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» Constraint Programming in Structural Bioinformatics
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DAC
2009
ACM
15 years 4 months ago
RegPlace: a high quality open-source placement framework for structured ASICs
Structured ASICs have recently emerged as an exciting alternative to ASIC or FPGA design style as they provide a new trade-off between the high performance of ASIC design and low ...
Ashutosh Chakraborty, Anurag Kumar, David Z. Pan
100
Voted
ICCS
2009
Springer
15 years 7 months ago
GPU Accelerated RNA Folding Algorithm
Many bioinformatics studies require the analysis of RNA or DNA structures. More specifically, extensive work is done to elaborate efficient algorithms able to predict the 2-D fold...
Guillaume Rizk, Dominique Lavenier
86
Voted
WICSA
2008
15 years 1 months ago
Using Types to Enforce Architectural Structure
The right software architecture is critical to achieving essential quality attributes, but these qualities are only realized if the program as implemented conforms to its intended...
Jonathan Aldrich
NAR
2008
119views more  NAR 2008»
15 years 15 days ago
MALISAM: a database of structurally analogous motifs in proteins
MALISAM (manual alignments for structurally analogous motifs) represents the first database containing pairs of structural analogs and their alignments. To find reliable analogs, ...
Hua Cheng, Bong-Hyun Kim, Nick V. Grishin
84
Voted
WABI
2007
Springer
122views Bioinformatics» more  WABI 2007»
15 years 6 months ago
Algorithms for the Extraction of Synteny Blocks from Comparative Maps
In comparing genomic maps, it is often difficult to distinguish mapping errors and incorrectly resolved paralogies from genuine rearrangements of the genomes. A solution to this ...
Vicky Choi, Chunfang Zheng, Qian Zhu, David Sankof...