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Protocols

DOLOP specifications

Information


Unique identifier OMICS_28624
Name DOLOP
Restrictions to use None
Community driven No
Data access Browse
User data submission Allowed
Maintained Yes

Maintainers


  • person_outline Madan Babu
  • person_outline K. Sankaran

Publications for DOLOP

DOLOP citations

 (19)
library_books

Modulation of Haemophilus influenzae interaction with hydrophobic molecules by the VacJ/MlaA lipoprotein impacts strongly on its interplay with the airways

2018
Sci Rep
PMCID: 5932069
PMID: 29720703
DOI: 10.1038/s41598-018-25232-y

[…] ttp://chou.med.harvard.edu/bioinf/Cell-PLoc/). VacJ characteristics were predicted with the PROTEAN program and proteomics tools from the ExPASy website. VacJ lipobox sequence was predicted using the DOLOP program. […]

library_books

Genomic repeats, misassembly and reannotation: a case study with long read resequencing of Porphyromonas gingivalis reference strains

2018
BMC Genomics
PMCID: 5771137
PMID: 29338683
DOI: 10.1186/s12864-017-4429-4

[…] cellular localization predictions were made using PSORTb (v3.0) [] and CELLO (v2.5) []. The outer membrane proteins predicted by these tools were then confirmed using BOMP [], and LipoP (v1.0) [] and DOLOP [] were used to predict the lipoproteins.Insertion sequence transposases were renamed as per the ISfinder [] nomenclature. Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) wer […]

library_books

Outer Membrane Vesicles (OMV) based and Proteomics driven Antigen Selection Identifies Novel Factors Contributing to Bordetella pertussis Adhesion to Epithelial Cells*

2017
PMCID: 5795387
PMID: 29203497
DOI: 10.1074/mcp.RA117.000045

[…] lar compartment (http://www.psort.org/psortb/) (). Further refinement was performed for lipoprotein annotation that were sorted from unknown identifications using the precompiled genome annotation by DOLOP (http://www.mrc-lmb.cam.ac.uk/genomes/dolop/) (). […]

call_split

Evaluation of Staphylococcus aureus Lipoproteins: Role in Nutritional Acquisition and Pathogenicity

2016
Front Microbiol
PMCID: 5020093
PMID: 27679612
DOI: 10.3389/fmicb.2016.01404
call_split See protocol

[…] generated by different programs, for example Hidden Markov Model (Bagos et al., ), LipoP (Juncker et al., ), G+LPP (Sutcliffe and Harrington, ), G+LPPv2 (Rahman et al., ), LIPPREP (Taylor et al., ), Dolop (Babu et al., ), and Von Heijne (von Heijne, ). These lipoproteins were screened carefully by combination of the different values including hydrophobic plot (http://gcat.davidson.edu/DGPB/kd/kyt […]

library_books

Membrane anchoring stabilizes and favors secretion of New Delhi Metallo β lactamase

2016
Nat Chem Biol
PMCID: 4912412
PMID: 27182662
DOI: 10.1038/nchembio.2083

[…] f and sequence identity >25% to GOB-1 were excluded. Afterwards, proteins containing the lipobox consensus sequence [LVI][ASTVI][GAS][C] within their first 50 residues were selected and analyzed with DOLOP (http://www.mrc-lmb.cam.ac.uk/genomes/dolop/) and LipoP (http://www.cbs.dtu.dk/services/LipoP/) lipoprotein predictors. Positive sequences were aligned with the structure-assisted multiple seque […]

library_books

Identification and characterization of a novel stress responsive outer membrane protein Lip40 from Actinobacillus pleuropneumoniae

2015
BMC Biotechnol
PMCID: 4660844
PMID: 26608465
DOI: 10.1186/s12896-015-0199-8

[…] uropneumoniae strain JL03 was selected to identify the lipoproteins of A. pleuropneumoniae []. The programs used for lipoprotein prediction were: (i) ScanProsite (http://prosite.expasy.org/) []; (ii) DOLOP (http://www.mrc-lmb.cam.ac.uk/genomes/dolop/) []; (iii) SignalP 4.1 (http://www.cbs.dtu.dk/services/SignalP/) []; (iv) PrediSi (http://www.predisi.de/) []; (v) Phobius (http://phobius.binf.ku.dk […]


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DOLOP institution(s)
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA; Centre for Biotechnology, Anna University, Chennai, India; MRC Laboratory of Molecular Biology, Cambridge, UK; RIKEN Genomic Sciences Centre, Yokohama, Japan
DOLOP funding source(s)
Supported by the National Institutes of Health.

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