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Prediction of 3-dimensional protein structures from amino acid sequences represents one of the most important problems in computational structural biology. The community-wide Critical Assessment of Structure Prediction (CASP) experiments have been designed to obtain an objective assessment of the state-of-the-art of the field, where I-TASSER was ranked as(More)
The iterative threading assembly refinement (I-TASSER) server is an integrated platform for automated protein structure and function prediction based on the sequence-to-structure-to-function paradigm. Starting from an amino acid sequence, I-TASSER first generates three-dimensional (3D) atomic models from multiple threading alignments and iterative(More)
We have developed a new scoring function, the template modeling score (TM-score), to assess the quality of protein structure templates and predicted full-length models by extending the approaches used in Global Distance Test (GDT)1 and MaxSub.2 First, a protein size-dependent scale is exploited to eliminate the inherent protein size dependence of the(More)
We have developed TM-align, a new algorithm to identify the best structural alignment between protein pairs that combines the TM-score rotation matrix and Dynamic Programming (DP). The algorithm is approximately 4 times faster than CE and 20 times faster than DALI and SAL. On average, the resulting structure alignments have higher accuracy and coverage than(More)
<i>CarTel</i> is a mobile sensor computing system designed to collect, process, deliver, and visualize data from sensors located on mobile units such as automobiles. A CarTel node is a mobile embedded computer coupled to a set of sensors. Each node gathers and processes sensor readings locally before delivering them to a central <i>portal</i>, where the(More)
The WorldWide Web consists of a huge number of unstruc-tured documents, but it also contains structured data in the form of HTML tables. We extracted 14.1 billion HTML tables from Google's general-purpose web crawl, and used statistical classification techniques to find the estimated 154M that contain high-quality relational data. Because each re-lational(More)
We present Schism, a novel workload-aware approach for database partitioning and replication designed to improve scalability of shared-nothing distributed databases. Because distributed transactions are expensive in OLTP settings (a fact we demonstrate through a series of experiments), our partitioner attempts to minimize the number of distributed(More)
CORRESPONDENCE The lowest free-energy conformations are identified by structure clustering. A second round of assembly simulation is conducted, starting from the centroid models, to remove steric clashes and refine global topology. Final atomic structure models are constructed from the low-energy conformations by a two-step atomic-level energy minimization(More)
We have developed SPICKER, a simple and efficient strategy to identify near-native folds by clustering protein structures generated during computer simulations. In general, the most populated clusters tend to be closer to the native conformation than the lowest energy structures. To assess the generality of the approach, we applied SPICKER to 1489(More)