Kanapin A., Batalov B., Davis M.J., Gough J., Grimmond S., Kawaji H., Magrane M., Matsuda H., Schönbach C., Teasdale R.D., RIKEN GER Group and GSL Members and Yuan Z. (2003) Mouse Proteome Analysis, Genome Research 13: 1335 - 1344
Link to the paper (pdf format)
Data files:
| Arabidopsis thaliana | Caenorhabditis elegans | Drosophila melanogaster |
| Homo sapiens (IPI) | Homo sapiens (ENSEMBL) | Mus musculus (IPI) |
| Mus musculus (ENSEMBLE) | RIKEN RPS | Saccharomyces cerevisiae |
Files contain prediction data used to annotate membrane organisation in those datasets. Files are in tab delimited text format.
Notation used to record predictions
| notation | description |
| Y/N | Yes or No |
| na | Method was not applied to the protein |
| No_TM | No transmembrane domain predicted by the method |
| 25~45 | One transmembrane domain predicted, first and last residues predicted to be part of the domain separated by '~' |
| 25~45#92~122#144~164 | Multiple transmembrane domains predicted, predicted domains separated by '#' |
| Field Heading | Description |
| CLONE ID | This field contains the unique identifier of each protein as used in the original dataset |
| NN | This field contains the Signal P Neural Network signal peptide prediction (Y/N) |
| HMM | This field contains the Signal P Hidden Markov Model signal peptide prediction (Y/N) |
| SPSCAN | This field contains the SPScan signal peptide prediction (Y/N/na); 'na' indicates that this method was not applied to the protein. |
| TMHMM | This field contains the TMHMM transmembrane domain prediction |
| SVMTM | This field contains the SVMtm transmembrane domain prediction |
| SOSUI | This field contains the SOSUI transmembrane domain prediction. 'na' indicates that this method was not applied to the protein. |
| HMMTOP | This field contains the HMMtop transmembrane domain prediction; 'na' indicates that this method was not applied to the protein. |
| MEMSAT | This field contains the MEMSAT transmembrane domain prediction; 'na' indicates that this method was not applied to the protein. |
| FINAL CLASS PREDICTION | This field contains the final class prediction based on consensus result of prediction methods. Classes are described in the paper |
Contact:
Rohan Teasdale (R.Teasdale@imb.uq.edu.au)