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Bhageerath specifications

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Unique identifier OMICS_10264
Name Bhageerath
Interface Web user interface
Restrictions to use None
Input data An amino acid sequence.
Computer skills Basic
Version 1.0
Stability Stable
Maintained Yes

Maintainer


  • person_outline B. Jayaram

Publication for Bhageerath

Bhageerath citations

 (6)
library_books

Direct interaction of beta amyloid with Na,K ATPase as a putative regulator of the enzyme function

2016
Sci Rep
PMCID: 4906314
PMID: 27296892
DOI: 10.1038/srep27738

[…] experiments ± se., model of the aβ(1-42) peptide was constructed using as templates the aβ(1-16) structures 1ze7 and 4f37 (pdb ids) and the ab initio model of aβ(1-42) built using the server bhageerath. the resulting model of aβ(1-42) was minimized in the amber99 force field with the moe program version 2013.08. modeling of the aβ(1-42):na,k-atpase complex was performed using […]

library_books

General overview on structure prediction of twilight zone proteins

2015
PMCID: 4559291
PMID: 26338054
DOI: 10.1186/s12976-015-0014-1

[…] sequence based on the input amino acid sequence, fold recognition, template-target alignment, and template-based modelling by modeller []. the missing residues with no fragments are modelled using bhageerath ab initio modelling. in their study, they showed that bhageerath-h strgen performs better than rosetta and i-tasser []., the robetta server (http://robetta.bakerlab.org) is an automated […]

library_books

Computer aided screening of natural compounds targeting the E6 protein of HPV using molecular docking

2015
Bioinformation
PMCID: 4464539
PMID: 26124567
DOI: 10.6026/97320630011236

[…] the target-template alignment results (). in addition to target-template alignment, the three-dimensional structure of e6 protein sequence were constructed using five different servers viz., bhageerath (http: // www.scfbioiitd.res.in/bhageerath /index.jsp/), cph model (http: //www.cbs.dtu.dk / services /cphmodels/), geno3d (http://geno3dpbil.ibcp.fr), […]

library_books

Proceedings of the Indo U.S. bilateral workshop on accelerating botanicals/biologics agent development research for cancer chemoprevention, treatment, and survival

2013
PMCID: 3797562
PMID: 24279005
DOI: 10.1002/cam4.42

[…] for whole-genome analysis (chemgenome, national human genome research institute, national institutes of health, bethesda, maryland, http://www.genome.gov), tertiary structure prediction of proteins (bhageerath and bhageerath-h), and protein/dna-targeted lead molecule design (sanjeevini) was discussed. these methods can be configured into an assembly line to deliver hit molecules from genomic […]

library_books

Epitope Based Immunoinformatics and Molecular Docking Studies of Nucleocapsid Protein and Ovarian Tumor Domain of Crimean–Congo Hemorrhagic Fever Virus

2011
Front Genet
PMCID: 3268625
PMID: 22303367
DOI: 10.3389/fgene.2011.00072

[…] and hhsearch with the significant cutoffs for template identification (blast: e-value = 0.0001; hhsearch: e-value = 0.0001 and p-value = 50). therefore, an ab initio model was constructed using bhageerath server. bhageerath, an energy based approach which narrow downs the search space of tertiary structures employing sequence and secondary structure information as building stage; and later […]

library_books

FPGA accelerator for protein secondary structure prediction based on the GOR algorithm

2011
BMC Bioinformatics
PMCID: 3044307
PMID: 21342582
DOI: 10.1186/1471-2105-12-S1-S5

[…] et al. [] implemented parallel 2d hydrophobic-polar (hp) model on altera fpga ep2s15f484c3 for 2d structure prediction. in 2009, advait jain et al. [] presented a parallel implementation of the bhageerath [] package for 3d structure prediction based on fpga chip and they achieved 5-fold speedup over software version on general-purpose cpu., in this paper, we propose a complete fine-grained […]


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Bhageerath institution(s)
Department of Chemistry and Supercomputing Facility for Bioinformatics and Computational Biology, Indian Institute of Technology Delhi Hauz Khas, New Delhi, India

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