منابع مشابه
AIDA: ab initio domain assembly server
AIDA: ab initio domain assembly server, available at http://ffas.burnham.org/AIDA/ is a tool that can identify domains in multi-domain proteins and then predict their 3D structures and relative spatial arrangements. The server is free and open to all users, and there is an option for a user to provide an e-mail to get the link to result page. Domains are evolutionary conserved and often functio...
متن کاملAIDA: ab initio domain assembly for automated multi-domain protein structure prediction and domain-domain interaction prediction
MOTIVATION Most proteins consist of multiple domains, independent structural and evolutionary units that are often reshuffled in genomic rearrangements to form new protein architectures. Template-based modeling methods can often detect homologous templates for individual domains, but templates that could be used to model the entire query protein are often not available. RESULTS We have develo...
متن کاملAb Initio Whole Genome Shotgun Assembly with Mated Short Reads
Next Generation Sequencing (NGS) technologies are capable of reading millions of short DNA sequences both quickly and cheaply. While these technologies are already being used for resequencing individuals once a reference genome exists, it has not been shown if it is possible to use them for ab initio genome assembly. In this paper, we give a novel network flow-based algorithm that, by taking ad...
متن کاملToward optimal fragment generations for ab initio protein structure assembly.
Fragment assembly using structural motifs excised from other solved proteins has shown to be an efficient method for ab initio protein-structure prediction. However, how to construct accurate fragments, how to derive optimal restraints from fragments, and what the best fragment length is are the basic issues yet to be systematically examined. In this work, we developed a gapless-threading metho...
متن کاملJust How Ab Initio Is Ab Initio Quantum Chemistry?
Quantum Mechanics has been the most spectacularly successful theory in the history of science. As is often mentioned the accuracy to which the gyromagnetic ratio of the electron can be calculated is a staggering nine decimal places. Quantum Mechanics has revolutionized the study of radiation and matter since its inception just over one hundred years ago. The impact of the theory has been felt i...
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ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2014
ISSN: 1362-4962,0305-1048
DOI: 10.1093/nar/gku369