Dr. SUN Yanni (孫燕妮)

Research Output

  1. 2019
  2. Published

    Review, Evaluation, and Directions for Gene-Targeted Assembly for Ecological Analyses of Metagenomes

    Guo, J., Quensen, J. F., Sun, Y., Wang, Q., Brown, C. T., Cole, J. R. & Tiedje, J. M., Oct 2019, In : Frontiers in Genetics. 10, 957.

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

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  3. Published

    A binning tool to reconstruct viral haplotypes from assembled contigs

    Chen, J., Shang, J., Wang, J. & Sun, Y., 2019, In : BMC Bioinformatics. 20, 544.

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

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  4. Published

    Fast and accurate microRNA search using CNN

    Tang, X. & Sun, Y., 2019, In : BMC Bioinformatics. 20, 646.

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

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  5. Published

    GPRED-GC: A Gene PREDiction model accounting for 5 - 3 GC gradient

    Techa-Angkoon, P., Childs, K. L. & Sun, Y., 2019, In : BMC Bioinformatics. 20, Suppl 15, 482.

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

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  6. Published

    Improving the sensitivity of long read overlap detection using grouped short k-mer matches

    Du, N., Chen, J. & Sun, Y., 2019, In : BMC Genomics. 20, Suppl. 2, 190.

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

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  7. Published

    TAR-VIR: a pipeline for TARgeted VIRal strain reconstruction from metagenomic data

    Chen, J., Huang, J. & Sun, Y., 2019, In : BMC Bioinformatics. 20, 1, 305.

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

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  8. 2018
  9. De novo haplotype reconstruction in viral quasispecies using paired-end read guided path finding

    Chen, J., Zhao, Y. & Sun, Y., 1 Sep 2018, In : Bioinformatics. 34, 17, p. 2927-2935

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 2
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  10. Rooted tRNAomes and evolution of the genetic code

    Pak, D., Du, N., Kim, Y., Sun, Y. & Burton, Z. F., 2018, In : Transcription. 9, 3, p. 137-151

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 11
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  11. 2017
  12. Cap-seq reveals complicated miRNA transcriptional mechanisms in C. elegans and mouse

    Chen, J., Zhu, D. & Sun, Y., Dec 2017, In : Quantitative Biology. 5, 4, p. 352-367

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 5
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  13. A sensitive short read homology search tool for paired-end read sequencing data

    Techa-Angkoon, P., Sun, Y. & Lei, J., 16 Oct 2017, In : BMC Bioinformatics. 18, Suppl 12, p. 77-89 414.

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

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  14. 2016
  15. Assemble CRISPRs from metagenomic sequencing data

    Lei, J. & Sun, Y., 1 Sep 2016, In : Bioinformatics. 32, 17, p. i520-i528

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 2
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  16. Improve homology search sensitivity of PacBio data by correcting frameshifts

    Du, N. & Sun, Y., 1 Sep 2016, In : Bioinformatics. 32, 17, p. i529-i537

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 7
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  17. Analysis of the Trypanosoma brucei EATRO 164 Bloodstream Guide RNA Transcriptome

    Kirby, L. E., Sun, Y., Judah, D., Nowak, S. & Koslowsky, D., Jul 2016, In : PLoS Neglected Tropical Diseases. 10, 7, e0004793.

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 9
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  18. 2015
  19. LncRNA-ID: Long non-coding RNA IDentification using balanced random forests

    Achawanantakun, R., Chen, J., Sun, Y. & Zhang, Y., 15 Dec 2015, In : Bioinformatics. 31, 24, p. 3897-3905

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 33
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  20. Reconstructing 16S rRNA genes in metagenomic data

    Yuan, C., Lei, J., Cole, J. & Sun, Y., 15 Jun 2015, In : Bioinformatics. 31, 12, p. i35-i43

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 33
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  21. Automated Update, Revision, and Quality Control of the Maize Genome Annotations Using MAKER-P Improves the B73 RefGen_v3 Gene Models and Identifies New Genes

    Law, M., Childs, K. L., Campbell, M. S., Stein, J. C., Olson, A. J., Holt, C., Panchy, N. & 9 others, Lei, J., Jiao, D., Andorf, C. M., Lawrence, C. J., Ware, D., Shiu, S., Sun, Y., Jiang, N. & Yandell, M., Jan 2015, In : Plant Physiology. 167, 1, p. 25-39

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 28
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  22. Identifying TF-miRNA regulatory relationships using multiple features

    Shao, M., Sun, Y. & Zhou, S., 2015, In : PLoS ONE. 10, 4, e0125156.

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 1
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  23. 2014
  24. MiR-PREFeR: An accurate, fast and easy-to-use plant miRNA prediction tool using small RNA-Seq data

    Lei, J. & Sun, Y., Oct 2014, In : Bioinformatics. 30, 19, p. 2837-2839

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 44
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  25. A Scalable and Accurate Targeted Gene Assembly Tool (SAT-Assembler) for Next-Generation Sequencing Data

    Zhang, Y., Sun, Y. & Cole, J. R., Aug 2014, In : PLoS Computational Biology. 10, 8, e1003737.

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 14
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  26. MAKER-P: A Tool kit for the rapid creation, management, and quality control of plant genome annotations

    Campbell, M. S., Law, M., Holt, C., Stein, J. C., Moghe, G. D., Hufnagel, D. E., Lei, J. & 9 others, Achawanantakun, R., Jiao, D., Lawrence, C. J., Ware, D., Shiu, S., Childs, K. L., Sun, Y., Jiang, N. & Yandell, M., Feb 2014, In : Plant Physiology. 164, 2, p. 513-524

    Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journal

    Scopus citations: 130
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