SSpro8 statistics

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SSpro8 specifications

Information


Unique identifier OMICS_26468
Name SSpro8
Software type Application/Script
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Computer skills Advanced
Version 5.2
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Pierre Baldi <>

Publication for SSpro8

SSpro8 in publications

 (8)
PMCID: 5470696
PMID: 28614374
DOI: 10.1371/journal.pone.0179314

[…] of these features are listed as follows., a large number of sequence features are calculated: 1) position-specific scoring matrices (pssms) []; 2) predicted solvent accessibility using the sspro and sspro8 programs []; 3) predicted native disorder by disopred []; 4) the dscore that represents the difference between the psic [] scores for the wild type amino acid residue and mutant amino acid […]

PMCID: 4789380
PMID: 27034939
DOI: 10.1155/2016/4946872

[…] [], which compares homologous sequences retrieved from pdb in order to identify conserved substructures. the secondary structure was identified and then compared with the results obtained by the sspro8 (scratch protein predictor) which adopts the full class output classification of the dssp [], predictprotein [], netsurfp [], and psipred [] servers., prediction of regions to the most common […]

PMCID: 4635010
PMID: 26540300
DOI: 10.1371/journal.pone.0142348

[…] assembled, and compared among different hmw-gs genes using dnaman version 6.0.3.99 software. the translation of nucleotide sequences was carried out using dnastar software suite (version 7.1.0). the sspro8 (http://scratch.proteomics.ics.uci.edu/) was performed to predict the secondary structure of deduced amino acid sequences., in order to analyze phylogenetic relationships among hmw-gs gene […]

PMCID: 3914372
PMID: 24467952
DOI: 10.1186/1471-2229-14-37

[…] library using threading algorithm the segmer []. these elements of the secondary structure were also confirmed by comparison with the results obtained with other additional 2-d structure servers: sspro8 (scratch protein predictor, http://scratch.proteomics.ics.uci.edu), netsurfp ver. 1.1 (http://www.cbs.dtu.dk), and psipred (http://bioinf.cs.ucl.ac.uk/psipred) fold servers. these secondary […]

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

[…] (www.pdb.org) to identify conserved substructures. furthermore, elements of the secondary structure were also identified, and compared with the results obtained with other different approaches: sspro8 (scratch protein predictor), which adopts the full dssp 8-class output classification (scratch.proteomics.ics.uci.edu), netsurfp ver. 1.1 (www.cbs.dtu.dk), and psipred […]


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SSpro8 institution(s)
Department of Information and Computer Science, Institute for Genomics and Bioinformatics, University of California, Irvine, CA, USA; Department of Biochemistry and Molecular Biophysics, CUBIC, Columbia University, New York, NY, USA; Department of Information and Computer Science, Institute for Genomics and Bioinformatics, University of California, Irvine, CA, USA
SSpro8 funding source(s)
Supported by a Laurel Wilkening Faculty Innovation award; by a Sun Microsystems award and by the NIH grant R01-GM63029-01.

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