J. Li, Z. Zhang, S. Vang, J. Yu, G.K. Wong‡, J. Wang‡. 2009. Correlation between Ka/Ks and Ks is related to substitution model and evolutionary lineage. J. Mol. Evol. 68: 414-423.
M.A. Groenen, P. Wahlberg, M. Foglio, H.H. Cheng, H.J. Megens, R.P. Crooijmans, F. Besnier, M. Lathrop, W.M. Muir, G.K. Wong, et al. 2009. A high-density SNP-based linkage map of the chicken genome reveals sequence features correlated with recombination rate. Genome Res. 19: 510-519.
W.M. Muir, G.K. Wong, Y. Zhang, J. Wang, M.A. Groenen, R.P. Crooijmans, H.J. Megens, H. Zhang, R. Okimoto, A. Vereijken, et al. 2008. Genome-wide assessment of worldwide chicken SNP genetic diversity indicates significant absence of rare alleles in commercial breeds. Proc. Natl. Acad. Sci. USA 105: 17312-17317.
J. Wang, W. Wang, R. Li, Y. Li, G. Tian, L. Goodman, W. Fan, J. Zhang, J. Li, J. Zhang, et al. 2008. The diploid genome sequence of an Asian individual. Nature 456: 60-65. [Cover Story]
A.L. Mason, K. Doucette, G.K. Wong. 2008. Metagenomics and the case of the deadly hamster. Hepatology 48: 679-683.
W.M. Muir, G.K. Wong, Y. Zhang, J. Wang, M.A. Groenen, R.P. Crooijmans, H.J. Megens, H.M. Zhang, J.C. McKay, S. McLeod, et al. 2008. Review of the initial validation and characterization of a 3K chicken SNP array. World's Poultry Science Journal 64: 219-226.
H.S. Hayden, W. Gillett, C. Saenphimmachak, R. Lim, Y. Zhou, M.A. Jacobs, J. Chang, L. Rohmer, D.A. D'Argenio, A. Palmieri, et al. 2008. Large-insert genome analysis technology detects structural variation in Pseudomonas aeruginosa clinical strains from cystic fibrosis patients. Genomics 91: 530-537.
S. Xu, T. Clark, H. Zheng, S. Vang, R. Li, G.K. Wong, J. Wang, X. Zheng. 2008. Gene conversion in the rice genome. BMC Genomics 9: 93.
A.G. Clark, M.B. Eisen, D.R. Smith, C.M. Bergman, B. Oliver, T.A. Markow, T.C. Kaufman, M. Kellis, W. Gelbart, V.N. Iyer, et al. 2007. Evolution of genes and genomes on the Drosophila phylogeny. Nature 450: 203-218. [Cover Story]
H. Li, L. Guan, T. Liu, Y. Guo, W.M. Zheng, G.K. Wong, J. Wang. 2007. A cross-species alignment tool (CAT). BMC Bioinformatics 8: 349.
H.M. Zhang, L.D. Bacon, M. Heidari, W.M. Muir, M.A. Groenen, Y. Zhang, G.K. Wong, J.E. Fulton, N.P. O Sullivan, G.A. Albers, et al. 2007. Genetic variation at the tumour virus B locus in commercial and laboratory chicken populations assessed by a medium-throughput or a high-throughput assay. Avian Pathol. 36: 283-291.
J. Yu, G.K. Wong, S. Liu, J. Wang, H. Yang. 2007. A comprehensive crop genome research project: the Superhybrid Rice Genome Project in China. Philos. Trans. R. Soc. Lond. B Biol. Sci. 362: 1023-1034.
G. Zhang, H. Wang, J. Shi, X. Wang, H. Zheng, G.K. Wong, T. Clark, W. Wang, J. Wang, L. Kang. 2007. Identification and characterization of insect-specific proteins by genome data analysis. BMC Genomics 8: 93.
Z. Zhang, J. Li, X.Q. Zhao, J. Wang, G.K. Wong, J. Yu. 2006. KaKs_Calculator: calculating Ka and Ks through model selection and model averaging. Genomics Proteomics Bioinformatics 4: 259-263.
W. Wang, H. Zheng, C. Fan, J. Li, J. Shi, Z. Cai, G. Zhang, D. Liu, J. Zhang, S. Vang, et al. 2006. High rate of chimeric gene origination by retroposition in plant genomes. Plant Cell 18: 1791-1802.
J. Yu, P. Ni, G.K. Wong. 2006. Comparing the whole-genome-shotgun and map-based sequences of the rice genome. Trends Plant Sci. 11: 387-391.
D.M. Muzny, S.E. Scherer, R. Kaul, J. Wang, J. Yu, R. Sudbrak, C.J. Buhay, R. Chen, A. Cree, Y. Ding, et al. 2006. The DNA sequence, annotation and analysis of human chromosome 3. Nature 440: 1194-1198.
H. Li, A. Coghlan, J. Ruan, L.J. Coin, J.K. Heriche, L. Osmotherly, R. Li, T. Liu, Z. Zhang, L. Bolund, et al. 2006. TreeFam: a curated database of phylogenetic trees of animal gene families. Nucleic Acids Res. 34: D572-D580.
R. Li, J. Ye, S. Li, J. Wang, Y. Han, C. Ye, J. Wang, H. Yang, J. Yu, G.K. Wong, J. Wang. 2005. ReAS: recovery of ancestral sequences for transposable elements from the unassembled reads of a whole genome shotgun. PLoS Comput. Biol. 1: e43.
J. Yu and G.K. Wong. 2005. Genome biology: the second modern synthesis. Genomics Proteomics Bioinformatics 3: 3-4.
L. Ma, C. Chen, X. Liu, Y. Jiao, N. Su, L. Li, X. Wang, M. Cao, N. Sun, X. Zhang, et al. 2005. A microarray analysis of the rice transcriptome and its comparison to Arabidopsis. Genome Res. 15: 1274-1283.
W. Wang, H. Zheng, S. Yang, H. Yu, J. Li, H. Jiang, J. Su, L. Yang, J. Zhang, J. McDermott, G.K. Wong, J. Wang. 2005. Origin and evolution of new exons in rodents. Genome Res. 15: 1258-1264.
R. Wernersson, M.H. Schierup, F.G. Jorgensen, J. Gorodkin, F. Panitz, H.H. Staerfeldt, O.F. Christensen, T. Mailund, H. Hornshoj, A. Klein, et al. 2005. Pigs in sequence space: a 0.66X coverage pig genome survey based on shotgun sequencing. BMC Genomics 6: 70.
J. Yu, J. Wang, W. Lin, S. Li, H. Li, J. Zhou, P. Ni, W. Dong, S. Hu, C. Zeng, … G.K. Wong, H. Yang. 2005. The genomes of Oryza sativa: a history of duplications. PLoS Biol. 3: e38. [Cover Story]
J. Wang, Q. Xia, X. He, M. Dai, J. Ruan, J. Chen, G. Yu, H. Yuan, Y. Hu, R. Li, et al. 2005. SilkDB: a knowledgebase for silkworm biology and genomics. Nucleic Acids Res. 33: D399-D402.
J. Wang, X. He, J. Ruan, M. Dai, J. Chen, Y. Zhang, Y. Hu, C. Ye, S. Li, L. Cong, et al. 2005. ChickVD: a sequence variation database for the chicken genome. Nucleic Acids Res. 33: D438-D441.
Q. Xia, Z. Zhou, C. Lu, D. Cheng, F. Dai, B. Li, P. Zhao, X. Zha, T. Cheng, C. Chai, G.K. Wong, H. Yang. 2004. A draft sequence for the genome of the domesticated silkworm (Bombyx mori). Science 306: 1937-1940.
G.K. Wong, B. Liu, J. Wang, Y. Zhang, X. Yang, Z. Zhang, Q. Meng, J. Zhou, D. Li, J. Zhang, et al. 2004. A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature 432: 717-722. [Cover Story]
L.W. Hillier, W. Miller, E. Birney, W. Warren, R.C. Hardison, C.P. Ponting, P. Bork, D.W. Burt, M.A. Groenen, M.E. Delany, et al. 2004. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432: 695-716. [Cover Story]
J. Wang, J. Zhang, H. Zheng, J. Li, D. Liu, H. Li, R. Samudrala, J. Yu, G.K. Wong. 2004. Mouse transcriptome: neutral evolution of ‘non-coding’ complementary DNAs. Nature 431, following p757. Arising from: Y. Okazaki, et al. 2002. Nature 420, 563–573. doi:10.1038/nature03016.
W. Zhao, J. Wang, X. He, X. Huang, Y. Jiao, M. Dai, S. Wei, J. Fu, Y. Chen, X. Ren, et al. 2004. BGI-RIS: an integrated information resource and comparative analysis workbench for rice genomics. Nucleic Acids Res. 32: D377-D382.
J. Wang, S. Li, Y. Zhang, H. Zheng, Z. Xu, J. Ye, J. Yu, G.K. Wong. 2003. Vertebrate gene predictions and the problem of large genes. Nature Rev. Genet. 4: 741-749.
G.K. Wong, Z. Yang, D.A. Passey, M. Kibukawa, M. Paddock, C.R. Liu, L. Bolund, J. Yu. 2003. A population threshold for functional polymorphisms. Genome Res. 13: 1873-1879.
E. Qin, X. He, W. Tian, Y. Liu, W. Li, J. Wen, J. Wang, B. Fan, Q. Wu, G. Chang, et al. 2003. A genome sequence of novel SARS-CoV isolates: The genotype GD-Ins29 leads to a hypothesis of viral transmission in South China. Genomics Proteomics Bioinformatics 1: 101-107.
J. Yu, Z. Yang, M. Kibukawa, M. Paddock, D.A. Passey, G.K. Wong. 2002. Minimal introns are not “junk”. Genome Res. 12: 1185-1189. [F1000 Factor 3.0]
G.K. Wong, J. Wang, L. Tao, J. Tan, J. Zhang, D.A. Passey, J. Yu. 2002. Compositional gradients in Gramineae genes. Genome Res. 12: 851-856. [Cover Story]
J. Wang, G.K. Wong, P. Ni, Y. Han, X. Huang, J. Zhang, C. Ye, Y. Zhang, J. Hu, K. Zhang, et al. 2002. RePS: a sequence assembler that masks exact repeats identified from the shotgun data. Genome Res. 12: 824-831.
J. Yu*, S. Hu*, J. Wang*, G.K. Wong*, S. Li, B. Liu, Y. Deng, L. Dai, Y. Zhou, X. Zhang, et al. 2002. A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science 296: 79-92. [Cover Story]
G.K. Wong, D.A. Passey, J. Yu. 2001. Most of the human genome is transcribed. Genome Res. 11: 1975-1977. [F1000 Factor 6.0]
G.K. Wong, D.A. Passey, Y. Huang, Z. Yang, J. Yu. 2000. Is junk DNA mostly intron DNA? Genome Res. 10: 1672-1678.
L. Rowen, G.K. Wong, R.P. Lane, L. Hood. 2000. Publication rights in the era of open data release policies. Science 289: 1881-1881.
Z. Yang*, G.K. Wong*, M.A. Eberle*, M. Kibukawa, D.A. Passey, W.R. Hughes, L. Kruglyak, J. Yu. 2000. Sampling SNPs. Nat. Genet. 26: 13-14.
C.K. Stover, X.Q. Pham, A.L. Erwin, S.D. Mizoguchi, P. Warrener, M.J. Hickey, F.S. Brinkman, W.O. Hufnagle, D.J. Kowalik, M. Lagrou, et al. 2000. Complete genome sequence of Pseudomonas aeruginosa PAO1, an opportunistic pathogen. Nature 406: 959-964.
T. Guillaudeux, M. Janer, G.K. Wong, T. Spies, D.E. Geraghty. 1998. The complete genomic sequence of 424,015 bp at the centromeric end of the HLA class I region: gene content and polymorphism. Proc. Natl. Acad. Sci. USA 95: 9494-9499.
J. Yu and G.K. Wong. 1997. The mappers’ torch song. Genome Res. 7: 666-668.
G.K. Wong*, J. Yu*, E.C. Thayer, M.V. Olson. 1997. Multiple-complete-digest restriction fragment mapping: generating sequence-ready maps for large-scale DNA sequencing. Proc. Natl. Acad. Sci. USA 94: 5225-5230.
W. Gillett, L. Hanks, G.K. Wong, J. Yu, R. Lim, M.V. Olson. 1996. Assembly of high-resolution restriction maps based on multiple complete digests of a redundant set of overlapping clones. Genomics 33: 389-408.
G.K. Wong, P.A. Crowell, H.A. Cho, J.D. Reppy. 1993. Superfluid critical behavior in the presence of a dilute correlated impurity. Phys. Rev. B48: 3858-3880.
G.K. Wong, P.A. Crowell, H.A. Cho, J.D. Reppy. 1990. Superfluid critical behavior in 4He-filled porous media. Phys. Rev. Lett. 65: 2410-2413.
M.H.W. Chan, K.I. Blum, S.Q. Murphy, G.K. Wong, J.D. Reppy. 1988. Disorder and the superfluid transition in liquid 4He. Phys. Rev. Lett. 61: 1950-1953.
Book Chapters
McDermott J, J Wang, J Yu, G.K-S. Wong, and R Samudrala. 2009. Prediction and Annotation of Plant Protein Interaction Networks. In Plant Genomics and Bioinformatics, Eds. GP Rao, C. Wagner, RK Singh and ML. Sharma, Studium Press LLC Texas USA. Pages 207-238
J. Yu, G.K. Wong, J. Wang, H. Yang. 2005. “Shotgun sequencing” in Encyclopedia of Molecular Cell Biology and Molecular Medicine: Volume 13. Editor R.A. Meyers (John Wiley and Sons). Pages 71-114.
G.K. Wong. 2003. “Protein coding” in Encyclopedia of the Human Genome: Volume 4. Editor D.N. Cooper (Nature Publishing Group). Pages 774-779.
G.K. Wong. 1988. “Torsional Oscillators” in Experimental Techniques in Condensed Matter Physics at Low Temperatures. Editors R.C. Richardson, E.N. Smith (Addison Wesley, Frontiers in Physics, Volume 67). Pages 187-199.
Gane Ka-Shu Wong
