Results 1 - 10 of 124

SMARTS: Accelerating Microarchitecture Simulation via Rigorous Statistical Sampling

by Roland E. Wunderlich, Thomas F. Wenisch, Babak Falsafi, James C. Hoe - in Proceedings of the 30th annual international symposium on Computer architecture , 2003
"... Current software-based microarchitecture simulators are many orders of magnitude slower than the hardware they simulate. Hence, most microarchitecture design studies draw their conclusions from drastically truncated benchmark simulations that are often inaccurate and misleading. This paper presents ..."
Abstract - Cited by 258 (25 self) - Add to MetaCart
the Sampling Microarchitecture Simulation (SMARTS) framework as an approach to enable fast and accurate performance measurements of full-length benchmarks. SMARTS accelerates simulation by selectively measuring in detail only an appropriate benchmark subset. SMARTS prescribes a statistically sound procedure

Applying SMARTS to SPEC CPU2000

by Thomas F. Wenisch, Roland E. Wunderlich, Babak Falsafi, James C. Hoe , 2003
"... Current software-based microarchitecture simulators are many orders of magnitude slower than the hardware they simulate. Hence, most microarchitecture design studies draw their conclusions from drastically truncated benchmark simulations that are often inaccurate and misleading. This paper pres ..."
Abstract - Cited by 3 (1 self) - Add to MetaCart
presents the Sampling Microarchitecture Simulation (SMARTS) framework as an approach to enable fast and accurate performance measurements of full-length benchmarks. SMARTS accelerates simulation by selectively measuring in detail only an appropriate benchmark subset. SMARTS prescribes a statistically

BAliBASE 3.0: latest developments of the multiple sequence alignment benchmark

by Julie D. Thompson, Patrice Koehl, Olivier Poch - Proteins , 2005
"... ABSTRACT Multiple sequence alignment is one of the cornerstones of modern molecular biology. It is used to identify conserved motifs, to determine protein domains, in 2D/3D structure prediction by homology and in evolutionary studies. Recently, high-throughput technologies such as genome sequencing ..."
Abstract - Cited by 129 (2 self) - Add to MetaCart
. The total number of proteins in BAliBASE has also been significantly increased from 1444 to 6255 sequences. In addition, full-length sequences are now provided for all test cases, which represent difficult cases for both global and local alignment programs. Finally, the BAliBASE Web site

Statistical sampling of microarchitecture simulation

by Roland E. Wunderlich, Thomas F. Wenisch, Babak Falsafi, James C. Hoe - In 20th International Parallel and Distributed Processing Symposium (IPDPS , 2006
"... Current software-based microarchitecture simulators are many orders of magnitude slower than the hardware they simulate. Hence, most microarchitecture design studies draw their conclusions from drastically truncated benchmark simulations that are often inaccurate and misleading. This article present ..."
Abstract - Cited by 9 (1 self) - Add to MetaCart
presents the Sampling Microarchitecture Simulation (SMARTS) framework as an approach to enable fast and accurate performance measurements of full-length benchmarks. SMARTS accelerates simulation by selectively measuring in detail only an appropriate benchmark subset. SMARTS prescribes a statistically sound

Benchmarking of Dimeric Threading and Structure Refinement

by Vera Grimm, Yang Zhang, Jeffrey Skolnick
"... ABSTRACT The understanding of protein– protein interactions is a major goal in the post-genomic era. The prediction of interaction from sequence and the subsequent generation of full-length dimeric models is therefore of great interest especially because the number of structurally char-acterized pro ..."
Abstract - Add to MetaCart
ABSTRACT The understanding of protein– protein interactions is a major goal in the post-genomic era. The prediction of interaction from sequence and the subsequent generation of full-length dimeric models is therefore of great interest especially because the number of structurally char

COMPUTATIONAL BENCHMARK OF THE DOPPLER REACTIVITY DEFECT

by Jeremy L. Conlin
"... A series of MCNP calculations has been performed as a benchmark for the Doppler reactivity defect and Doppler coefficient of reactivity. The geometry is a semi-infinite array of identical fuel pins of infinite length. This geometry was used to calculate the effective multiplication factor at hot zer ..."
Abstract - Add to MetaCart
A series of MCNP calculations has been performed as a benchmark for the Doppler reactivity defect and Doppler coefficient of reactivity. The geometry is a semi-infinite array of identical fuel pins of infinite length. This geometry was used to calculate the effective multiplication factor at hot

Tertiary structure predictions on a comprehensive benchmark of medium to large size proteins

by Yang Zhang, Jeffrey Skolnick - Biophys J
"... ABSTRACT We evaluate tertiary structure predictions on medium to large size proteins by TASSER, a new algorithm that assembles protein structures through rearranging the rigid fragments from threading templates guided by a reduced Ca and side-chain based potential consistent with threading based ter ..."
Abstract - Cited by 31 (16 self) - Add to MetaCart
-mean-square deviation (RMSD) to native, 6.5 Å, with.70 % alignment coverage. After TASSER assembly, in 408 cases the best of the top five full-length models has a RMSD, 6.5 Å. Among the 745 targets are 18 membrane proteins, with one-third having a predicted RMSD, 5.5 Å. For all representative proteins less than

Benchmarks The fidelity of DNA replication during

by unknown authors
"... PCR was measured using the rpsL mutation assay, which is based on streptomycin resis-tance of rpsL mutant (1–2). The rpsL gene encodes the small ribosomal protein S12 to which streptomycin binds. Some mutations in this gene make cells resistant to strepto-mycin. Since the streptomycin-resistance (Sm ..."
Abstract - Add to MetaCart
number of wild-type plasmids was devised. Briefly, the full length (4.0 kb) of the plasmid pMOL21 containing the ampicillin resistance (Apr) and rpsL genes was digested with ScaIas template. Then the linearized pMOL21 was amplified by PCR with biotinylated primers (P1:

Advanced Encryption Standard II benchmarks

by Matthew Gwynne, Oliver Kullmann
"... [1], is a popular encryption cipher used in a variety of areas including wireless, disk, and network encryption. AES was designed to replace the Data Encryption Standard (DES), which is now vulnerable to brute force attacks, and to provide an alternative to the computationally expensive Triple-DES. ..."
Abstract - Add to MetaCart
shared the same fundamental structure and features as the AES. We present benchmarks which are translations of smallscale AES into SAT. These benchmarks are generated via a general translation framework within the OKlibrary 1). Small-scale variants are used, instead of the standard AES, to provide

unknown title

by Gene Expression, Katharina E. Hayer, Angel Pizarro, Nicholas F. Lahens, John B. Hogenesch, Gregory R. Grant
"... Benchmark analysis of algorithms for determining and quantifying full-length mRNA splice forms from RNA-seq data ..."
Abstract - Add to MetaCart
Benchmark analysis of algorithms for determining and quantifying full-length mRNA splice forms from RNA-seq data
Results 1 - 10 of 124