Yanni Sun - Publications

Affiliations: 
Computer Science - Doctor of Philosophy Michigan State University, East Lansing, MI 
Area:
Computer Science, Bioinformatics Biology

41 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2018 Wang D, Chen D, Yu J, Liu J, Shi X, Sun Y, Pan Q, Luo X, Yang J, Li Y, Cao H, Li L, Li L. Impact of oxygen concentration on metabolic profile of human placenta-derived mesenchymal stem cells as determined by chemical isotope labeling LC-MS. Journal of Proteome Research. PMID 29671598 DOI: 10.1021/acs.jproteome.7b00887  0.32
2017 Techa-Angkoon P, Sun Y, Lei J. A sensitive short read homology search tool for paired-end read sequencing data. Bmc Bioinformatics. 18: 414. PMID 29072140 DOI: 10.1186/s12859-017-1826-2  0.32
2017 Vieler A, Wu G, Tsai CH, Bullard B, Cornish AJ, Harvey C, Reca IB, Thornburg C, Achawanantakun R, Buehl CJ, Campbell MS, Cavalier D, Childs KL, Clark TJ, Deshpande R, ... ... Sun Y, et al. Correction: Genome, Functional Gene Annotation, and Nuclear Transformation of the Heterokont Oleaginous Alga Nannochloropsis oceanica CCMP1779. Plos Genetics. 13: e1006802. PMID 28542203 DOI: 10.1371/journal.pgen.1006802  0.72
2017 Yu J, Hao G, Wang D, Liu J, Dong X, Sun Y, Pan Q, Li Y, Shi X, Li L, Cao H. Therapeutic Effect and Location of GFP-Labeled Placental Mesenchymal Stem Cells on Hepatic Fibrosis in Rats. Stem Cells International. 2017: 1798260. PMID 28491093 DOI: 10.1155/2017/1798260  0.32
2016 Lei J, Sun Y. Assemble CRISPRs from metagenomic sequencing data. Bioinformatics (Oxford, England). 32: i520-i528. PMID 27587670 DOI: 10.1093/bioinformatics/btw456  0.32
2016 Tang Z, Ma J, Zhang W, Gong C, He J, Wang Y, Yu G, Yuan C, Wang X, Sun Y, Ma J, Liu F, Zhao Y. The Role of Prion Protein Expression in Predicting Gastric Cancer Prognosis. Journal of Cancer. 7: 984-90. PMID 27313789 DOI: 10.7150/jca.14237  1
2016 Sun Y, Qi G, Lei X, Xu H, Li L, Yuan C, Wang Y. Distribution and mode of occurrence of uranium in bottom ash derived from high-germanium coals. Journal of Environmental Sciences (China). 43: 91-98. PMID 27155413 DOI: 10.1016/j.jes.2015.07.009  1
2016 Zhang Y, Yuan C, Zhang Y, Sun Y, Chen H. Survival following segmentectomy or lobectomy in elderly patients with early-stage lung cancer. Oncotarget. PMID 26934652 DOI: 10.18632/oncotarget.7704  1
2015 Wang JX, Lu C, Yuan CQ, Cui BB, Qiu QD, Sun P, Hu RY, Wu DC, Sun YH, Li Y. Characterization of ESTs from black locust for gene discovery and marker development. Genetics and Molecular Research : Gmr. 14: 12684-91. PMID 26505419 DOI: 10.4238/2015.October.19.12  0.32
2015 Achawanantakun R, Chen J, Sun Y, Zhang Y. LncRNA-ID: Long non-coding RNA IDentification using balanced random forests. Bioinformatics (Oxford, England). PMID 26315901 DOI: 10.1093/bioinformatics/btv480  0.72
2015 Yuan C, Lei J, Cole J, Sun Y. Reconstructing 16S rRNA genes in metagenomic data. Bioinformatics (Oxford, England). 31: i35-i43. PMID 26072503 DOI: 10.1093/bioinformatics/btv231  1
2015 Sun Y, Fu Z, He X, Yuan C, Ding X, Xia L. Enhancement of Bacillus thuringiensis insecticidal activity by combining Cry1Ac and bi-functional toxin HWTX-XI from spider. Journal of Invertebrate Pathology. PMID 25721170 DOI: 10.1016/j.jip.2015.02.005  1
2015 Law M, Childs KL, Campbell MS, Stein JC, Olson AJ, Holt C, Panchy N, Lei J, Jiao D, Andorf CM, Lawrence CJ, Ware D, Shiu SH, Sun Y, Jiang N, et al. 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. Plant Physiology. 167: 25-39. PMID 25384563 DOI: 10.1104/pp.114.245027  0.72
2014 Zhang Y, Sun Y, Cole JR. A scalable and accurate targeted gene assembly tool (SAT-Assembler) for next-generation sequencing data. Plos Computational Biology. 10: e1003737. PMID 25122209 DOI: 10.1371/journal.pcbi.1003737  0.72
2014 Lei J, Sun Y. miR-PREFeR: an accurate, fast and easy-to-use plant miRNA prediction tool using small RNA-Seq data. Bioinformatics (Oxford, England). 30: 2837-9. PMID 24930140 DOI: 10.1093/bioinformatics/btu380  0.32
2014 Yuan CQ, Sun YH, Li YF, Zhao KQ, Hu RY, Li Y. Selection occurs within linear fruit and during the early stages of reproduction in Robinia pseudoacacia. Bmc Evolutionary Biology. 14: 53. PMID 24655746 DOI: 10.1186/1471-2148-14-53  0.32
2014 Campbell MS, Law M, Holt C, Stein JC, Moghe GD, Hufnagel DE, Lei J, Achawanantakun R, Jiao D, Lawrence CJ, Ware D, Shiu SH, Childs KL, Sun Y, Jiang N, et al. MAKER-P: a tool kit for the rapid creation, management, and quality control of plant genome annotations. Plant Physiology. 164: 513-24. PMID 24306534 DOI: 10.1104/pp.113.230144  0.72
2014 Cole JR, Wang Q, Fish JA, Chai B, McGarrell DM, Sun Y, Brown CT, Porras-Alfaro A, Kuske CR, Tiedje JM. Ribosomal Database Project: data and tools for high throughput rRNA analysis. Nucleic Acids Research. 42: D633-42. PMID 24288368 DOI: 10.1093/nar/gkt1244  0.72
2013 Yuan CQ, Li YF, Wang L, Zhao KQ, Hu RY, Sun P, Sun YH, Li Y, Gu WX, Zhou ZY. Evidence for inbreeding depression in the tree Robinia pseudoacacia L. (Fabaceae). Genetics and Molecular Research : Gmr. 12: 6249-56. PMID 24338420 DOI: 10.4238/2013.December.4.12  0.32
2013 Yuan C, Sun Y. RNA-CODE: a noncoding RNA classification tool for short reads in NGS data lacking reference genomes. Plos One. 8: e77596. PMID 24204885 DOI: 10.1371/journal.pone.0077596  1
2013 Roy M, Kim N, Kim K, Chung WH, Achawanantakun R, Sun Y, Wayne R. Analysis of the canine brain transcriptome with an emphasis on the hypothalamus and cerebral cortex. Mammalian Genome : Official Journal of the International Mammalian Genome Society. 24: 484-99. PMID 24202129 DOI: 10.1007/s00335-013-9480-0  0.72
2013 Fish JA, Chai B, Wang Q, Sun Y, Brown CT, Tiedje JM, Cole JR. FunGene: the functional gene pipeline and repository. Frontiers in Microbiology. 4: 291. PMID 24101916 DOI: 10.3389/fmicb.2013.00291  0.72
2013 Sun Y, Lou X, Yang M, Yuan C, Ma L, Xie BK, Wu JM, Yang W, Shen SX, Xu N, Liao DJ. Cyclin-dependent kinase 4 may be expressed as multiple proteins and have functions that are independent of binding to CCND and RB and occur at the S and G 2/M phases of the cell cycle. Cell Cycle (Georgetown, Tex.). 12: 3512-25. PMID 24091631 DOI: 10.4161/cc.26510  1
2013 Tian T, Sun Y, Li M, He N, Yuan C, Yu S, Wang M, Ji C, Ma D. Increased Th22 cells as well as Th17 cells in patients with adult T-cell acute lymphoblastic leukemia. Clinica Chimica Acta; International Journal of Clinical Chemistry. 426: 108-13. PMID 24064425 DOI: 10.1016/j.cca.2013.09.014  1
2013 Wang Q, Quensen JF, Fish JA, Lee TK, Sun Y, Tiedje JM, Cole JR. Ecological patterns of nifH genes in four terrestrial climatic zones explored with targeted metagenomics using FrameBot, a new informatics tool. Mbio. 4: e00592-13. PMID 24045641 DOI: 10.1128/mBio.00592-13  0.72
2013 Sun P, Yuan C, Dai L, Xi Y, Li Y, Hu R, Sun Y, Xu Z, Li Y. Phytohormone and assimilate profiles in emasculated flowers of the black locust (Robinia pseudoacacia) during development. Acta Biologica Hungarica. 64: 364-76. PMID 24013897 DOI: 10.1556/ABiol.64.2013.3.9  1
2013 Lei J, Techa-Angkoon P, Sun Y. Chain-RNA: a comparative ncRNA search tool based on the two-dimensional chain algorithm. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 10: 274-85. PMID 23929857 DOI: 10.1109/TCBB.2012.137  0.32
2013 Liu H, Bao F, Irwanto A, Fu X, Lu N, Yu G, Yu Y, Sun Y, Low H, Li Y, Liany H, Yuan C, Li J, Liu J, Chen M, et al. An association study of TOLL and CARD with leprosy susceptibility in Chinese population. Human Molecular Genetics. 22: 4430-7. PMID 23784377 DOI: 10.1093/hmg/ddt286  1
2013 Zhang Y, Sun Y, Cole JR. A Sensitive and Accurate protein domain cLassification Tool (SALT) for short reads. Bioinformatics (Oxford, England). 29: 2103-11. PMID 23782615 DOI: 10.1093/bioinformatics/btt357  0.72
2013 Achawanantakun R, Sun Y. Shape and secondary structure prediction for ncRNAs including pseudoknots based on linear SVM. Bmc Bioinformatics. 14: S1. PMID 23369147 DOI: 10.1186/1471-2105-14-S2-S1  0.72
2013 Yuan C, Sun Y. Efficient known ncRNA search including pseudoknots. Bmc Bioinformatics. 14: S25. PMID 23369049 DOI: 10.1186/1471-2105-14-S2-S25  1
2012 Vieler A, Wu G, Tsai CH, Bullard B, Cornish AJ, Harvey C, Reca IB, Thornburg C, Achawanantakun R, Buehl CJ, Campbell MS, Cavalier D, Childs KL, Clark TJ, Deshpande R, ... ... Sun Y, et al. Genome, functional gene annotation, and nuclear transformation of the heterokont oleaginous alga Nannochloropsis oceanica CCMP1779. Plos Genetics. 8: e1003064. PMID 23166516 DOI: 10.1371/journal.pgen.1003064  0.72
2012 Lei J, Techa-Angkoon P, Sun Y. Chain-RNA: A Comparative ncRNA Search Tool Based on the Two-dimensional Chain Algorithm. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. PMID 23165082  0.32
2012 Sun Y, Aljawad O, Lei J, Liu A. Genome-scale NCRNA homology search using a Hamming distance-based filtration strategy. Bmc Bioinformatics. 13: S12. PMID 22536896 DOI: 10.1186/1471-2105-13-S3-S12  0.32
2012 Sun Y, Buhler J, Yuan C. Designing filters for fast-known NcRNA identification. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 9: 774-87. PMID 22084145 DOI: 10.1109/TCBB.2011.149  0.72
2011 Achawanantakun R, Sun Y, Takyar SS. ncRNA consensus secondary structure derivation using grammar strings. Journal of Bioinformatics and Computational Biology. 9: 317-37. PMID 21523935 DOI: 10.1142/S0219720011005501  0.72
2009 Sun Y, Buhler J. Designing patterns and profiles for faster HMM search. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 6: 232-43. PMID 19407348 DOI: 10.1109/TCBB.2008.14  0.72
2008 Sun Y, Buhler J. Designing secondary structure profiles for fast ncRNA identification. Computational Systems Bioinformatics / Life Sciences Society. Computational Systems Bioinformatics Conference. 7: 145-56. PMID 19642276  0.72
2007 Sun Y, Buhler J. Designing patterns for profile HMM search. Bioinformatics (Oxford, England). 23: e36-43. PMID 17237102 DOI: 10.1093/bioinformatics/btl323  0.72
2006 Sun Y, Buhler J. Choosing the best heuristic for seeded alignment of DNA sequences. Bmc Bioinformatics. 7: 133. PMID 16533404 DOI: 10.1186/1471-2105-7-133  0.72
2005 Sun Y, Buhler J. Designing multiple simultaneous seeds for DNA similarity search. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 12: 847-61. PMID 16108721 DOI: 10.1089/cmb.2005.12.847  0.72
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