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MiTCR: software for T-cell receptor sequencing data analysis

Nature Methods volume 10, pages 813–814 (2013)Cite this article

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To the Editor:

High-throughput sequencing technologies have transformed the field of antigen receptor diversity studies, enabling deep and quantitative analysis for deciphering adaptive immunity function in health and disease1,2,3,4. As more data are produced each year, there is steadily growing demand for standardized analysis software.

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Figure 1: MiTCR data analysis.

References

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Acknowledgements

We are grateful to T. Schumacher and C. Linnemann for valuable technical discussions and to M. Eisenstein for English editing. This work was supported by the Molecular and Cell Biology program of the Russian Academy of Sciences and Russian Foundation for Basic Research (12-04-33139-mol-a, 12-04-33065-mol-a, 12-04-00229-a, 13-04-00998-a and 13-04-40251).

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Author notes

  1. Dmitriy A Bolotin and Mikhail Shugay: These authors contributed equally to this work.

Authors and Affiliations

  1. Shemiakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, Russia

    Dmitriy A Bolotin, Mikhail Shugay, Ilgar Z Mamedov, Ekaterina V Putintseva, Maria A Turchaninova, Ivan V Zvyagin, Olga V Britanova & Dmitriy M Chudakov

  2. Central European Institute of Technology, Masaryk University, Brno, Czech Republic

    Ivan V Zvyagin & Dmitriy M Chudakov

Authors
  1. Dmitriy A Bolotin
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  2. Mikhail Shugay
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  3. Ilgar Z Mamedov
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  4. Ekaterina V Putintseva
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  5. Maria A Turchaninova
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  6. Ivan V Zvyagin
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  7. Olga V Britanova
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  8. Dmitriy M Chudakov
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Corresponding author

Correspondence to Dmitriy M Chudakov.

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The authors declare no competing financial interests.

Supplementary information

Supplementary Text and Figure

Supplementary Figure 1, Supplementary Tables 1–3 and Supplementary Notes 1–6 (PDF 368 kb)

Supplementary Data 1

Sample sequencing file of TCRβ NGS dataset. (ZIP 5778 kb)

Supplementary Data 2

Sample output file in the tab-delimited format. (TXT 5240 kb)

Supplementary Data 3

Sample output file in the cls format. (ZIP 1080 kb)

Supplementary Software

Archive with MiTCR executable files. (ZIP 1908 kb)

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Bolotin, D., Shugay, M., Mamedov, I. et al. MiTCR: software for T-cell receptor sequencing data analysis. Nat Methods 10, 813–814 (2013). https://doi.org/10.1038/nmeth.2555

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