About Bluster
The authors of Bluster are
Carolinal Perez-Iratxeta,
Gareth Palidwor and
Miguel Andrade-Navarro.
The server
Bluster is an application for the exploration of protein sequences grouped by similarity over their full length, as described in the publication:
- Carolina Perez-Iratxeta, Gareth Palidwor, Miguel A. Andrade-Navarro, "Towards completion of the Earth's proteome", EMBO Reports 2007 Dec;8(12). [PMID: 18059312]
Subcellular Localization
Subcellular localization predictions for proteins were generated using targetp and signalp:
Emanuelsson O, Brunak S, von Heijne G, Nielsen H (2007) Locating proteins in the cell using TargetP, SignalP and related tools. Nature Protocols 2: 953-971
The following programs and options were used based on taxonomy:
- Plants:
targetp -p
- Non-Plant Eukaryotes:
targetp
- Gram-positive bacteria:
signalp -t grampos
- Gram-negative bacteria:
signalp -t gramneg
- Archaea: A consensus of targetp, signalp grampos and signalp gramneg results were used to determine archaeal localization. Only proteins that have the same predicted localization by all three methods are accepted, otherwise no localization is provided. This is based on the recommendations of Nielson H., Brunak S. and von Heijne G (1999) Machine learning approaches for the prediction of signal peptides and other protein sorting signals. Protein Engineering vol. 12 no. 1: 3-9
- Viruses/viroids/Uknown taxonomy: No localization was attempted for these.
Possible values for subcellular localization are "Mitochondria","Chloroplast","Secreted", "None" and blank. "None" means that signalp or targetp did not identify a definitive localization. If the field is blank it means that no localization identification was attempted or no consensus was found for an archaeal protein. No prediction was attempted for viruses.
Targetp/Signalp limits input sequence length to 6000. For sequences longer than 6000, localization was based on only the final 6000 residues of the sequences.
Contact
Send email to ogicinfo@ohri.ca