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Protocols

cNLS Mapper specifications

Information


Unique identifier OMICS_13510
Name cNLS Mapper
Interface Web user interface
Restrictions to use None
Input data A single amino acid sequence
Input format FASTA
Output data A result page including the input sequence with highlighted predicted NLS(s), list of monopartite and bipartite NLSs, their sequence, positions in the protein, and calculated scores
Programming languages Perl
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Shunichi Kosugi

Publications for cNLS Mapper

cNLS Mapper citations

 (134)
library_books

Subcellular Localization Screening of Colletotrichum higginsianum Effector Candidates Identifies Fungal Proteins Targeted to Plant Peroxisomes, Golgi Bodies, and Microtubules

2018
Front Plant Sci
PMCID: 5942036
PMID: 29770142
DOI: 10.3389/fpls.2018.00562

[…] was also concentrated in granular, punctate structures located along the filaments and inside plant nuclei (Figures ). However, no NLS was detected in the protein sequence of ChEC17 using NLSpredict, cNLS Mapper, NLStradamus, or WoLF PSORT. Similar to GFP-ChEC9, GFP-ChEC113 also labeled small punctate structures that were closely associated with the cytoskeleton filaments, but nuclei were not labe […]

library_books

Identification and characterization of wheat stem rust resistance gene Sr21 effective against the Ug99 race group at high temperature

2018
PLoS Genet
PMCID: 5882135
PMID: 29614079
DOI: 10.1371/journal.pgen.1007287

[…] central nucleotide-binding (NB) site, and a leucine-rich repeat (LRR) region, typical of many NLR proteins. A nuclear localization signal (NLS) was predicted in Sr21 between amino acids 141 and 152 (cNLS Mapper http://nls-mapper.iab.keio.ac.jp/cgi-bin/NLS_Mapper_form.cgi).Comparing different transcripts and genomic sequences, we identified a 210-bp 5’ untranslated region (UTR) and a 2,159-bp 3’ U […]

library_books

Vps74 Connects the Golgi Apparatus and Telomeres in Saccharomyces cerevisiae

2018
PMCID: 5940170
PMID: 29593073
DOI: 10.1534/g3.118.200172

[…] uded that Vps74 plays a more direct role in the nucleus, since Vps74-GFP localizes to the nucleus, as well as the cytoplasm (Figure S5) (). Indeed, using two nuclear localization prediction programs (cNLS mapper and NucPred), Vps74 is predicted to have a weak nuclear localization signal in its N-terminus (; ; ). We conclude that Vps74 regulates the fitness of yku70Δ cells independently of Sac1. Ov […]

library_books

TgTKL1 Is a Unique Plant Like Nuclear Kinase That Plays an Essential Role in Acute Toxoplasmosis

2018
MBio
PMCID: 5874906
PMID: 29559568
DOI: 10.1128/mBio.00301-18

[…] ved domains, TgTKL protein sequences were searched against the Pfam database (v. 31.0; http://pfam.xfam.org/) with an E value cutoff of 1 × 10−5 (, ). Putative NLS sequences were identified using the cNLS mapper tool () and were considered to represent high confidence when the score was ≥10 (). […]

library_books

Identification and Characterization of Wheat Yellow Striate Virus, a Novel Leafhopper Transmitted Nucleorhabdovirus Infecting Wheat

2018
Front Microbiol
PMCID: 5861215
PMID: 29593700
DOI: 10.3389/fmicb.2018.00468

[…] ww.cbs.dtu.dk/services/TMHMM/), and SignalP were used to predict signal peptide cleavage sites (http://www.cbs.dtu.dk/services/SignalP/). The nuclear localization and export signals were predicted by cNLS Mapper (Kosugi et al., ) and NetNES 1.1 (La Cour et al., ), respectively. Mapping of clean RNA-seq reads from both wheat and leafhopper to the complete viral genome sequence as a reference was pe […]

call_split

The membrane tethered transcription factor EcbZIP17 from finger millet promotes plant growth and enhances tolerance to abiotic stresses

2018
Sci Rep
PMCID: 5794737
PMID: 29391403
DOI: 10.1038/s41598-018-19766-4
call_split See protocol

[…] berg.de/). The leucine rich nuclear export signals (NES) were predicted by the NetNES 1.1 server (http://www.cbs.dtu.dk/services/NetNES/), whereas the nuclear localisation signal was predicted by the cNLS Mapper tool (http://nls-mapper.iab.keio.ac.jp/cgi-bin/NLS_Mapper_form.cgi). The CELLO 2.5 Sub-Cellular Localisation predictor (http://cello.life.nctu.edu.tw/) was used for subcellular localisatio […]

Citations

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cNLS Mapper institution(s)
Institute for Advanced Biosciences, Keio University, Tsuruoka, Japan; Department of Biosciences and Informatics, Faculty of Science and Technology, Keio University, Yokohama, Japan; Graduate School of Biological Sciences, Nara Institute of Science and Technology, Takayama, Ikoma, Nara, Japan
cNLS Mapper funding source(s)
This work was supported by grants from Yamagata Prefectural Government and Tsuruoka City and from the Ministry of Agriculture, Forestry, and Fisheries of Japan (Rice Genome Project SY-1114).

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