Drug Discov Today. 2007 Mar;12(5-6):234-40. Epub 2007 Feb 9.

Computational classification of classically secreted proteins.

Source

Stabile 3-15, Department of Laboratory Medicine, Mayo Clinic, 200 First Street SW, Rochester, MN 55905, USA.

Abstract

The ability to identify classically secreted proteins is an important component of targeted therapeutic studies and the discovery of circulating biomarkers. Here, we review some of the most recent programs available for the in silico prediction of secretory proteins, the performance of which is benchmarked with an independent set of annotated human proteins. The description of these programs and the results of this benchmarking provide insights into the most recently developed prediction programs, which will enable investigators to make more informed decisions about which program best addresses their research needs.

PMID:: 17331888; [PubMed - indexed for MEDLINE]

LinkOut - more resources

Full Text Sources

Supplemental Content

Related citations

Review Free resources to assist structure-based virtual ligand screening experiments. [Curr Protein Pept Sci. 2007]
Review Free resources to assist structure-based virtual ligand screening experiments.
Villoutreix BO, Renault N, Lagorce D, Sperandio O, Montes M, Miteva MA. Curr Protein Pept Sci. 2007 Aug; 8(4):381-411.
Review Importance of molecular computer modeling in anticancer drug development. [J BUON. 2007]
Review Importance of molecular computer modeling in anticancer drug development.
Geromichalos GD. J BUON. 2007 Sep; 12 Suppl 1:S101-18.
Review Optimizing the use of open-source software applications in drug discovery. [Drug Discov Today. 2006]
Review Optimizing the use of open-source software applications in drug discovery.
Geldenhuys WJ, Gaasch KE, Watson M, Allen DD, Van der Schyf CJ. Drug Discov Today. 2006 Feb; 11(3-4):127-32.
Review Protein structure prediction methods for drug design. [Brief Bioinform. 2000]
Review Protein structure prediction methods for drug design.
Lengauer T, Zimmer R. Brief Bioinform. 2000 Sep; 1(3):275-88.
Review Enhancing drug discovery through in silico screening: strategies to increase true positives retrieval rates. [Curr Med Chem. 2008]
Review Enhancing drug discovery through in silico screening: strategies to increase true positives retrieval rates.
Kirchmair J, Distinto S, Schuster D, Spitzer G, Langer T, Wolber G. Curr Med Chem. 2008; 15(20):2040-53.

See reviews... See all...

Cited by 5 PubMed Central articles

NClassG+: A classifier for non-classically secreted Gram-positive bacterial proteins. [BMC Bioinformatics. 2011]
NClassG+: A classifier for non-classically secreted Gram-positive bacterial proteins.
Restrepo-Montoya D, Pino C, Nino LF, Patarroyo ME, Patarroyo MA. BMC Bioinformatics. 2011 Jan 14; 12:21. Epub 2011 Jan 14.
Validating subcellular localization prediction tools with mycobacterial proteins. [BMC Bioinformatics. 2009]
Validating subcellular localization prediction tools with mycobacterial proteins.
Restrepo-Montoya D, Vizcaíno C, Niño LF, Ocampo M, Patarroyo ME, Patarroyo MA. BMC Bioinformatics. 2009 May 7; 10:134. Epub 2009 May 7.
Mass spectrometric and computational analysis of cytokine-induced alterations in the astrocyte secretome. [Proteomics. 2009]
Mass spectrometric and computational analysis of cytokine-induced alterations in the astrocyte secretome.
Keene SD, Greco TM, Parastatidis I, Lee SH, Hughes EG, Balice-Gordon RJ, Speicher DW, Ischiropoulos H. Proteomics. 2009 Feb; 9(3):768-82.

See all...

Related information

Related Citations
Calculated set of PubMed citations closely related to the selected article(s) retrieved using a word weight algorithm. Related articles are displayed in ranked order from most to least relevant, with the “linked from” citation displayed first.
Substance (MeSH Keyword)
PubChem chemical substance (submitted) records that are classified under the same Medical Subject Headings (MeSH) controlled vocabulary as the current articles.
Cited in PMC
Full-text articles in the PubMed Central Database that cite the current articles.

Recent activity

Clear Turn Off Turn On

Computational classification of classically secreted proteins.
Computational classification of classically secreted proteins.
Drug Discov Today. 2007 Mar ;12(5-6):234-40. Epub 2007 Feb 9 .

PubMed
Protein subcellular relocalization in the evolution of yeast singleton and dupli...
Protein subcellular relocalization in the evolution of yeast singleton and duplicate genes.
Genome Biol Evol. 2009 Jul 22 ;1:198-204.

PubMed
The effect of seed crystals of hydroxyapatite and brushite on the crystallizatio...
The effect of seed crystals of hydroxyapatite and brushite on the crystallization of calcium oxalate in undiluted human urine in vitro: implications for urinary stone pathogenesis.
Mol Med. 2002 Apr ;8(4):200-9.

PubMed
Food allergy mediated by IgG antibodies associated with migraine in adults.
Food allergy mediated by IgG antibodies associated with migraine in adults.
Rev Alerg Mex. 2007 Sep-Oct ;54(5):162-8.

PubMed
H-Y antigen and homosexuality in men.
H-Y antigen and homosexuality in men.
J Theor Biol. 1997 Apr 7 ;185(3):373-8.

PubMed

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

PubMed

Display Settings:

Send to:

Computational classification of classically secreted proteins.

Source

Abstract

Publication Types, MeSH Terms, Substances

Publication Types

MeSH Terms

Substances

LinkOut - more resources

Full Text Sources

Supplemental Content

Related citations

Cited by 5 PubMed Central articles

Related information

Recent activity

Simple NCBI Directory

Getting Started

Resources

Popular

Featured

NCBI Information