About Me

I'm responsible for outreach (within and outside EMBL) in Toby Gibson's Sequence Analysis Group here at EMBL, while carrying out research in genomics and evolutionary analysis.

As part of this work, I've been involved in setting up the Bioinformatics Tranining Network (BTN), a resource for bioinformatics trainers focusing on sharing materials and ideas in bioinformatics training.

In my outreach activities, I organise and teach a range of different training courses both inside EMBL and elsewhere. I also provide advice and help for wet-lab scientists in the analysis of their biological sequences - typical activities include helping people with:
Other activities have included organising:
Previous to my current position I worked in association with:

Teaching Activities

Material for most courses I've been involved in can be found on the Gibson Team web pages

Some of the courses I've organised or provided modules for:

Publications:

  1. Characterization of a regulatory unit that controls melanization and affects longevity of mosquitoes. An, C., Budd, A., Kanost, M.R. & Michel, K. Cell Mol Life Sci. 2011 Jun;68(11):1929-39. (PubMed abstract, full article pdf)
  2. Basic Molecular Evolution Workshop - A trans-African virtual training course: "Virtual Workshops": Is Africa ready to embrace the concept? Ommeh, S., Budd, A., Ngara, M.V., Njaci, I. & de Villiers, E.P. Bioessays. 2011 Apr;33(4):243-7. (PubMed abstract)
  3. Structure-function analysis of hRPC62 provides insights into RNA polymerase III transcription initiation. Lefevre, S., Dumay-Odelot, H., El-Ayoubi, L., Budd, A., Legrand, P., Pinaud, N., Teichmann, M. & Fribourg, S. Nat Struct Mol Biol. 2011 Mar;18(3):352-8. (PubMed abstract)
  4. Bioinformatics training: a review of challenges, actions and support requirements. Schneider, M.V., Watson, J., Attwood, T., Rother, K., Budd, A., McDowall, J., Via, A., Fernandes, P., Nyronen, T., Blicher, T., Jones, P., Blatter, M.C., De Las Rivas, J., Phillip Judge, D., van der Gool, W. & Brooksbank, C. Brief Bioinform. 2010 Nov;11(6):544-51. (PubMed abstract)
  5. Ancient protostome origin of chemosensory ionotropic glutamate receptors and the evolution of insect taste and olfaction. Croset, V., Rytz, R., Cummins, S.F., Budd, A., Brawand, D., Kaessmann, H., Gibson, T.J. & Benton, R. PLoS Genet. 2010 Aug 19;6(8). pii: e1001064. (PubMed Abstract, full article pdf)
  6. Characterization of DrCol15a1b, a Novel Component of the Stem-Cell Niche in the Zebrafish Retina. Gonzalez-Nunez, V., Nocco, V. & Budd, A. Stem Cells. 2010 Jun 14. (PubMed abstract, full article pdf)
  7. The compartmentalized bacteria of the planctomycetes-verrucomicrobia-chlamydiae superphylum have membrane coat-like proteins. (2010) Santarella-Mellwig, R., Franke, J., Jaedicke, A., Gorjanacz, M., Bauer, U., Budd, A., Mattaj, I.W. & Devos, D.P. PLoS Biol. 2010 Jan 19;8(1):e1000281.(PubMed  abstract, full article pdf)
  8. ELM: the status of the 2010 eukaryotic linear motif resource. (2010) Gould, C.M., Diella, F., Via, A., Puntervoll, P., Gemund, C., Chabanis-Davidson, S., Michael, S., Sayadi, A., Bryne, J.C., Chica, C., Seiler, M., Davey, N.E., Haslam, N., Weatheritt, R.J., Budd, A., Hughes, T., Pas, J., Rychlewski, L., Trave, G., Aasland, R., Helmer-Citterich, M., Linding, R. & Gibson, T.J. Nucleic Acids Res. 2009 Nov 17.(PubMed abstract, full article pdf)
  9. Purification of nuclear poly(A)-binding protein Nab2 reveals association with the yeast transcriptome and a messenger ribonucleoprotein core structure. (2009) Batisse, J., Batisse, C., Budd, A., Bottcher, B. & Hurt, E. J Biol Chem. 2009 Dec 11;284(50):34911-7. Epub 2009 Oct 19.(PubMed abstract)
  10. Analysis of mammalian gene batteries reveals both stable ancestral cores and highly dynamic regularory sequences. (2008) Ettwiller, L., Budd, A., Spitz, F., Wittbrodt, J. Genome Biol (PubMed abstract, full article pdf)
  11. The DExD/H-box helicase Dicer-2 mediates the induction of antiviral activity in drosophila. (2008) Deddouche, S., Matt, N., Budd, A., Mueller, S., Kemp, C., Galiana-Arnoux, D., Dostert, C., Antoniewski, C., Hoffmann, JA., Imler, JL. Nat Immunology (PubMed abstract)
  12. Understanding eukaryotic linear motifs and their role in cell signaling and regulation. (2008) Diella, F., Haslam, N., Chica, C., Budd, A., Michael, S., Brown, N.P., Trave, G. & Gibson, T.J. Front Biosci. (PubMed abstract, full article pdf)
  13. An immune-responsive serpin, SRPN6, mediates mosquito defense against malaria parasites. (2005) Abraham EG, Pinto SB, Ghosh A, Vanlandingham DL, Budd A, Higgs S, Kafatos FC, Jacobs-Lorena M, Michel K. PNAS (PubMed abstract, full article pdf)
  14. Anopheles gambiae SRPN2 facilitates midgut invasion by the malaria parasite Plasmodium berghei. (2005) Michel K, Budd A, Pinto S, Gibson TJ, Kafatos FC. EMBO Rep (PubMed abstract, full article pdf)
  15. Bacterial alpha2-macroglobulins: colonization factors acquired by horizontal gene transfer from the metazoan genome? (2004) Budd A, Blandin S, Levashina EA, Gibson TJ. Genome Biol. (PubMed abstract, full article pdf)
  16. BLAST2SRS, a web server for flexible retrieval of related protein sequences in the SWISS-PROT and SPTrEMBL databases. (2003) Bimpikis K*, Budd A*, Linding R*, Gibson TJ. Nucleic Acid Res. (PubMed abstract, full article pdf)
  17. RPA is an initiation factor for human chromosomal DNA replication. (2003) Szüts D, Kitching L, Christov C, Budd A, Peak-Chew S, Krude T. Nucleic Acid Res. (PubMed abstract, full article pdf)
*equal contribution