matchev, H Mei, G Mitselmakher, D Rank, L Shchutska, D Sperka, L Thomas, J Wang, S Wang, J Yelton, S Linn, P Markowitz, G Martinez, J L Rodriguez, A Ackert, J R Adams, T Adams, A Askew, S Bein, B Diamond, S Hagopian, V Hagopian, K F Johnson, A Khatiwada, H Prosper, A Santra, M M Baarmand, V Bhopatkar, S Colafranceschi, M Hohlmann, D Noonan, T Roy, F Yumiceva, M R Adams, L Apanasevich, D Berry, R R Betts, I Bucinskaite, R Cavanaugh, O Evdokimov, L Gauthier, C E Gerber, D J Hofman, K Jung, P Kurt, C O'Brien, I D Sandoval Gonzalez, P Turner, N Varelas, H Wang, Z Wu, M Zakaria, J Zhang, B Bilki, W Clarida, K Dilsiz, S Durgut, R P Gandrajula, M Haytmyradov, V Khristenko, J-P Merlo, H Mermerkaya, A Mestvirishvili, A Moeller, J Nachtman, H Ogul, Y Onel, F Ozok, A Penzo, C Snyder, E Tiras, J Wetzel, K Yi, I Anderson, B Blumenfeld, A Cocoros, N Eminizer, D Fehling, L Feng, A V Gritsan, P Maksimovic, C Martin, M Osherson, J Roskes, U Sarica, M Swartz, M Xiao, Y Xin, C You, A Al-Bataineh, P Baringer, A Bean, S Boren, J Bowen, C Bruner, J Castle, L Forthomme, R P Kenny, A Kropivnitskaya, D Majumder, W Mcbrayer, M Murray, S Sanders, R Stringer, J D Tapia Takaki, Q Wang, A Ivanov, K Kaadze, S Khalil, Y Maravin, A Mohammadi, L K Saini, N Skhirtladze, S Toda, F Rebassoo, D Wright, C Anelli, A Baden, O Baron, A Belloni, B Calvert, S C Eno, C Ferraioli, J A Gomez, N J Hadley, S Jabeen, R G Kellogg, T Kolberg, J Kunkle, Y Lu, A C Mignerey, F Ricci-Tam, Y H Shin, A Skuja, M B Tonjes, S C Tonwar, D Abercrombie, B Allen, A Apyan, R Barbieri, A Baty, R Bi, K Bierwagen, S Brandt, W Busza, I A Cali, Z Demiragli, L Di Matteo, G Gomez Ceballos, M Goncharov, D Hsu, Y Iiyama, G M Innocenti, M Klute, D Kovalskyi, K Krajczar, Y S Lai, Y-J Lee, A Levin, P D Luckey, B Maier, A C Marini, C Mcginn, C Mironov, S Narayanan, X Niu, C Paus, C Roland, G Roland, J Salfeld-Nebgen, G S F Stephans, K Sumorok, K Tatar, M Varma, D Velicanu, J Veverka, J Wang, T W Wang, B Wyslouch, M Yang, V Zhukova, A C Benvenuti, R M Chatterjee, A Evans, A Finkel, A Gude, P Hansen, S Kalafut, S C Kao, Y Kubota, Z Lesko, J Mans, S Nourbakhsh, N Ruckstuhl, R Rusack, N Tambe, J Turkewitz, J G Acosta, S Oliveros, E Avdeeva, R Bartek, K Bloom, D R Claes, A Dominguez, C Fangmeier, R Gonzalez Suarez, R Kamalieddin, I Kravchenko, A Malta Rodrigues, F Meier, J Monroy, J E Siado, G R Snow, B Stieger, M Alyari, J Dolen, J George, A Godshalk, C Harrington, I Iashvili, J Kaisen, A Kharchilava, A Kumar, A Parker, S Rappoccio, B Roozbahani, G Alverson, E Barberis, A Hortiangtham, A Massironi, D M Morse, D Nash, T Orimoto, R Teixeira De Lima, D Trocino, R-J Wang, D Wood, S Bhattacharya, K A Hahn, A Kubik, A Kumar, N Mucia, N Odell, B Pollack, M H Schmitt, K Sung, M Trovato, M Velasco, N Dev, M Hildreth, K Hurtado Anampa, C Jessop, D J Karmgard, N Kellams, K Lannon, N Marinelli, F Meng, C Mueller, Y Musienko, M Planer, A Reinsvold, R Ruchti, G Smith, S Taroni, M Wayne, M Wolf, A Woodard, J Alimena, L Antonelli, J Brinson, B Bylsma, L S Durkin, S Flowers, B Francis, A Hart, C Hill, R Hughes, W Ji, B Liu, W Luo, D Puigh, B L Winer, H W Wulsin, S Cooperstein, O Driga, P Elmer, J Hardenbrook, P Hebda, D Lange, J Luo, D Marlow, J Mc Donald, T Medvedeva, K Mei, M Mooney, J Olsen, C Palmer, P Piroué, D Stickland, C Tully, A Zuranski, S Malik, A Barker, V E Barnes, S Folgueras, L Gutay, M K Jha, M Jones, A W Jung, D H Miller, N Neumeister, J F Schulte, X Shi, J Sun, A Svyatkovskiy, F Wang, W Xie, L Xu, N Parashar, J Stupak, A Adair, B Akgun, Z Chen, K M Ecklund, F J M Geurts, M Guilbaud, W Li, B Michlin, M Northup, B P Padley, R Redjimi, J Roberts, J Rorie, Z Tu, J Zabel, B Betchart, A Bodek, P de Barbaro, R Demina, Y T Duh, T Ferbel, M Galanti, A Garcia-Bellido, J Han, O Hindrichs, A Khukhunaishvili, K H Lo, P Tan, M Verzetti, A Agapitos, J P Chou, E Contreras-Campana, Y Gershtein, T A Gómez Espinosa, E Halkiadakis, M Heindl, D Hidas, E Hughes, S Kaplan, R Kunnawalkam Elayavalli, S Kyriacou, A Lath, K Nash, H Saka, S Salur, S Schnetzer, D Sheffield, S Somalwar, R Stone, S Thomas, P Thomassen, M Walker, A G Delannoy, M Foerster, J Heideman, G Riley, K Rose, S Spanier, K Thapa, O Bouhali, A Celik, M Dalchenko, M De Mattia, A Delgado, S Dildick, R Eusebi, J Gilmore, T Huang, E Juska, T Kamon, R Mueller, Y Pakhotin, R Patel, A Perloff, L Perniè, D Rathjens, A Rose, A Safonov, A Tatarinov, K A Ulmer, N Akchurin, C Cowden, J Damgov, F De Guio, C Dragoiu, P R Dudero, J Faulkner, E Gurpinar, S Kunori, K Lamichhane, S W Lee, T Libeiro, T Peltola, S Undleeb, I Volobouev, Z Wang, S Greene, A Gurrola, R Janjam, W Johns, C Maguire, A Melo, H Ni, P Sheldon, S Tuo, J Velkovska, Q Xu, M W Arenton, P Barria, B Cox, J Goodell, R Hirosky, A Ledovskoy, H Li, C Neu, T Sinthuprasith, X Sun, Y Wang, E Wolfe, F Xia, C Clarke, R Harr, P E Karchin, J Sturdy, D A Belknap, C Caillol, S Dasu, L Dodd, S Duric, B Gomber, M Grothe, M Herndon, A Hervé, P Klabbers, A Lanaro, A Levine, K Long, R Loveless, I Ojalvo, T Perry, G A Pierro, G Polese, T Ruggles, A Savin, N Smith, W H Smith, D Taylor, N Woods
The cross section of top quark-antiquark pair production in proton-proton collisions at [Formula: see text] is measured by the CMS experiment at the LHC, using data corresponding to an integrated luminosity of 2.2[Formula: see text]. The measurement is performed by analyzing events in which the final state includes one electron, one muon, and two or more jets, at least one of which is identified as originating from hadronization of a b quark. The measured cross section is [Formula: see text], in agreement with the expectation from the standard model...
2017: European Physical Journal. C, Particles and Fields
https://www.readbyqxmd.com/read/28405621/lipidfinder-a-computational-workflow-for-discovery-of-lipids-identifies-eicosanoid-phosphoinositides-in-platelets
#14
Anne O'Connor, Christopher J Brasher, David A Slatter, Sven W Meckelmann, Jade I Hawksworth, Stuart M Allen, Valerie B O'Donnell
Accurate and high-quality curation of lipidomic datasets generated from plasma, cells, or tissues is becoming essential for cell biology investigations and biomarker discovery for personalized medicine. However, a major challenge lies in removing artifacts otherwise mistakenly interpreted as real lipids from large mass spectrometry files (>60 K features), while retaining genuine ions in the dataset. This requires powerful informatics tools; however, available workflows have not been tailored specifically for lipidomics, particularly discovery research...
April 6, 2017: JCI Insight
https://www.readbyqxmd.com/read/28403240/snovault-and-encoded-a-novel-object-based-storage-system-and-applications-to-encode-metadata
#15
Benjamin C Hitz, Laurence D Rowe, Nikhil R Podduturi, David I Glick, Ulugbek K Baymuradov, Venkat S Malladi, Esther T Chan, Jean M Davidson, Idan Gabdank, Aditi K Narayana, Kathrina C Onate, Jason Hilton, Marcus C Ho, Brian T Lee, Stuart R Miyasato, Timothy R Dreszer, Cricket A Sloan, J Seth Strattan, Forrest Y Tanaka, Eurie L Hong, J Michael Cherry
The Encyclopedia of DNA elements (ENCODE) project is an ongoing collaborative effort to create a comprehensive catalog of functional elements initiated shortly after the completion of the Human Genome Project. The current database exceeds 6500 experiments across more than 450 cell lines and tissues using a wide array of experimental techniques to study the chromatin structure, regulatory and transcriptional landscape of the H. sapiens and M. musculus genomes. All ENCODE experimental data, metadata, and associated computational analyses are submitted to the ENCODE Data Coordination Center (DCC) for validation, tracking, storage, unified processing, and distribution to community resources and the scientific community...
2017: PloS One
https://www.readbyqxmd.com/read/28402873/saxs-oriented-ensemble-refinement-of-flexible-biomolecules
#16
Peng Cheng, Junhui Peng, Zhiyong Zhang
The conformational flexibility of a biomolecule may play a crucial role in its biological function. Small-angle x-ray scattering (SAXS) is a very popular technique for characterizing biomolecule flexibility. It can be used to determine a possible structural ensemble of the biomolecule in solution with the aid of a computer simulation. In this article, we present a tool written in Python, which iteratively runs multiple independent enhanced sampling simulations such as amplified collective motions and accelerated molecular dynamics, and an ensemble optimization method to drive the biomolecule toward an ensemble that fits the SAXS data well...
April 11, 2017: Biophysical Journal
https://www.readbyqxmd.com/read/28402395/mzml2isa-nmrml2isa-generating-enriched-isa-tab-metadata-files-from-metabolomics-xml-data
#17
Martin Larralde, Thomas N Lawson, Ralf J M Weber, Pablo Moreno, Kenneth Haug, Philippe Rocca-Serra, Mark R Viant, Christoph Steinbeck, Reza M Salek
Summary: Submission to the MetaboLights repository for metabolomics data currently places the burden of reporting instrument and acquisition parameters in ISA-Tab format on users, who have to do it manually, a process that is time consuming and prone to user input error. Since the large majority of these parameters are embedded in instrument raw data files, an opportunity exists to capture this metadata more accurately. Here we report a set of Python packages that can automatically generate ISA-Tab metadata file stubs from raw XML metabolomics data files...
April 7, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28398502/pygold-a-python-based-api-for-docking-based-virtual-screening-workflow-generation
#18
Hitesh Patel, Tobias Brinkjost, Oliver Koch
Motivation: Molecular docking is one of the successful approaches in structure based discovery and development of bioactive molecules in chemical biology and medicinal chemistry. Due to the huge amount of computational time that is still required, docking is often the last step in a virtual screening approach. Such screenings are set as workflows spanned over many steps, each aiming at different filtering task. These workflows can be automatized in large parts using python based toolkits except for docking using the docking software GOLD...
April 7, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28397515/prevalence-and-renal-pathology-of-pathogenic-i-leptospira-i-spp-in-wildlife-in-abeokuta-ogun-state-nigeria
#19
Olusola L Ajayi, Richard E Antia, Olufemi E Ojo, Olajoju J Awoyomi, Latifa A Oyinlola, Oluwabusola G Ojebiyi
There is paucity of information on the prevalence of leptospirosis in wildlife in Nigeria. This study investigated the prevalence and renal pathology of leptospirosis in wild animals in Southwest Nigeria. One hundred and five kidney samples were examined from 10 different wildlife species (antelope) greater cane rat (GCR), hare, African giant rat (AGR), tree hyrax, civet cat, monitor lizard, python, bushbuck and partridge) using a combination of Ellinghausen McCullough Johnson Harris (EMJH) medium, microscopic agglutination test (MAT), Warthin- Starry silver stain (WSss) and immunohistochemistry...
March 24, 2017: Onderstepoort Journal of Veterinary Research
https://www.readbyqxmd.com/read/28395655/sbpipe-a-collection-of-pipelines-for-automating-repetitive-simulation-and-analysis-tasks
#20
Piero Dalle Pezze, Nicolas Le Novère
BACKGROUND: The rapid growth of the number of mathematical models in Systems Biology fostered the development of many tools to simulate and analyse them. The reliability and precision of these tasks often depend on multiple repetitions and they can be optimised if executed as pipelines. In addition, new formal analyses can be performed on these repeat sequences, revealing important insights about the accuracy of model predictions. RESULTS: Here we introduce SBpipe, an open source software tool for automating repetitive tasks in model building and simulation...
April 10, 2017: BMC Systems Biology
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Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"