PhD student, Chothia Group
MRC Laboratory of Molecular Biology
Cambridge
CB2 2QH, UK

tel:	+44 1223 402479
fax:	+44 1223 213556
email:	mm238@mrc-lmb.cam.ac.uk

PROJECTS

SUPERFAMILY

PRC

SCOPaaa (very developmental)

Assorted Perl scripts, for model conversion and plotting

PAPERS

Madera M. (currently unpublished) PRC, the Profile Comparer. http://supfam.org/PRC.

Eichinger L. et al. (accepted) The genome of the social amoeba Dictyostelium discoideum. Nature.

Mulder N.J. et al. (2005) InterPro, progress and status in 2005. Nucl. Acids Res., Database issue, D201-5.

de Bono B., Madera M. and Chothia C. (2004) VH gene segments in the mouse and human genomes. J. Mol. Biol., 342(1), 131-43.

Kummerfeld S.K., Vogel C., Madera M., Pacold M. and Teichmann S.A. (2004) Gene fusion and fission rates across genomes. ISMB 2004 short paper.

Madera M., Vogel C., Kummerfeld S.K., Chothia C. and Gough J. (2004) The SUPERFAMILY database in 2004: additions and improvements. Nucl. Acids Res., Database issue, D235-9.

Bankier, A.T., Spriggs, H.F., Fartmann, B., Konfortov, B.A., Madera, M., Vogel, C., Teichmann, S.A., Ivens, A. and Dear, P.H. (2003) Integrated mapping, chromosomal sequencing and sequence analysis of Cryptosporidium parvum. Genome Res., 13(8), 1787-99.

Madera, M. and Gough, J. (2002) A comparison of profile hidden Markov model procedures for remote homology detection. Nucl. Acids Res., 30(19), 4321-4328; homepage