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Biological databases

Proteomic Interrogation of Androgen Action in Prostate Cancer Cells Reveals Roles of Aminoacyl tRNA Synthetases

Adaikkalam Vellaichamy, Arun Sreekumar, John R. Strahler, Theckelnaycke Rajendiran, Jindan Yu, Sooryanarayana Varambally, Yong Li, Gilbert S. Omenn, Arul M. Chinnaiyan, Alexey I. Nesvizhskii

published 18 Sep 2009

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Prodepth: Predict Residue Depth by Support Vector Regression Approach from Protein Sequences Only

Jiangning Song, Hao Tan, Khalid Mahmood, Ruby H. P. Law, Ashley M. Buckle, Geoffrey I. Webb, Tatsuya Akutsu, James C. Whisstock

published 17 Sep 2009

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The FunGenES Database: A Genomics Resource for Mouse Embryonic Stem Cell Differentiation

Herbert Schulz, Raivo Kolde, Priit Adler, Irène Aksoy, Konstantinos Anastassiadis, Michael Bader, Nathalie Billon, Hélène Boeuf, Pierre-Yves Bourillot, Frank Buchholz, Christian Dani, Michael Xavier Doss, Lesley Forrester, Murielle Gitton, Domingos Henrique, Jürgen Hescheler, Heinz Himmelbauer, Norbert Hübner, Efthimia Karantzali, Androniki Kretsovali, Sandra Lubitz, Laurent Pradier, Meena Rai, Jüri Reimand, Alexandra Rolletschek, Agapios Sachinidis, Pierre Savatier, Francis Stewart, Mike P. Storm, Marina Trouillas, Jaak Vilo, Melanie J. Welham, Johannes Winkler, Anna M. Wobus, Antonis K. Hatzopoulos, for the “Functional genomics in embryonic stem cells” Consortium

published 03 Sep 2009

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Transitions at CpG Dinucleotides, Geographic Clustering of TP53 Mutations and Food Availability Patterns in Colorectal Cancer

Fabio Verginelli, Faraz Bishehsari, Francesco Napolitano, Mahboobeh Mahdavinia, Alessandro Cama, Reza Malekzadeh, Gennaro Miele, Giancarlo Raiconi, Roberto Tagliaferri, Renato Mariani-Costantini

published 31 Aug 2009

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Maximum Entropy Reconstructions of Dynamic Signaling Networks from Quantitative Proteomics Data

Jason W. Locasale, Alejandro Wolf-Yadlin

published 26 Aug 2009

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Comparative Analysis of Pyrosequencing and a Phylogenetic Microarray for Exploring Microbial Community Structures in the Human Distal Intestine

Marcus J. Claesson, Orla O'Sullivan, Qiong Wang, Janne Nikkilä, Julian R. Marchesi, Hauke Smidt, Willem M. de Vos, R. Paul Ross, Paul W. O'Toole

published 20 Aug 2009

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Coupling between Properties of the Protein Shape and the Rate of Protein Folding

Dmitry N. Ivankov, Natalya S. Bogatyreva, Michail Yu Lobanov, Oxana V. Galzitskaya

published 03 Aug 2009

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Mining Biological Pathways Using WikiPathways Web Services

Thomas Kelder, Alexander R. Pico, Kristina Hanspers, Martijn P. van Iersel, Chris Evelo, Bruce R. Conklin

published 30 Jul 2009

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A Method for Studying Protistan Diversity Using Massively Parallel Sequencing of V9 Hypervariable Regions of Small-Subunit Ribosomal RNA Genes

Linda A. Amaral-Zettler, Elizabeth A. McCliment, Hugh W. Ducklow, Susan M. Huse

published 27 Jul 2009

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Evaluation of Three Automated Genome Annotations for Halorhabdus utahensis

Peter Bakke, Nick Carney, Will DeLoache, Mary Gearing, Kjeld Ingvorsen, Matt Lotz, Jay McNair, Pallavi Penumetcha, Samantha Simpson, Laura Voss, Max Win, Laurie J. Heyer, A. Malcolm Campbell

published 20 Jul 2009

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Physical Properties of Intact Proteins May Predict Allergenicity or Lack Thereof

Suchita Singh, Bhupesh Taneja, Sundeep Santosh Salvi, Anurag Agrawal

published 17 Jul 2009

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A Novel Human Tectonin Protein with Multivalent β-Propeller Folds Interacts with Ficolin and Binds Bacterial LPS

Diana Hooi Ping Low, Zhiwei Ang, Quan Yuan, Vladimir Frecer, Bow Ho, Jianzhu Chen, Jeak Ling Ding

published 16 Jul 2009

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PSPP: A Protein Structure Prediction Pipeline for Computing Clusters

Michael S. Lee, Rajkumar Bondugula, Valmik Desai, Nela Zavaljevski, In-Chul Yeh, Anders Wallqvist, Jaques Reifman

published 16 Jul 2009

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