This article is part of the supplement: Seventh International Conference on Bioinformatics (InCoB2008)
Research
Ab-origin: an enhanced tool to identify the sourcing gene segments in germline for rearranged antibodies
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* Corresponding authors: Yixue Li yxli@sibs.ac.cn - Zhiwei Cao zwcao@scbit.org
1 Bioinformatics Center, Key Lab of Systems Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences; Graduate School of the Chinese Academy of Sciences, 320 YueYang Road, Shanghai 200031, PR China
2 Shanghai Center for Bioinformation Technology, 100 Qinzhou Road, Shanghai, 200235, PR China
3 College of Life science and Biotechnology, Tongji University, Shanghai, 200092, PR China
BMC Bioinformatics 2008, 9(Suppl 12):S20 doi:10.1186/1471-2105-9-S12-S20
Published: 12 December 2008Additional files
Additional file 1:
Figure S1: Length distribution of V-to-J region for simulated and real sequences. The figure demonstrates that length distribution of the V-to-J region of 32000 simulated sequences has no significant difference from that of 4450 real antibody sequences.
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Additional file 2:
Table S1: Results of IGHD identification among five existing tools from four sets of antibody heavy chain sequences. The agreements of these five programs (IMGT/V-QUEST, SoDA, JOINSOLVER, VDJsolver and iHMMune-align) in IGHD identification at the allele level.
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Additional file 3:
Table S2: Results of IGHD identification from Ab-origin with scores higher than 38. The agreement between Ab-origin to five programs (IMGT/V-QUEST, SoDA, JOINSOLVER, VDJsolver and iHMMune-align) in IGHD identification with score >= 38 at the allele level.
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Additional file 4:
Figure S2: Simulation flowchart of antibody maturation process. The figure demonstrates the flowchart for the simulation of antibody maturation in our study. Each IGHD simulated 1000 times independently.
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