Prediction of signal peptides

Predicting subcellular localization of proteins based on their N-terminal amino acid sequence.
O Emanuelsson, H Nielsen, S Brunak and G von Heijne
J. Mol. Biol., 300: 1005-1016, 2000.

Prediction of consensus sites of N-glycosylation

The 20 years of PROSITE.
N Hulo, A Bairoch, V Bulliard, L Cerutti, BA Cuche, E de Castro, C Lachaize, PS Langendijk-Genevaux and CJ Sigrist
Nucleic Acids Res., 36: D245-D249, 2008.

N-glycans on proteins

Protein modifications in the plant secretory pathway: current status and practical implications in molecular pharming.
L Faye, A Boulaflous, M Benchabane, V Gomord and D Michaud
Vaccine, 23: 1770-1778, 2004.

N-Glycan structure annotation of glycopeptides using a linearized glycan structure database (GlyDB).
JM Ren, T Rejtar, L Li and BL Karger
J Proteome Res., 6:3162-3173, 2007.

Plant glycan structures

Mammalian glycan structures

Hydroxylation of Pro

Extensin: repetitive motifs, functional sites, post-translational codes, and phylogeny.
M Kieliszewski and D Lamport
Plant J, 5: 157-172, 1994.

Experimental determination of proline hydroxylation and hydroxyproline arabinogalactosylation motifs in secretory proteins.
M Shimizu, T Igasaki, M Yamada, K Yuasa, J Hasegawa, T Kato, H Tsukagoshi, K Nakamura, H Fukuda and K Matsuoka
Plant J, 42: 877-889, 2005.


Other bioinformatic tools developed by the Cell Wall Proteins and development team


Bioinformatics as a tool for assessing the quality of sub-cellular proteomic strategies and inferring functions of proteins: plant cell wall proteomics as a test case.
H San Clemente, R Pont-Lezica and E Jamet
Bioinform. Biol. Insights, 3: 15-28, 2009.


Plant cell wall functional genomics: Novelties from proteomics.
R Pont-Lezica R, Z Minic, H San Clemente, D Roujol and E Jamet
In: Advances in Genetics Research (ed. M. Osborne), Nova Science Publishers, Inc., Hauppauge, NY, USA,, vol 1., pp 265-281, 2010.