SMIPS statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Secondary metabolite biosynthetic pathways chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

SMIPS specifications

Information


Unique identifier OMICS_17103
Name SMIPS
Interface Web user interface
Restrictions to use None
Input data A protein file or an InterProScan output file.
Input format Fasta or the formats of InterProScan or the JGI tables
Programming languages Perl
Computer skills Basic
Stability Stable
Source code URL https://sbi.hki-jena.de/smips/Download.php
Maintained Yes

Documentation


Maintainer


  • person_outline Ekaterina Shelest <>

Information


Unique identifier OMICS_17103
Name SMIPS
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Windows
Programming languages Perl
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Source code URL https://sbi.hki-jena.de/smips/Download.php
Maintained Yes

Versioning


Add your version

Documentation


Maintainer


  • person_outline Ekaterina Shelest <>

Publication for SMIPS

SMIPS in publications

 (12)
PMCID: 5576322
PMID: 28851275
DOI: 10.1186/s12864-017-4083-x

[…] the repertoire of carbohydrate-active enzymes. secondary metabolism key enzyme-encoding genes (smkgs) and gene clusters were identified by combining predictions from smurf [], antismash v.3.0 [], smips [], cassis [] and an in-house pipeline reported previously []. clusters were further defined based on gene co-expression []. extracellular secreted proteins (with no predicted transmembrane […]

PMCID: 5468452
PMID: 28659888
DOI: 10.3389/fmicb.2017.01063

[…] results are displayed in supplementary table . putative bgcs in the o. ulmi w9 and o. novo-ulmi h327 genomes were identified with antismash 3.0 (using the genome sequence assembly as input) () and smips 2016-07-26 (using the predicted proteins as input) () algorithms. previously reported results were also examined (). notably, bgcs and their fragments can remain in the genome without […]

PMCID: 5307856
PMID: 28196534
DOI: 10.1186/s13059-017-1151-0

[…] protein and genomic sequences of aspergilli were downloaded from aspgd (http://www.aspgd.org/). detection of pks, nrps, and dmats and further prediction of respective sm gene clusters were made with smips and cassis tools, correspondingly (https://sbi.hki-jena.de/cassis/) synteny analysis was performed with the help of an aspergillus 21-way comparative database asp2_v9 powered by sybil. […]

PMCID: 4954951
PMID: 27439378
DOI: 10.1038/srep29063

[…] the free smip7.10, cytokines levels comparable to aluminium hydroxyde alone were induced by the same compound when it was adsorbed to aluminium hydroxyde., to achieve this localization, tlr7 agonist smips were engineered allowing them to be adsorbed to aluminium hydroxide, a very well-known adjuvant with a long history of safe use in humans. the new formulation alum-tlr7, made by smip7.10 […]

PMCID: 4759057
PMID: 26893410
DOI: 10.1128/genomeA.00003-16

[…] has also been connected with enhanced electrogenesis in bacteria (, ). genes encoding bacteriocins and secondary metabolites (e.g., antibiotic pyrrolnitrin), were detected using antismash () and smips ()., the draft genome sequence of shewanella sp. p1-14-1 will promote the genetic analysis of the shewanella genus and provide insights into secondary metabolite production and the genetic […]


To access a full list of publications, you will need to upgrade to our premium service.

SMIPS institution(s)
Research Group Systems Biology/Bioinformatics, Leibniz Institute for Natural Product Research and Infection Biology, Jena, Germany; Hans-Knoll-Institute (HKI), Jena, Germany
SMIPS funding source(s)
Supported by the International Leibniz Research School for Microbial and Molecular Interactions (ILRS), as part of the excellence graduate school Jena School for Microbial Communication (JSMC), the Deutsche Forschungsgemeinschaft (DFG) and the Collaborative Research Centre ChemBioSys (CRC 1127 ChemBioSys), funded by the DFG. Results can be used to describe the secondary metabolites (SM) biosynthetic potential of a species.

SMIPS reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review SMIPS