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Computational pipelines

Ultra Deep Sequencing of Listeria monocytogenes sRNA Transcriptome Revealed New Antisense RNAs

Sebastian Behrens, Stefanie Widder, Gopala Krishna Mannala, Xiaoxing Qing, Ramakanth Madhugiri, Nathalie Kefer, Mobarak Abu Mraheil, Thomas Rattei, Torsten Hain

published 03 Feb 2014

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Accurate Data Processing Improves the Reliability of Affymetrix Gene Expression Profiles from FFPE Samples

Maurizio Callari, Antonio Lembo, Giampaolo Bianchini, Valeria Musella, Vera Cappelletti, Luca Gianni, Maria Grazia Daidone, Paolo Provero

published 29 Jan 2014

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STORMSeq: An Open-Source, User-Friendly Pipeline for Processing Personal Genomics Data in the Cloud

Konrad J. Karczewski, Guy Haskin Fernald, Alicia R. Martin, Michael Snyder, Nicholas P. Tatonetti, Joel T. Dudley

published 15 Jan 2014

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GOMoDo: A GPCRs Online Modeling and Docking Webserver

Massimo Sandal, Tran Phuoc Duy, Matteo Cona, Hoang Zung, Paolo Carloni, Francesco Musiani, Alejandro Giorgetti

published 06 Sep 2013

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i3Drefine Software for Protein 3D Structure Refinement and Its Assessment in CASP10

Debswapna Bhattacharya, Jianlin Cheng

published 19 Jul 2013

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SOAP3-dp: Fast, Accurate and Sensitive GPU-Based Short Read Aligner

Ruibang Luo, Thomas Wong, Jianqiao Zhu, Chi-Man Liu, Xiaoqian Zhu, Edward Wu, Lap-Kei Lee, Haoxiang Lin, Wenjuan Zhu, David W. Cheung, Hing-Fung Ting, Siu-Ming Yiu, Shaoliang Peng, Chang Yu, Yingrui Li, Ruiqiang Li, Tak-Wah Lam

published 31 May 2013

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Real-Time Analysis and Visualization for Single-Molecule Based Super-Resolution Microscopy

Adel Kechkar, Deepak Nair, Mike Heilemann, Daniel Choquet, Jean-Baptiste Sibarita

published 30 Apr 2013

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Simultaneous Analysis and Quality Assurance for Diffusion Tensor Imaging

Carolyn B. Lauzon, Andrew J. Asman, Michael L. Esparza, Scott S. Burns, Qiuyun Fan, Yurui Gao, Adam W. Anderson, Nicole Davis, Laurie E. Cutting, Bennett A. Landman

published 30 Apr 2013

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The Genome Sequence of Lone Star Virus, a Highly Divergent Bunyavirus Found in the Amblyomma americanum Tick

Andrea Swei, Brandy J. Russell, Samia N. Naccache, Beniwende Kabre, Narayanan Veeraraghavan, Mark A. Pilgard, Barbara J. B. Johnson, Charles Y. Chiu

published 29 Apr 2013

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Assessing the Consequences of Denoising Marker-Based Metagenomic Data

John M. Gaspar, W. Kelley Thomas

published 25 Mar 2013

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Visual to Parametric Interaction (V2PI)

Scotland C. Leman, Leanna House, Dipayan Maiti, Alex Endert, Chris North

published 20 Mar 2013

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PSimScan: Algorithm and Utility for Fast Protein Similarity Search

Anna Kaznadzey, Natalia Alexandrova, Vladimir Novichkov, Denis Kaznadzey

published 07 Mar 2013

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Reliable Identification of Deep Sulcal Pits: The Effects of Scan Session, Scanner, and Surface Extraction Tool

Kiho Im, Jong-Min Lee, Seun Jeon, Jong-Heon Kim, Sang Won Seo, Duk L. Na, P. Ellen Grant

published 07 Jan 2013

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