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iHMMune-align Publications

A description of iHMMune-align, including a comparision of performance relative to other availble paritioning tools has been plublish. iHMMune-align has also been utlised by publications reporting of features of the human IGH rearrangement process. A list of these publications is provided below. Publications upon which iHMMune-aligns model was based are also provided.

Papers describing iHMMune-align

[*] B. A. Gaeta, Malming, H. R., Jackson, K.J.L., Bain, M.E., Wilson, P., Collins, A. M., 2007, iHMMune-align: Hidden Markov model-based alignment and identification of germline genes in rearranged immunoglobulin gene sequences , Bioinformatics, doi: 10.1093/bioinformatics/btm147

Papers that utilise iHMMune-align

[*] K. J. L. Jackson, Gaeta, B. A. and Collins, A. M., 2007, Identifying highly mutated IGHD genes in the junctions of rearranged human immunoglobulin heavy chains , Journal of Immunological Methods, doi:10.1016/j.jim.2007.04.011

[*] C. E. H. Lee, Jackson, K. J. L., Sewell, W. A. and Collins, A. M., 2006, Use of IGHJ and IGHD gene mutations in analysis of immunoglobulin sequences for the prognosis of chronic lymphocytic leukemia , Leukemia Research, doi:10.1016/j.leukres.2006.10.013

[*] C. E. H. Lee, Gaeta, B., Malming, H. R., Bain, M. E., Sewell, W. A. and Collins, A. M., 2006, Reconsidering the human immunoglobulin heavy-chain locus: 1. An evaluation of the expressed human IGHD gene repertoire , Immunogenetics, 57(12):917, doi:10.1007/s00251-005-0062-5

Background papers

[*] A. M. Collins, Ikutani, M., Puiu, D., Buck, G. A., Nadkarni, A. and Gaeta, B., 2004, Partitioning of Rearranged Ig Genes by Mutation Analysis Demonstrates D-D Fusion and V Gene Replacement in the Expressed Human Repertoire , Journal of Immunology, 172:340-348

[*] K. J. L. Jackson, Gaeta, B., Sewell, W. and Collins, A. M., 2004, Exonuclease activity and P nucleotide addition in the generation of the expressed immunoglobulin repertoire , BMC Immunology, 5:19, doi:10.1186/1471-2172-5-19

Posters and Conference presentations

Contact

For queries about iHMMune-align:
Andrew Collins
Katherine Jackson