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Protocols

PRED-LIPO specifications

Information


Unique identifier OMICS_03889
Name PRED-LIPO
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for PRED-LIPO

PRED-LIPO citations

 (20)
library_books

Analysis of antibiotics resistant genes in different strains of Staphylococcus aureus

2018
Bioinformation
PMCID: 5953858
DOI: 10.6026/97320630014113

[…] Prediction of lipoprotein and secretory signal peptides in grampositive bacteria was done for each sequences using Pred-LiPo (http://bioinformatics.biol.uoa.gr/PRED-LIPO/), a web server that used Hidden Markov Models (HMM). This was validated using CW-Pred (http://bioinformatics.biol.uoa.gr/CW-PRED/), a tool that […]

call_split

Staphylococcus aureus Membrane Derived Vesicles Promote Bacterial Virulence and Confer Protective Immunity in Murine Infection Models

2018
Front Microbiol
PMCID: 5826277
PMID: 29515544
DOI: 10.3389/fmicb.2018.00262
call_split See protocol

[…] UniProtKB ID. The breakdown by localization is graphed as a pie chart. The UniProt ID was utilized to extract the protein sequence. The lipoprotein, and secretory signal peptides were predicted using PRED-LIPO (). […]

library_books

Aspartate tightens the anchoring of staphylococcal lipoproteins to the cytoplasmic membrane

2017
PMCID: 5727369
PMID: 28901671
DOI: 10.1002/mbo3.525

[…] First, we investigated how frequent is Asp+2 is gram‐positive Lpp. We used PRED‐LIPO prediction program for analyzing Lpp of gram‐positive bacteria (http://biophysics.biol.uoa.gr/PRED-LIPO-results/) (Bagos, Tsirigos, Liakopoulos, & Hamodrakas, ). The program includes Lpp dat […]

library_books

Outer Membrane Proteome of Veillonella parvula: A Diderm Firmicute of the Human Microbiome

2017
Front Microbiol
PMCID: 5491611
PMID: 28713344
DOI: 10.3389/fmicb.2017.01215

[…] e of any LOL transport components (lolA-E) in any Negativicute genome (Antunes et al., ), however we find that 17 out of 78 OM proteins contain a lipoprotein signal sequence as predicted by LipoP and PRED-LIPO software (Table and Table ). To resolve this incongruence, we further analyzed the MS data of OM proteins that contained a cysteine residue. We searched for any mono, di, or triacylglycerol […]

library_books

Comparative Genomics of Mycoplasma bovis Strains Reveals That Decreased Virulence with Increasing Passages Might Correlate with Potential Virulence Related Factors

2017
PMCID: 5426083
PMID: 28553620
DOI: 10.3389/fcimb.2017.00177

[…] and Genomes (KEGG) database (http://www.kegg.jp/kegg-bin/show_organism?menu_type=pathway_maps&org=mbi), respectively. To determine whether proteins are secreted and contain a signal peptide, we used Pred-lipo (http://bioinformatics.biol.uoa.gr/PRED-LIPO/input.jsp), the SignalP 4.1 server for the prediction of classical secreted proteins (http://www.cbs.dtu.dk/services/SignalP/), and the Secretome […]

library_books

An in silico pan genomic probe for the molecular traits behind Lactobacillus ruminis gut autochthony

2017
PLoS One
PMCID: 5393609
PMID: 28414739
DOI: 10.1371/journal.pone.0175541

[…] erves as the cleavage recognition site for signal peptidase II []. In our pan-genomic survey of L. ruminis, loci encoding putative lipoproteins were identified for the presence of a lipobox using the PRED-LIPO prediction program [], wherein a total of between 16 and 30 genes had been uncovered (). After sorting into the core and accessory genomes, 12–19 core and four to 13 non-core genes were foun […]

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PRED-LIPO institution(s)
Department of Cell Biology and Biophysics, Faculty of Biology, University of Athens, Athens, Greece

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