Prof. LI Shuaicheng (李帥成)

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Research Output

  1. 2016
  2. Published

    A comprehensive characterization of simple sequence repeats in pepper genomes provides valuable resources for marker development in Capsicum

    Cheng, J., Zhao, Z., Li, B., Qin, C., Wu, Z., Trejo-Saavedra, D. L. & Luo, X. & 4 others, Cui, J., Rivera-Bustamante, R. F., Li, S. & Hu, K., 7 Jan 2016, In: Scientific Reports. 6, 18919.

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 68
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  3. Published

    Reconstructing directed gene regulatory network by only gene expression data

    Zhang, L., Feng, X. K., Ng, Y. K. & Li, S. C., 2016, In: BMC Genomics. 17, Suppl 4, 430.

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 11
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  4. 2015
  5. Published

    Reconstructing directed gene regulatory network by only gene expression data

    Zhang, L., Ng, Y. K. & Li, S., 16 Dec 2015, Proceedings - 2015 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2015. Institute of Electrical and Electronics Engineers, Inc., p. 163-170 7359675

    Research output: Chapters, Conference Papers, Creative and Literary Works › RGC 32 - Refereed conference paper (with host publication) › peer-review

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  6. Published

    Identification of Glycopeptides with Multiple Hydroxylysine O-Glycosylation Sites by Tandem Mass Spectrometry

    Zhang, Y., Yu, C.-Y., Song, E., Li, S. C., Mechref, Y., Tang, H. & Liu, X., 4 Dec 2015, In: Journal of Proteome Research. 14, 12, p. 5099-5108

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 12
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  7. Published

    Outbred genome sequencing and CRISPR/Cas9 gene editing in butterflies

    Li, X., Fan, D., Zhang, W., Liu, G., Zhang, L., Zhao, L. & Fang, X. & 17 others, Chen, L., Dong, Y., Chen, Y., Ding, Y., Zhao, R., Feng, M., Zhu, Y., Feng, Y., Jiang, X., Zhu, D., Xiang, H., Feng, X., Li, S., Wang, J., Zhang, G., Kronforst, M. R. & Wang, W., 10 Sept 2015, In: Nature Communications. 6, 8212.

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 150
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  8. Published

    Compare local pocket and global protein structure models by small structure patterns

    Cui, X., Kuwahara, H., Li, S. C. & Gao, X., 9 Sept 2015, BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics. Association for Computing Machinery, Inc, p. 355-365

    Research output: Chapters, Conference Papers, Creative and Literary Works › RGC 32 - Refereed conference paper (with host publication) › peer-review

    Scopus citations: 4
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  9. Published

    Structural neighboring property for identifying protein-protein binding sites

    Guo, F., Li, S. C., Wei, Z., Zhu, D., Shen, C. & Wang, L., 1 Sept 2015, In: BMC Systems Biology. 9, 5, S3.

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 8
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  10. Published

    Corrigendum: Genome-wide adaptive complexes to underground stresses in blind mole rats Spalax (Nature Communications (2015) 5 (3966) DOI 10.1038/ncomms4966)

    53 authors, including, Fang, X., Zhang, L. & Li, S., 12 Aug 2015, In: Nature Communications. 6, 8051.

    Research output: Journal Publications and Reviews › Erratum

    Scopus citations: 2
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  11. Published

    Finding all longest common segments in protein structures efficiently

    Ng, Y. K., Yin, L., Ono, H. & Li, S. C., 1 May 2015, In: IEEE/ACM Transactions on Computational Biology and Bioinformatics. 12, 3, p. 644-655

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 2
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  12. Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models

    Karr, J. R., Williams, A. H., Zucker, J. D., Raue, A., Steiert, B., Timmer, J. & Kreutz, C. & 47 others, Hu, Y., Baron, M., Bryson, K., Barker, B., Bogart, E., Wang, Y., Chandramohan, D., Huang, L., Zawack, K., Shestov, A. A., Makadia, H., DeCicco, D., Yin, A., Wang, M., Li, S. C., Swistak, M., Cygan, M., Kazakiewicz, D., Kursa, M. B., Korytkowski, P., Plewczynski, D., Yang, J., Li, Y., Tang, H., Wang, T., Liu, Y., Xie, Y., Xiao, G., Bello, J., Botero Rozo, D. O., Cañas-Duarte, S. J., Castro, J. C., Gomez, F., Valdes, I., Vivas, L. G., Bernal, A., Pedraza Leal, J. M., Restrepo, S., Muñoz, A. R., Wilkinson, S., Allgood, B. A., Bot, B. M., Hoff, B. R., Kellen, M. R., Covert, M. W., Stolovitzky, G. A. & Meyer, P., 1 May 2015, In: PLoS Computational Biology. 11, 5, e1004096.

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 29
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  13. Published

    Parameterized BLOSUM matrices for protein alignment

    Song, D., Chen, J., Chen, G., Li, N., Li, J., Fan, J. & Bu, D. & 1 others, Li, S. C., May 2015, In: IEEE/ACM Transactions on Computational Biology and Bioinformatics. 12, 3, p. 686-694

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 24
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  14. Published

    Genome-wide profiling of HPV integration in cervical cancer identifies clustered genomic hot spots and a potential microhomology-mediated integration mechanism

    Hu, Z., Zhu, D., Wang, W., Li, W., Jia, W., Zeng, X. & Ding, W. & 29 others, Yu, L., Wang, X., Wang, L., Shen, H., Zhang, C., Liu, H., Liu, X., Zhao, Y., Fang, X., Li, S., Chen, W., Tang, T., Fu, A., Wang, Z., Chen, G., Gao, Q., Li, S., Xi, L., Wang, C., Liao, S., Ma, X., Wu, P., Li, K., Wang, S., Zhou, J., Wang, J., Xu, X., Wang, H. & Ma, D., 2015, In: Nature Genetics. 47, 2, p. 158-163

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 383
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  15. Published

    Information distance explains MHC II supertypes

    Liao, S., Fan, Y., Wang, L., Shen, W. & Li, S. C., 2015, Proceedings of the 7th International Conference on Bioinformatics and Computational Biology, BICOB 2015. The International Society for Computers and Their Applications (ISCA), p. 71-76

    Research output: Chapters, Conference Papers, Creative and Literary Works › RGC 32 - Refereed conference paper (with host publication) › peer-review

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  16. Published

    On the near-linear correlation of the eigenvalues across BLOSUM matrices

    Li, J., Ng, Y. K., Liu, X. & Li, S. C., 2015, Bioinformatics Research and Applications: 11th International Symposium, ISBRA 2015, Proceedings. Măndoiu, I., Li, Y. & Harrison, R. (eds.). Springer Verlag, Vol. 9096. p. 199-210 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 9096).

    Research output: Chapters, Conference Papers, Creative and Literary Works › RGC 32 - Refereed conference paper (with host publication) › peer-review

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  17. 2014
  18. Published

    Probabilistic models for capturing more physicochemical properties on protein-protein interface

    Guo, F., Li, S. C., Du, P. & Wang, L., 23 Jun 2014, In: Journal of Chemical Information and Modeling. 54, 6, p. 1798-1809

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 15
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  19. Published

    Whole-genome sequencing of cultivated and wild peppers provides insights into Capsicum domestication and specialization

    Qin, C., Yu, C., Shen, Y., Fang, X., Chen, L., Min, J. & Cheng, J. & 66 others, Zhao, S., Xu, M., Luo, Y., Yang, Y., Wu, Z., Mao, L., Wu, H., Changying, L.-H., Zhou, H., Lin, H., González-Morales, S., Trejo-Saavedra, D. L., Tian, H., Tang, X., Zhao, M., Huang, Z., Zhou, A., Yao, X., Cui, J., Li, W., Chen, Z., Feng, Y., Niu, Y., Bi, S., Yang, X., Li, W., Cai, H., Luo, X., Montes-Hernández, S., Leyva-González, M. A., Xiong, Z., He, X., Bai, L., Tan, S., Tang, X., Liu, D., Liu, J., Zhang, S., Chen, M., Zhang, L., Zhang, L., Zhang, Y., Liao, W., Zhang, Y., Wang, M., Lv, X., Wen, B., Liu, H., Luan, H., Zhang, Y., Yang, S., Wang, X., Xu, J., Li, X., Li, S., Wang, J., Palloix, A., Bosland, P. W., Li, Y., Krogh, A., Rivera-Bustamante, R. F., Herrera-Estrella, L., Yin, Y., Yu, J., Hu, K. & Zhang, Z., 8 Apr 2014, In: PNAS: Proceedings of the National Academy of Sciences of the United States of America. 111, 14, p. 5135-5140

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 659
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  20. Published

    Fingerprinting protein structures effectively and efficiently

    Cui, X., Li, S. C., He, L. & Li, M., 1 Apr 2014, In: Bioinformatics. 30, 7, p. 949-955

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 8
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  21. Published

    MHC binding prediction with KernelRLSpan and its variations

    Shen, W.-J., Wei, Y. T., Guo, X., Smale, S., Wong, H.-S. & Li, S. C., Apr 2014, In: Journal of Immunological Methods. 406, p. 10-20

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 9
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  22. Published

    Quantifying significance of MHC II residues

    Fan, Y., Lu, R., Wang, L., Andreatta, M. & Li, S. C., Jan 2014, In: IEEE/ACM Transactions on Computational Biology and Bioinformatics. 11, 1, p. 17-25 6654172.

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 1
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  23. Published

    Residue-specific side-chain polymorphismsvia particle belief propagation

    Ghoraie, L. S., Burkowski, F., Li, S. C. & Zhu, M., Jan 2014, In: IEEE/ACM Transactions on Computational Biology and Bioinformatics. 11, 1, p. 33-41 6646171.

    Research output: Journal Publications and Reviews › RGC 21 - Publication in refereed journal › peer-review

    Scopus citations: 2
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