... BLAST (Basic Local Alignment Search Tool) is a set of similarity search programs designed to explore all of the available sequence databases regardless of whether the query is protein or DNA. ... The BLAST 2.0 search engine has been designed for optimal speed and sensitivity. ... Gapped BLAST and PSI-BLAST are useful search tools provided by the BLAST server (version 2.0) (Altschul et al., ... You can download blastcl3 form the anonymous FTP location ftp://ncbi.nlm.nih.gov/blast/network/netblast/ . ...

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• GeneBee BLAST 2.2.22+ Services Help
• GeneBee BLAST 2.2.8 Services Help
• RNA secondary structure prediction

... Instructions are in README.TXT file inside the tarball. ... tar -xvf nhunt_x86.tar Query and database files should contain sequences in FASTA format ( wikipedia description ). ... Default name of the output file is 'nhunt.out'. ... Any parameter consists of key and value and is called as '-key value', where 'key' is one character and 'value' is any number of characters. -i Query file . ... No default value. -d Database file . ... No default value. -o Output file . ... Default value: 'nhunt.out' . ...

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Anchoring patterns and point mutations in pairwise alignments using AlignMe X-ray crystal structures have revealed that numerous membrane proteins, such as GPCRs or some secondary transporters, despite the lack of any detectable sequence similarity between them, still share very similar 3D structures. ... The novel feature allows the user to define any number of anchors with varying strength for improving the quality of pairwise alignments in challenging cases lacking notable sequence similarity. ...

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• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/179.pdf
• http://mccmb.belozersky.msu.ru/2013/abstracts/abstracts/237.pdf
• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/111.pdf

SC_rate . SC_rate offers a general method to evaluate the accuracy of protein sequence alignment with very low sequence identity. SC_rate is a Perl 5 program (available both in Perl and C binary format), which produces position specific reliability prediction for any protein sequence alignment. ... Perl Platforms . ... None . ... SAL Home | Other Scientific Fields | Chemistry, Biology Related . ... SAL@KachinaTech.COM . ...

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• SAL- Other Scientific Fields - Chemistry, Biology Related - Evalign
• SAL- Other Scientific Fields - Chemistry, Biology Related - gBioSeq
• SAL- Other Scientific Fields - Chemistry, Biology Related - PUZZLE

... allpy/structure: remove Sequence.pdb_residues, add Monomer.pdb_residue Information from aequence.pdb_residues[monomer] is now available in monomer.pdb_residue . ... 1 from allpy import protein . ... 5 sequence_1 = protein . ... 8 # Create alignment from sequences . 9 alignment = protein . ... 14 # For each sequence, print number of gaps and non-gaps in alignment . ... 18 for column in alignment . ... 23 print " %s : %s gaps, %s non-gaps" % ( row . ... 25 # Print number of gaps in each column . ...

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• allpy: b92cad794578
• allpy: b92cad794578 test/usecase2.py
• allpy: fb3164f03984 lib/block.py

Электронная библиотека Попечительского совета . ... Althaus E. - A branch-and-cut algorithm for multiple sequence alignment . ... Название: A branch-and-cut algorithm for multiple sequence alignment . Автор: Althaus E. Язык: . ... Электронная библиотека попечительского совета мехмата МГУ , 2004-2016 . ...

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• Mount D.W. - Bioinformatics. Sequence and genome analysis :: Электронная
• Pedersen C.N.S. - Algorithms in Computational Biology :: Электронная библиотека
• Lathrop R.H., Rogers Jr R.G., Smith T.F. - A Bayes-optimal sequence-structure

... Algorithm & . Format requirements . ... SDPsite is a tool for identification of protein active and other functional sites, based on spatial clustering of SDPs (specificity-determining positions, described here ) with CPs (conserved positions). ... Mapping predictied positions onto structure and construction of the best cluster . ... The input data of the algorithm are a multiple protein alignment divided into specificity groups . ... is called statistical significance of the set of k* positions . ...

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• RNA Alignment
• SDPlight
• Input Formats

Scoring Matrices . Matrix Sequences Sequence Consisting of the first four Amino Acids in the Protein GYRB_ECOL: . ... Sequence Achieved by Substitution of the 2nd and 4th Amino Acid and Insertion between the 3d and 4th Amino Acid, in the Protein GYRB_ECOLI, to randomly chosen new amino acids: . ... Matrix Sequences Sequence Consisting of the First Nine Amino Acids of the Protein GYRB_ECOLI: . ... Sequence Consisting of 2nd, 3d, 7th, 8th and 9th Amino Acid Residues of the Protein GYRB_ECOLI: . ...

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. SDPpred: a tool for prediction of amino acid residues . that determine differences in functional specificity of homologous proteins .

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• About this project
• SDPpred
• Inquiry information || Parsimony algorithm

... Alternative core new atoms (%) . ... An alignment of a set of structures is a set of positions , to each position some atoms from different structures correspond. ... Geometrical core of a set of structures is a subset of alignment positions those atoms are disposed similarly in all structures. ... For any two positions included into geometrical core, the distances between CA atoms of those positions in all structures may differ not more than the value of the parameter "Distance spreading". ...

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• SVETKA, a program for multiple sequence alignments analysis
• S : rm_systems
• Example of alignment

... Improvement of Java type compiler using in language independent remote process calls in KBase project. 09/2011 ­ present: Moscow State University, Dept. of Bioengineering and Bioinformatics (Russia) Scientific Research Java developer and lecturer Enhanced the CAMPS web resource (http://webclu.bio.wzw.tum.de/CAMPS2.0/) that enables multiple classification of transmembrane proteins. ... Developed web based UI for visualization of a graph of transmembrane protein families. ... Sutormin RA, Mironov AA. ...

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• http://storage.bioinf.fbb.msu.ru/~roman/Sutormin_CV_aug2014.pdf
• http://storage.bioinf.fbb.msu.ru/~roman/mol_biol_mosk_2006.pdf

... Экологический Форум - Фундаментальная Экология : Предложения и замечания по сайту . Тема: Readily available over the market place . ... Oakley Sunglasses Polarized is actually a explanation in them for that truth why sport fishermen <a href=http://www.cheapestsunglassesonline.net/#140>cheap oakley sunglasses china</a> favor polarized sun shades! ... Переход на форум -- Выберите форум -- О сайте "Фундаментальная экология" - Предложения и замечания по сайту Научные семинары - Научные семинары . ...

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• Экологический Форум - Фундаментальная Экология: Readily available to the
• Экологический Форум - Фундаментальная Экология: Available about the marketplace
• Экологический Форум - Фундаментальная Экология: Readily available on the market

Peremennye Zvezdy", . ... V348 Aql, USNO-B1.0 0904-0422027 . ... Meinunger (1966) classified it as an eclipsing binary with a period very close to 1 day, noting however that the period and derived minima times were uncertain due to the low variability amplitude. As of July 2011, the O C gateway (Paschke Brat 2006; Paschke 2009) lists, in addition to Meinunger's photographic data, 2 visual and 3 CCD times of minima from Paschke (1988, 1996, 2006), Stepan (1995), Br t et al. ... Meinunger (1966) . ...

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... About lab . ... Video matting refers to a problem of accurate decomposition of given video sequence to background layer, foreground layer and transparency map. The VideoMatting project is the first online benchmark of video matting methods. ... Background . ... Ground-truth alpha (transparency map) . ... To obtain trimaps, we perform morphological operations on ground-truth (GT) alpha mattes and composites by placing ground-truth foregrounds over new backgrounds. ... multiline equation . ...

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• GML AdaBoost Matlab Toolbox | Лаборатория компьютерной графики и мультимедиа
• Video Matting Benchmark | Лаборатория компьютерной графики и мультимедиа
• GML AdaBoost Matlab Toolbox | Graphics and Media Lab

... Russian language courses: During academic year Summer courses Full-time Part-time Courses dates: from _____( day )____________( month )_____( year ) to ____( day )___________( month )______( year ) Information for visa support Citizenship __________________________________________(if more than one, please indicate them using comas) Place of birth ____________________________( country )_______________________________________ ____( ...

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Expands the parameters to the query that was used to display the page. ... format="..." format string for each entry, default $name=$value . ... encoding="..." the encoding to apply to parameter values; see ENCODE for a description of the available encodings. ... Name of the parameter . ... String value of the parameter. Multi-valued parameters will have a "row" for each value. $n or $n() . ... QUERYPARAMS{format="<input type='hidden' name='$name' value='$value' encoding="entity" />"}% . ...

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• %TOPICTITLE% (43 vs. 44) - TWiki
• %TOPICTITLE% (1 vs. 2) - TWiki

... Simulation of an ideal quantum computer on a supercomputer "Lomonosov"' . ... This paper presents a simulation of an ideal quantum computer on a supercomputer "Lomonosov". ... Korzh O.V., e-mail: oxanad@mail.ru ; Korobkov S.V., e-mail: korobkovserg@gmail.com ; тАУ Moscow State University, Faculty of Computational Mathematics and Cybernetics; Leninskiye Gory 1-52, Moscow, 119991, Russia . ... Korzh A.A., e-mail: anton@korzh.ru тАУ T-Platforms Company; prospect Leninskii 113, Moscow, 117198, Russia . ...

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• Implementation of a parallel algorithm for searching the global extremum of a
• "Selection of detail levels at continuous surface simplification of polygonal
• "Automating the location of errors and inefficiencies in parallel programs"

... Derived datatypes . Up: Point-to-Point Communication Next: Datatype constructors Previous: Null processes . ... Instead, MPI provides mechanisms to specify more general, mixed, and noncontiguous communication buffers. ... More general communication buffers are specified by replacing the basic datatypes that have been used so far with derived datatypes that are constructed from basic datatypes using the constructors described in this section. ... A sequence of basic datatypes . ... Центры . ...

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... Previous message: [RU-NGI] CMS T2-RU-... in Morgue . ... FYI -------- Forwarded Message -------- Subject: [Noc-managers] New DPM release available in EPEL not compatible with SAM monitoring Date: Fri, 7 Nov 2014 18:36:47 +0100 From: Peter Solagna < peter.solagna at egi.eu > To: NGI Operations Centre managers < noc-managers at mailman.egi.eu > Dear colleagues, the DPM team released in EPEL a new version (v.1.8.9) which will publish the WebDav endpoint in the information system. ...

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• Phase space functions

... If some entries are missing, which might turn out later, add them in a way that the library remains downward compatible. (13aug97) XAW3D 3D widget library 1.3 . ... ASCII Art library 1.2 (by Hung-Chi Chu , aa.dll for XFree86, aa.dll.noX for non-X environments) . ... MPEG library 1.2.1 (by Hung-Chi Chu , DLL only ) . PNG library 1.0.2 (by Hung-Chi Chu , requires zlib , DLL only ) . TIFF library 3.4beta037 (by Hung-Chi Chu , requires zlib and jpeg , DLL only ) . ... Xpm 3.4k (by Hung-Chi Chu ) . ...

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• XFree86/OS2 Available Ported Software
• Album: Participants (available for participants only)
• XFree86/OS2 Available Ported Software - Games