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Protocols

SecretomeP specifications

Information


Unique identifier OMICS_03893
Name SecretomeP
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Soren Bruk

Publication for SecretomeP

SecretomeP citations

 (293)
library_books

Comparative systems analysis of the secretome of the opportunistic pathogen Aspergillus fumigatus and other Aspergillus species

2018
Sci Rep
PMCID: 5919931
PMID: 29700415
DOI: 10.1038/s41598-018-25016-4

[…] hways (Branch C in Fig. ). We remark that our pipeline predicts a much smaller set of secreted proteins via non-classical pathways (albeit with much higher confidence) in comparison to FSD which uses SecretomeP,, a tool designed for bacteria and mammals rather than fungi. Lastly, to our knowledge, this is the first study to perform a comparative analysis of both secreted and cell membrane proteins […]

library_books

Quantitative proteomic analysis of pancreatic cyst fluid proteins associated with malignancy in intraductal papillary mucinous neoplasms

2018
PMCID: 5907296
PMID: 29713252
DOI: 10.1186/s12014-018-9193-1

[…] Our bioinformatics analysis showed that secreted proteins accounted for 60.5% (1810 proteins) of the 2992 identified proteins (Additional file : Fig. S2a, Additional file : Table S1). Across SecretomeP, SignalP, and TMHMM, 1527, 682, and 381 proteins were identified, respectively (Additional file : Fig. S2b, Additional file : Table S1). Protein accession numbers were converted into gene n […]

library_books

Amino Terminal Processing of Helicobacter pylori Serine Protease HtrA: Role in Oligomerization and Activity Regulation

2018
Front Microbiol
PMCID: 5911493
PMID: 29713313
DOI: 10.3389/fmicb.2018.00642

[…] To investigate a potential regulatory role of the amino-terminal auto-processing sites on HtrAHp secretion, we next studied the involved sequences using the SignalP and SecretomeP databases, predicting a possible secretion based on the signal peptide (Signal P) or a non-classical secretion (SecretomeP), respectively (; ). Using the modified amino acid sequence of Htr […]

library_books

Comparative Genomic Analysis of Holospora spp., Intranuclear Symbionts of Paramecia

2018
Front Microbiol
PMCID: 5911502
PMID: 29713316
DOI: 10.3389/fmicb.2018.00738

[…] iSMASH () was used to predict biosynthesis of secondary metabolites. Transmembrane helices in proteins were predicted with TMHMM. Transporter protein specificity was predicted by TCDB (). SignalP and SecretomeP were used to predict signal peptides and secreted proteins, respectively (; ). To predict the twin-arginine motif we utilized TatP server (). Autotransporter proteins were predicted by sear […]

library_books

The Apoplastic Secretome of Trichoderma virens During Interaction With Maize Roots Shows an Inhibition of Plant Defence and Scavenging Oxidative Stress Secreted Proteins

2018
Front Plant Sci
PMCID: 5896443
PMID: 29675028
DOI: 10.3389/fpls.2018.00409

[…] a transmembrane domains (TMHMM 2.0) (Emanuelsson et al., ); (c) subcellular localization (WolfPsort and TargetP 1.1) (Emanuelsson et al., ; Horton et al., ); and (d) non-classical protein secretion (SecretomeP 2.0) (Bendtsen et al., ) (Supplementary Figure ). Moreover, prediction of secretory proteins was based on bioinformatics tools and parameters reported by two different fungal secretome data […]

call_split

Transcriptome and secretome analysis of Aspergillus fumigatus in the presence of sugarcane bagasse

2018
BMC Genomics
PMCID: 5883313
PMID: 29614953
DOI: 10.1186/s12864-018-4627-8
call_split See protocol

[…] presence of signals due to peptides of the secreted proteins was predicted by SignalP v.4.0 (http://www.cbs.dtu.dk/services?SignalP/) []. Additionally, Secretome Pv2.0 (http://www.cbs.dtu.dk/services/SecretomeP/) was used to define the proteins that were secreted by the non-classic pathway [].For CAZy enzyme identification, the proteins in the secretome were screened with a library of hidden Marko […]


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SecretomeP institution(s)
Center for Biological Sequence Analysis, BioCentrum-DTU, Technical University of Denmark, Lyngby, Denmark

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