NETASA specifications

Information


Unique identifier OMICS_15443
Name NETASA
Interface Web user interface
Restrictions to use None
Input data A sequence in a single letter code.
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Shandar Ahmad <>

Publication for NETASA

NETASA in publications

 (11)
PMCID: 4850189
PMID: 27038471
DOI: 10.1007/s10142-016-0489-9

[…] as the default force with conjugate gradient and l-bfgs methods. differences between the two structures were evaluated by their rmsd values., solvent accessibility of the protein was checked by netasa (neural network-based prediction of solvent accessibility) view, providing the coordinate file of protein as the input (ahmad and gromiha ). for identification of the stabilizing residues […]

PMCID: 3798325
PMID: 24146818
DOI: 10.1371/journal.pone.0076066

[…] compared to absolute surface area (asa) of each residue calculated by dssp program (swift.cmbi.ru.nl/gv/dssp). these values were transformed to relative values of asa and visualized by asaview (www.netasa.org/asaview)., changes in the amino acid sequences of the epitopic immune-dominant regions to be recognized by igg and ige immunoglobulins (b-cell epitopes) were meticulously analyzed […]

PMCID: 3237601
PMID: 22194998
DOI: 10.1371/journal.pone.0029104

[…] of this observation., a two-stage prediction model that was trained on interacting residue pairs, as described above, has been developed and is publicly available at http://tardis.nibio.go.jp/netasa/ppipp/. this online version of our model uses two fasta formatted sequences as inputs and performs pair-wise predictions between their residues. final scores are provided for residue pairs, […]

PMCID: 3206799
PMID: 22073178
DOI: 10.1371/journal.pone.0026633

[…] and running them on a 6% polyacrylamide gel in tbe buffer (ph 8.3). the dried gel was visualized using a fuji bas-1800 phosphorimager., the dbs-pred (http://gibk26.bio.kyutech.ac.jp/jouhou/shandar/netasa/dbs-pred/) was used to analyze dna binding site of page5, where the level of sensitivity was selected as medium. the software iupred (http://iupred.enzim.hu/) was used for prediction […]

PMCID: 3102081
PMID: 21647452
DOI: 10.1371/journal.pone.0020020

[…] epitopes –. promiscuous peptides binding to multiple hla class ii molecules were selected., solvent accessibility of all the residues in the generated model was calculated by asaview (http://www.netasa.org/asaview/). absolute surface area (asa) of each residue was calculated by dssp program. these values were transformed to relative values of asa. electrostatic potential for the protein […]


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NETASA institution(s)
Institute of Multimedia and Software, Universiti Putra Malaysia, Serdang, Malaysia

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