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Zhongying Zhao - Publications

Affiliations: 
Biology  
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38 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
2020 Howe DK, Ha AD, Colton A, De Ley IT, Rae RG, Ross J, Wilson M, Nermut J, Zhao Z, Mc Donnell RJ, Denver DR. Phylogenetic evidence for the invasion of a commercialized European Phasmarhabditis hermaphrodita lineage into North America and New Zealand. Plos One. 15: e0237249. PMID 32804938 DOI: 10.1371/Journal.Pone.0237249  0.301
2020 Zhang S, Li R, Zhang L, Chen S, Xie M, Yang L, Xia Y, Foyer CH, Zhao Z, Lam HM. New insights into Arabidopsis transcriptome complexity revealed by direct sequencing of native RNAs. Nucleic Acids Research. PMID 32652016 DOI: 10.1093/Nar/Gkaa588  0.646
2020 Guan G, Fang M, Wong MK, Ho VWS, An X, Tang C, Huang X, Zhao Z. Multilevel regulation of muscle-specific transcription factor hlh-1 during Caenorhabditis elegans embryogenesis. Development Genes and Evolution. PMID 32556563 DOI: 10.1007/S00427-020-00662-9  0.347
2020 Guan D, Yan B, Thieme C, Hua J, Zhu H, Boheler KR, Zhao Z, Kragler F, Xia Y, Zhang S. PlaMoM: a comprehensive database compiles plant mobile macromolecules. Nucleic Acids Research. PMID 32556150 DOI: 10.1093/nar/gkaa538  0.618
2020 Li R, Ren X, Ding Q, Bi Y, Xie D, Zhao Z. Direct full-length RNA sequencing reveals unexpected transcriptome complexity during development. Genome Research. PMID 32024662 DOI: 10.1101/Gr.251512.119  0.357
2019 Sun J, Mu H, Ip JCH, Li R, Xu T, Accorsi A, Sánchez Alvarado A, Ross E, Lan Y, Sun Y, Castro-Vazquez A, Vega IA, Heras H, Ituarte S, Van Bocxlaer B, ... ... Zhao Z, et al. Signatures of Divergence, Invasiveness and Terrestralization Revealed by Four Apple Snail Genomes. Molecular Biology and Evolution. PMID 30980073 DOI: 10.1093/Molbev/Msz084  0.309
2019 Cao J, Wong MK, Zhao Z, Yan H. 3DMMS: robust 3D Membrane Morphological Segmentation of C. elegans embryo. Bmc Bioinformatics. 20: 176. PMID 30961566 DOI: 10.1186/S12859-019-2720-X  0.339
2018 Li R, Ren X, Bi Y, Ding Q, Ho VWS, Zhao Z. Comparative mitochondrial genomics reveals a possible role of a recent duplication of NADH dehydrogenase subunit 5 in gene regulation. Dna Research : An International Journal For Rapid Publication of Reports On Genes and Genomes. PMID 30085012 DOI: 10.1093/Dnares/Dsy026  0.337
2018 Ren X, Li R, Wei X, Bi Y, Ho VWS, Ding Q, Xu Z, Zhang Z, Hsieh CL, Young A, Zeng J, Liu X, Zhao Z. Genomic basis of recombination suppression in the hybrid between Caenorhabditis briggsae and C. nigoni. Nucleic Acids Research. PMID 29325078 DOI: 10.1093/Nar/Gkx1277  0.3
2017 An X, Shao J, Zhang H, Ren X, Ho VWS, Li R, Wong MK, Zhao Z. Comparative proteome analysis between C . briggsae embryos and larvae reveals a role of chromatin modification proteins in embryonic cell division. Scientific Reports. 7: 4296. PMID 28655887 DOI: 10.1038/S41598-017-04533-8  0.314
2016 Huang XT, Zhu Y, Chan LL, Zhao Z, Yan H. Inference of cellular level signaling networks using single-cell gene expression data in C. elegans reveals mechanisms of cell fate specification. Bioinformatics (Oxford, England). PMID 28011782 DOI: 10.1093/Bioinformatics/Btw796  0.361
2016 Guan D, Yan B, Thieme C, Hua J, Zhu H, Boheler KR, Zhao Z, Kragler F, Xia Y, Zhang S. PlaMoM: a comprehensive database compiles plant mobile macromolecules. Nucleic Acids Research. PMID 27924044 DOI: 10.1093/Nar/Gkw988  0.669
2016 Wong MK, Guan D, Ng KH, Ho VW, An X, Li R, Ren X, Zhao Z. Timing of Tissue-specific Cell Division Requires a Differential Onset of Zygotic Transcription during Metazoan Embryogenesis. The Journal of Biological Chemistry. PMID 27056332 DOI: 10.1074/Jbc.M115.705426  0.336
2016 Huang R, Li R, Zhao Z. Discovery of a free-living nematode phylogenetically related to vertebrate parasites of the genus Strongyloides (Nematoda : Strongyloidoidea): morphological, anatomical and molecular characterisation Invertebrate Systematics. 30: 387-397. DOI: 10.1071/Is15048  0.302
2015 Huang XT, Zhu Y, Chan LL, Zhao Z, Yan H. An integrative C. elegans protein-protein interaction network with reliability assessment based on a probabilistic graphical model. Molecular Biosystems. PMID 26555698 DOI: 10.1039/C5Mb00417A  0.333
2015 Ho VW, Wong MK, An X, Guan D, Shao J, Ng HC, Ren X, He K, Liao J, Ang Y, Chen L, Huang X, Yan B, Xia Y, Chan LL, ... ... Zhao Z, et al. Systems-level quantification of division timing reveals a common genetic architecture controlling asynchrony and fate asymmetry. Molecular Systems Biology. 11: 814. PMID 26063786 DOI: 10.15252/Msb.20145857  0.316
2015 Li R, Ren X, Bi Y, Zhao Z. Mitochondrial genome of Caenorhabditis nigoni (Rhabditida: Rhabditidae). Mitochondrial Dna. 1-2. PMID 25740213 DOI: 10.3109/19401736.2015.1007287  0.338
2015 Bi Y, Ren X, Yan C, Shao J, Xie D, Zhao Z. A Genome-wide hybrid incompatibility landscape between Caenorhabditis briggsae and C. nigoni. Plos Genetics. 11: e1004993. PMID 25692300 DOI: 10.1371/Journal.Pgen.1004993  0.313
2015 Hu J, Zhao Z, Yalamanchili HK, Wang J, Ye K, Fan X. Bayesian detection of embryonic gene expression onset in C. elegans The Annals of Applied Statistics. 9: 950-968. DOI: 10.1214/15-Aoas820  0.324
2014 He K, Shao J, Zhao Z, Liu D. The comprehensive transcriptional analysis in Caenorhabditis elegans by integrating ChIP-seq and gene expression data. Genetics Research. 96: e005. PMID 25023089 DOI: 10.1017/S0016672314000081  0.375
2014 Guan D, Shao J, Zhao Z, Wang P, Qin J, Deng Y, Boheler KR, Wang J, Yan B. PTHGRN: unraveling post-translational hierarchical gene regulatory networks using PPI, ChIP-seq and gene expression data. Nucleic Acids Research. 42: W130-6. PMID 24875471 DOI: 10.1093/Nar/Gku471  0.388
2014 Guan D, Shao J, Deng Y, Wang P, Zhao Z, Liang Y, Wang J, Yan B. CMGRN: a web server for constructing multilevel gene regulatory networks using ChIP-seq and gene expression data. Bioinformatics (Oxford, England). PMID 24389658 DOI: 10.1093/Bioinformatics/Btt761  0.381
2014 Yalamanchili HK, Yan B, Li MJ, Qin J, Zhao Z, Chin FY, Wang J. DDGni: dynamic delay gene-network inference from high-temporal data using gapped local alignment. Bioinformatics (Oxford, England). 30: 377-83. PMID 24285602 DOI: 10.1093/Bioinformatics/Btt692  0.352
2013 Huang X, Chen L, Chim H, Chan LL, Zhao Z, Yan H. Boolean genetic network model for the control of C. elegans early embryonic cell cycles. Biomedical Engineering Online. 12: S1. PMID 24564942 DOI: 10.1186/1475-925X-12-S1-S1  0.331
2013 Shao J, He K, Wang H, Ho WS, Ren X, An X, Wong MK, Yan B, Xie D, Stamatoyannopoulos J, Zhao Z. Collaborative regulation of development but independent control of metabolism by two epidermis-specific transcription factors in Caenorhabditis elegans. The Journal of Biological Chemistry. 288: 33411-26. PMID 24097988 DOI: 10.1074/Jbc.M113.487975  0.359
2012 Murray JI, Boyle TJ, Preston E, Vafeados D, Mericle B, Weisdepp P, Zhao Z, Bao Z, Boeck M, Waterston RH. Multidimensional regulation of gene expression in the C. elegans embryo. Genome Research. 22: 1282-94. PMID 22508763 DOI: 10.1101/Gr.131920.111  0.348
2010 Zhao Z, Flibotte S, Murray JI, Blick D, Boyle TJ, Gupta B, Moerman DG, Waterston RH. New tools for investigating the comparative biology of Caenorhabditis briggsae and C. elegans. Genetics. 184: 853-63. PMID 20008572 DOI: 10.1534/Genetics.109.110270  0.333
2008 Murray JI, Bao Z, Boyle TJ, Boeck ME, Mericle BL, Nicholas TJ, Zhao Z, Sandel MJ, Waterston RH. Automated analysis of embryonic gene expression with cellular resolution in C. elegans. Nature Methods. 5: 703-9. PMID 18587405 DOI: 10.1038/Nmeth.1228  0.348
2008 Bao Z, Zhao Z, Boyle TJ, Murray JI, Waterston RH. Control of cell cycle timing during C. elegans embryogenesis. Developmental Biology. 318: 65-72. PMID 18430415 DOI: 10.1016/J.Ydbio.2008.02.054  0.307
2008 Zhao Z, Boyle TJ, Bao Z, Murray JI, Mericle B, Waterston RH. Comparative analysis of embryonic cell lineage between Caenorhabditis briggsae and Caenorhabditis elegans. Developmental Biology. 314: 93-9. PMID 18164284 DOI: 10.1016/J.Ydbio.2007.11.015  0.323
2007 Hunt-Newbury R, Viveiros R, Johnsen R, Mah A, Anastas D, Fang L, Halfnight E, Lee D, Lin J, Lorch A, McKay S, Okada HM, Pan J, Schulz AK, Tu D, ... ... Zhao Z, et al. High-throughput in vivo analysis of gene expression in Caenorhabditis elegans. Plos Biology. 5: e237. PMID 17850180 DOI: 10.1371/Journal.Pbio.0050237  0.349
2007 Zhao Z, Thomas JH, Chen N, Sheps JA, Baillie DL. Comparative genomics and adaptive selection of the ATP-binding-cassette gene family in caenorhabditis species. Genetics. 175: 1407-18. PMID 17194779 DOI: 10.1534/Genetics.106.066720  0.334
2005 Zhao Z, Fang L, Chen N, Johnsen RC, Stein L, Baillie DL. Distinct regulatory elements mediate similar expression patterns in the excretory cell of Caenorhabditis elegans. The Journal of Biological Chemistry. 280: 38787-94. PMID 16159881 DOI: 10.1074/Jbc.M505701200  0.334
2005 Chen N, Pai S, Zhao Z, Mah A, Newbury R, Johnsen RC, Altun Z, Moerman DG, Baillie DL, Stein LD. Identification of a nematode chemosensory gene family. Proceedings of the National Academy of Sciences of the United States of America. 102: 146-51. PMID 15618405 DOI: 10.1073/Pnas.0408307102  0.325
2004 Zhao Z, Sheps JA, Ling V, Fang LL, Baillie DL. Expression analysis of ABC transporters reveals differential functions of tandemly duplicated genes in Caenorhabditis elegans. Journal of Molecular Biology. 344: 409-17. PMID 15522294 DOI: 10.1016/J.Jmb.2004.09.052  0.335
2004 Zhao Z, Fang LL, Johnsen R, Baillie DL. ATP-binding cassette protein E is involved in gene transcription and translation in Caenorhabditis elegans. Biochemical and Biophysical Research Communications. 323: 104-11. PMID 15351708 DOI: 10.1016/J.Bbrc.2004.08.068  0.346
2004 Sheps JA, Ralph S, Zhao Z, Baillie DL, Ling V. The ABC transporter gene family of Caenorhabditis elegans has implications for the evolutionary dynamics of multidrug resistance in eukaryotes. Genome Biology. 5: R15. PMID 15003118 DOI: 10.1186/Gb-2004-5-3-R15  0.322
2003 McKay SJ, Johnsen R, Khattra J, Asano J, Baillie DL, Chan S, Dube N, Fang L, Goszczynski B, Ha E, Halfnight E, Hollebakken R, Huang P, Hung K, Jensen V, ... ... Zhao Z, et al. Gene expression profiling of cells, tissues, and developmental stages of the nematode C. elegans. Cold Spring Harbor Symposia On Quantitative Biology. 68: 159-69. PMID 15338614 DOI: 10.1101/Sqb.2003.68.159  0.313
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