Wen-Hsiung Li, Ph.D. - Publications

Affiliations: 
Ecology and Evolution University of Chicago, Chicago, IL 
Area:
Molecular Evolution
Website:
http://pondside.uchicago.edu/~lilab/

252 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
2023 Kobayashi N, Dang TA, Kieu PTM, Gómez Luciano LB, Van Ba V, Izumitsu K, Shimizu M, Ikeda KI, Li WH, Nakayashiki H. Horizontally transferred DNA in the genome of the fungus Pyricularia oryzae is associated with repressive histone modifications. Molecular Biology and Evolution. PMID 37595132 DOI: 10.1093/molbev/msad186  0.338
2022 Ng CS, Lai CK, Ke HM, Lee HH, Chen CF, Tang PC, Cheng HC, Lu MJ, Li WH, Tsai IJ. Genome Assembly and Evolutionary Analysis of the Mandarin Duck Aix galericulata Reveal Strong Genome Conservation among Ducks. Genome Biology and Evolution. 14. PMID 35640266 DOI: 10.1093/gbe/evac083  0.785
2020 Liu WY, Lin HH, Yu CP, Chang CK, Chen HJ, Lin JJ, Lu MJ, Tu SL, Shiu SH, Wu SH, Ku MSB, Li WH. Maize ANT1 modulates vascular development, chloroplast development, photosynthesis, and plant growth. Proceedings of the National Academy of Sciences of the United States of America. PMID 32817425 DOI: 10.1073/Pnas.2012245117  0.309
2020 Lee MH, Hsu TL, Lin JJ, Lin YJ, Kao YY, Chang JJ, Li WH. Constructing a human complex type N-linked glycosylation pathway in Kluyveromyces marxianus. Plos One. 15: e0233492. PMID 32469948 DOI: 10.1371/Journal.Pone.0233492  0.34
2020 Wang WF, Lu MJ, Cheng TR, Tang YC, Teng YC, Hwa TY, Chen YH, Li MY, Wu MH, Chuang PC, Jou R, Wong CH, Li WH. Genomic analysis of Mycobacterium tuberculosis isolates and construction of a Beijing lineage reference genome. Genome Biology and Evolution. PMID 31971587 DOI: 10.1093/Gbe/Evaa009  0.363
2020 Anandharaj M, Lin YJ, Rani RP, Nadendla EK, Ho MC, Huang CC, Cheng JF, Chang JJ, Li WH. Constructing a yeast to express the largest cellulosome complex on the cell surface. Proceedings of the National Academy of Sciences of the United States of America. PMID 31953261 DOI: 10.1073/Pnas.1916529117  0.314
2019 Chen CK, Chuang HF, Wu SM, Li WH. Feather Evolution from Precocial to Altricial Birds. Zoological Studies. 58: e24. PMID 31966325 DOI: 10.6620/Zs.2019.58-24  0.301
2019 Lin JJ, Bhattacharjee MJ, Yu CP, Tseng YY, Li WH. Many human RNA viruses show extraordinarily stringent selective constraints on protein evolution. Proceedings of the National Academy of Sciences of the United States of America. PMID 31484772 DOI: 10.1073/Pnas.1907626116  0.396
2019 Wang L, Zhao L, Zhang X, Zhang Q, Jia Y, Wang G, Li S, Tian D, Li WH, Yang S. Large-scale identification and functional analysis of genes in blast resistance in the Tetep rice genome sequence. Proceedings of the National Academy of Sciences of the United States of America. PMID 31451649 DOI: 10.1073/Pnas.1910229116  0.355
2019 Gómez Luciano LB, Jason Tsai I, Chuma I, Tosa Y, Chen YH, Li JY, Li MY, Jade Lu MY, Nakayashiki H, Li WH. Blast fungal genomes show frequent chromosomal changes, gene gains and losses, and effector gene turnover. Molecular Biology and Evolution. PMID 30835262 DOI: 10.1093/Molbev/Msz045  0.418
2019 Chang YM, Lin HH, Liu WY, Yu CP, Chen HJ, Wartini PP, Kao YY, Wu YH, Lin JJ, Lu MJ, Tu SL, Wu SH, Shiu SH, Ku MSB, Li WH. Comparative transcriptomics method to infer gene coexpression networks and its applications to maize and rice leaf transcriptomes. Proceedings of the National Academy of Sciences of the United States of America. PMID 30718437 DOI: 10.1073/Pnas.1817621116  0.371
2018 Ng CS, Li WH. Genetic and Molecular Basis of Feather Diversity in Birds. Genome Biology and Evolution. PMID 30169786 DOI: 10.1093/Gbe/Evy180  0.333
2018 Huang J, Li J, Zhou J, Wang L, Yang S, Hurst LD, Li WH, Tian D. Identifying a large number of high-yield genes in rice by pedigree analysis, whole-genome sequencing, and CRISPR-Cas9 gene knockout. Proceedings of the National Academy of Sciences of the United States of America. PMID 30037991 DOI: 10.1073/Pnas.1806110115  0.458
2018 Lee MH, Lin JJ, Lin YJ, Chang JJ, Ke HM, Fan WL, Wang TY, Li WH. Genome-wide prediction of CRISPR/Cas9 targets in Kluyveromyces marxianus and its application to obtain a stable haploid strain. Scientific Reports. 8: 7305. PMID 29743485 DOI: 10.1038/S41598-018-25366-Z  0.309
2017 Chang JJ, Lin YJ, Lay CH, Thia C, Wu YC, Hou YH, Huang CC, Li WH. Constructing a Cellulosic Yeast Host with an Efficient Cellulase Cocktail. Biotechnology and Bioengineering. PMID 29197184 DOI: 10.1002/Bit.26507  0.317
2017 Wu P, Yan J, Lai YC, Ng CS, Li A, Jiang X, Elsey R, Widelitz R, Bajpai R, Li WH, Chuong CM. Multiple regulatory modules are required for scale-to-feather conversion. Molecular Biology and Evolution. PMID 29177513 DOI: 10.1093/Molbev/Msx295  0.351
2017 Lin JJ, Wang FY, Li WH, Wang TY. The rises and falls of opsin genes in 59 ray-finned fish genomes and their implications for environmental adaptation. Scientific Reports. 7: 15568. PMID 29138475 DOI: 10.1038/S41598-017-15868-7  0.454
2017 Lin YJ, Chang JJ, Lin HY, Thia C, Kao YY, Huang CC, Li WH. Metabolic engineering a yeast to produce astaxanthin. Bioresource Technology. 245: 899-905. PMID 28931206 DOI: 10.1016/J.Biortech.2017.07.116  0.34
2017 Chang YM, Ling L, Chang YT, Chang YW, Li WH, Shih AC, Chen CC. Three TF Co-expression Modules Regulate Pressure-Overload Cardiac Hypertrophy in Male Mice. Scientific Reports. 7: 7560. PMID 28790436 DOI: 10.1038/S41598-017-07981-4  0.344
2017 Su SC, Lin CW, Liu YF, Fan WL, Chen MK, Yu CP, Yang WE, Su CW, Chuang CY, Li WH, Chung WH, Yang SF. Exome Sequencing of Oral Squamous Cell Carcinoma Reveals Molecular Subgroups and Novel Therapeutic Opportunities. Theranostics. 7: 1088-1099. PMID 28435450 DOI: 10.7150/Thno.18551  0.336
2017 Ke HM, Prachumwat A, Yu CP, Yang YT, Promsri S, Liu KF, Lo CF, Lu MJ, Lai MC, Tsai IJ, Li WH. Comparative genomics of Vibrio campbellii strains and core species of the Vibrio Harveyi clade. Scientific Reports. 7: 41394. PMID 28145490 DOI: 10.1038/srep41394  0.773
2016 Tsai KJ, Lu MJ, Yang KJ, Li M, Teng Y, Chen S, Ku MS, Li WH. Assembling the Setaria italica L. Beauv. genome into nine chromosomes and insights into regions affecting growth and drought tolerance. Scientific Reports. 6: 35076. PMID 27734962 DOI: 10.1038/Srep35076  0.376
2016 Bhattacharjee MJ, Yu CP, Lin JJ, Ng CS, Wang TY, Lin HH, Li WH. Regulatory Divergence among Beta-Keratin Genes during Bird Evolution. Molecular Biology and Evolution. PMID 27501942 DOI: 10.1093/Molbev/Msw165  0.366
2016 Yu CP, Lin JJ, Li WH. Positional distribution of transcription factor binding sites in Arabidopsis thaliana. Scientific Reports. 6: 25164. PMID 27117388 DOI: 10.1038/Srep25164  0.353
2015 Ling S, Hu Z, Yang Z, Yang F, Li Y, Lin P, Chen K, Dong L, Cao L, Tao Y, Hao L, Chen Q, Gong Q, Wu D, Li W, ... ... Li WH, et al. Extremely high genetic diversity in a single tumor points to prevalence of non-Darwinian cell evolution. Proceedings of the National Academy of Sciences of the United States of America. PMID 26561581 DOI: 10.1073/Pnas.1519556112  0.588
2015 Chen SC, Tsai TH, Chung CH, Li WH. Dynamic association rules for gene expression data analysis. Bmc Genomics. 16: 786. PMID 26467206 DOI: 10.1186/S12864-015-1970-X  0.396
2015 Ng CS, Chen CK, Fan WL, Wu P, Wu SM, Chen JJ, Lai YT, Mao CT, Lu MY, Chen DR, Lin ZS, Yang KJ, Sha YA, Tu TC, Chen CF, ... ... Li WH, et al. Transcriptomic analyses of regenerating adult feathers in chicken. Bmc Genomics. 16: 756. PMID 26445093 DOI: 10.1186/S12864-015-1966-6  0.382
2015 Shiao MS, Chang JM, Fan WL, Lu MJ, Notredame C, Fang S, Kondo R, Li WH. Expression divergence of chemosensory genes between Drosophila sechellia and its sibling species and its implications for host shift. Genome Biology and Evolution. PMID 26430061 DOI: 10.1093/Gbe/Evv183  0.38
2015 Cheng F, Liu C, Lin CC, Zhao J, Jia P, Li WH, Zhao Z. A Gene Gravity Model for the Evolution of Cancer Genomes: A Study of 3,000 Cancer Genomes across 9 Cancer Types. Plos Computational Biology. 11: e1004497. PMID 26352260 DOI: 10.1371/Journal.Pcbi.1004497  0.385
2015 Schaefke B, Wang TY, Wang CY, Li WH. Gains and Losses of Transcription Factor Binding Sites in Saccharomyces cerevisiae and S. paradoxus. Genome Biology and Evolution. PMID 26220934 DOI: 10.1093/Gbe/Evv138  0.329
2015 Chang JJ, Thia C, Lin HY, Liu HL, Ho FJ, Wu JT, Shih MC, Li WH, Huang CC. Integrating an algal β-carotene hydroxylase gene into a designed carotenoid-biosynthesis pathway increases carotenoid production in yeast. Bioresource Technology. 184: 2-8. PMID 25537137 DOI: 10.1016/J.Biortech.2014.11.097  0.346
2014 Lu MY, Fan WL, Wang WF, Chen T, Tang YC, Chu FH, Chang TT, Wang SY, Li MY, Chen YH, Lin ZS, Yang KJ, Chen SM, Teng YC, Lin YL, ... ... Li WH, et al. Genomic and transcriptomic analyses of the medicinal fungus Antrodia cinnamomea for its metabolite biosynthesis and sexual development. Proceedings of the National Academy of Sciences of the United States of America. 111: E4743-52. PMID 25336756 DOI: 10.1073/Pnas.1417570111  0.366
2014 Lin JJ, Yu CP, Chang YM, Chen SC, Li WH. Maize and millet transcription factors annotated using comparative genomic and transcriptomic data. Bmc Genomics. 15: 818. PMID 25261191 DOI: 10.1186/1471-2164-15-818  0.433
2014 Ng CS, Wu P, Fan WL, Yan J, Chen CK, Lai YT, Wu SM, Mao CT, Chen JJ, Lu MY, Ho MR, Widelitz RB, Chen CF, Chuong CM, Li WH. Genomic organization, transcriptomic analysis, and functional characterization of avian α- and β-keratins in diverse feather forms. Genome Biology and Evolution. 6: 2258-73. PMID 25152353 DOI: 10.1093/Gbe/Evu181  0.404
2014 Cheng F, Jia P, Wang Q, Lin CC, Li WH, Zhao Z. Studying tumorigenesis through network evolution and somatic mutational perturbations in the cancer interactome. Molecular Biology and Evolution. 31: 2156-69. PMID 24881052 DOI: 10.1093/Molbev/Msu167  0.368
2014 Lin Z, Li WH. Comparative genomics and evolutionary genetics of yeast carbon metabolism Molecular Mechanisms in Yeast Carbon Metabolism. 97-120. DOI: 10.1007/978-3-642-55013-3_5  0.644
2013 Wang TY, Huang CJ, Chen HL, Ho PC, Ke HM, Cho HY, Ruan SK, Hung KY, Wang IL, Cai YW, Sung HM, Li WH, Shih MC. Systematic screening of glycosylation- and trafficking-associated gene knockouts in Saccharomyces cerevisiae identifies mutants with improved heterologous exocellulase activity and host secretion. Bmc Biotechnology. 13: 71. PMID 24004614 DOI: 10.1186/1472-6750-13-71  0.356
2013 Fan WL, Ng CS, Chen CF, Lu MY, Chen YH, Liu CJ, Wu SM, Chen CK, Chen JJ, Mao CT, Lai YT, Lo WS, Chang WH, Li WH. Genome-wide patterns of genetic variation in two domestic chickens. Genome Biology and Evolution. 5: 1376-92. PMID 23814129 DOI: 10.1093/Gbe/Evt097  0.404
2013 Schaefke B, Emerson JJ, Wang TY, Lu MY, Hsieh LC, Li WH. Inheritance of gene expression level and selective constraints on trans- and cis-regulatory changes in yeast. Molecular Biology and Evolution. 30: 2121-33. PMID 23793114 DOI: 10.1093/Molbev/Mst114  0.649
2013 Lin Z, Wang TY, Tsai BS, Wu FT, Yu FJ, Tseng YJ, Sung HM, Li WH. Identifying cis-regulatory changes involved in the evolution of aerobic fermentation in yeasts. Genome Biology and Evolution. 5: 1065-78. PMID 23650209 DOI: 10.1093/Gbe/Evt067  0.706
2013 Ha M, Hong S, Li WH. Predicting the probability of H3K4me3 occupation at a base pair from the genome sequence context. Bioinformatics (Oxford, England). 29: 1199-205. PMID 23511541 DOI: 10.1093/Bioinformatics/Btt126  0.374
2013 Chang JJ, Ho FJ, Ho CY, Wu YC, Hou YH, Huang CC, Shih MC, Li WH. Assembling a cellulase cocktail and a cellodextrin transporter into a yeast host for CBP ethanol production. Biotechnology For Biofuels. 6: 19. PMID 23374631 DOI: 10.1186/1754-6834-6-19  0.374
2013 Chang YM, Chang CL, Li WH, Shih AC. Historical profiling of maize duplicate genes sheds light on the evolution of C4 photosynthesis in grasses. Molecular Phylogenetics and Evolution. 66: 453-62. PMID 22960144 DOI: 10.1016/J.Ympev.2012.08.009  0.391
2013 Shiao MS, Fan WL, Fang S, Lu MYJ, Kondo R, Li WH. Transcriptional profiling of adult drosophila antennae by high-throughput sequencing Zoological Studies. 52. DOI: 10.1186/1810-522X-52-42  0.376
2012 Woo YH, Li WH. DNA replication timing and selection shape the landscape of nucleotide variation in cancer genomes. Nature Communications. 3: 1004. PMID 22893128 DOI: 10.1038/Ncomms1982  0.352
2012 Chang JJ, Ho CY, Ho FJ, Tsai TY, Ke HM, Wang CH, Chen HL, Shih MC, Huang CC, Li WH. PGASO: A synthetic biology tool for engineering a cellulolytic yeast. Biotechnology For Biofuels. 5: 53. PMID 22839502 DOI: 10.1186/1754-6834-5-53  0.352
2012 Ng CS, Wu P, Foley J, Foley A, McDonald ML, Juan WT, Huang CJ, Lai YT, Lo WS, Chen CF, Leal SM, Zhang H, Widelitz RB, Patel PI, Li WH, et al. The chicken frizzle feather is due to an α-keratin (KRT75) mutation that causes a defective rachis. Plos Genetics. 8: e1002748. PMID 22829773 DOI: 10.1371/Journal.Pgen.1002748  0.315
2012 Chang YM, Liu WY, Shih AC, Shen MN, Lu CH, Lu MY, Yang HW, Wang TY, Chen SC, Chen SM, Li WH, Ku MS. Characterizing regulatory and functional differentiation between maize mesophyll and bundle sheath cells by transcriptomic analysis. Plant Physiology. 160: 165-77. PMID 22829318 DOI: 10.1104/Pp.112.203810  0.367
2012 Shiao MS, Chang AY, Liao BY, Ching YH, Lu MY, Chen SM, Li WH. Transcriptomes of mouse olfactory epithelium reveal sexual differences in odorant detection. Genome Biology and Evolution. 4: 703-12. PMID 22511034 DOI: 10.1093/Gbe/Evs039  0.374
2012 Rest JS, Bullaughey K, Morris GP, Li WH. Contribution of transcription factor binding site motif variants to condition-specific gene expression patterns in budding yeast. Plos One. 7: e32274. PMID 22384202 DOI: 10.1371/Journal.Pone.0032274  0.779
2012 Woo YH, Li WH. Evolutionary conservation of histone modifications in mammals. Molecular Biology and Evolution. 29: 1757-67. PMID 22319170 DOI: 10.1093/Molbev/Mss022  0.306
2012 Lin Z, Li WH. Evolution of 5' untranslated region length and gene expression reprogramming in yeasts. Molecular Biology and Evolution. 29: 81-9. PMID 21965341 DOI: 10.1093/Molbev/Msr143  0.727
2012 Ho CY, Chang JJ, Lee SC, Chin TY, Shih MC, Li WH, Huang CC. Development of cellulosic ethanol production process via co-culturing of artificial cellulosomal Bacillus and kefir yeast Applied Energy. 100: 27-32. DOI: 10.1016/J.Apenergy.2012.03.016  0.373
2011 Nikaido M, Sasaki T, Emerson JJ, Aibara M, Mzighani SI, Budeba YL, Ngatunga BP, Iwata M, Abe Y, Li WH, Okada N. Genetically distinct coelacanth population off the northern Tanzanian coast. Proceedings of the National Academy of Sciences of the United States of America. 108: 18009-13. PMID 22025696 DOI: 10.1073/Pnas.1115675108  0.628
2011 Woo YH, Li WH. Gene clustering pattern, promoter architecture, and gene expression stability in eukaryotic genomes. Proceedings of the National Academy of Sciences of the United States of America. 108: 3306-11. PMID 21300882 DOI: 10.1073/Pnas.1100210108  0.411
2011 Lin Z, Li WH. The evolution of aerobic fermentation in Schizosaccharomyces pombe was associated with regulatory reprogramming but not nucleosome reorganization. Molecular Biology and Evolution. 28: 1407-13. PMID 21127171 DOI: 10.1093/Molbev/Msq324  0.73
2011 Hanada K, Sawada Y, Kuromori T, Klausnitzer R, Saito K, Toyoda T, Shinozaki K, Li WH, Hirai MY. Functional compensation of primary and secondary metabolites by duplicate genes in Arabidopsis thaliana. Molecular Biology and Evolution. 28: 377-82. PMID 20736450 DOI: 10.1093/Molbev/Msq204  0.397
2011 Lin Z, Li WH. Expansion of hexose transporter genes was associated with the evolution of aerobic fermentation in yeasts. Molecular Biology and Evolution. 28: 131-42. PMID 20660490 DOI: 10.1093/Molbev/Msq184  0.715
2010 Lin Z, Wu WS, Liang H, Woo Y, Li WH. The spatial distribution of cis regulatory elements in yeast promoters and its implications for transcriptional regulation. Bmc Genomics. 11: 581. PMID 20958978 DOI: 10.1186/1471-2164-11-581  0.701
2010 Emerson JJ, Li WH. The genetic basis of evolutionary change in gene expression levels. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 365: 2581-90. PMID 20643748 DOI: 10.1098/Rstb.2010.0005  0.653
2010 Tang T, Kumar S, Shen Y, Lu J, Wu ML, Shi S, Li WH, Wu CI. Adverse interactions between micro-RNAs and target genes from different species. Proceedings of the National Academy of Sciences of the United States of America. 107: 12935-40. PMID 20615957 DOI: 10.1073/Pnas.1007591107  0.489
2010 Emerson JJ, Hsieh LC, Sung HM, Wang TY, Huang CJ, Lu HH, Lu MY, Wu SH, Li WH. Natural selection on cis and trans regulation in yeasts. Genome Research. 20: 826-36. PMID 20445163 DOI: 10.1101/Gr.101576.109  0.626
2010 Chen FC, Chen CJ, Li WH, Chuang TJ. Gene family size conservation is a good indicator of evolutionary rates. Molecular Biology and Evolution. 27: 1750-8. PMID 20194423 DOI: 10.7490/F1000Research.235.1  0.388
2009 Hanada K, Kuromori T, Myouga F, Toyoda T, Li WH, Shinozaki K. Evolutionary persistence of functional compensation by duplicate genes in Arabidopsis. Genome Biology and Evolution. 1: 409-14. PMID 20333209 DOI: 10.1093/Gbe/Evp043  0.44
2009 Sung HM, Wang TY, Wang D, Huang YS, Wu JP, Tsai HK, Tzeng J, Huang CJ, Lee YC, Yang P, Hsu J, Chang T, Cho CY, Weng LC, Lee TC, ... ... Li WH, et al. Roles of trans and cis variation in yeast intraspecies evolution of gene expression. Molecular Biology and Evolution. 26: 2533-8. PMID 19648464 DOI: 10.1093/Molbev/Msp171  0.316
2009 Kuo MW, Wang SH, Chang JC, Chang CH, Huang LJ, Lin HH, Yu AL, Li WH, Yu J. A novel puf-A gene predicted from evolutionary analysis is involved in the development of eyes and primordial germ-cells. Plos One. 4: e4980. PMID 19319195 DOI: 10.1371/Journal.Pone.0004980  0.382
2009 Bradley ME, Rest JS, Li WH, Schwartz NB. Sulfate activation enzymes: phylogeny and association with pyrophosphatase. Journal of Molecular Evolution. 68: 1-13. PMID 19067028 DOI: 10.1007/S00239-008-9181-6  0.711
2009 Tiwary B, Tiwary BK, Li WH. Parallel evolution between aromatase and androgen receptor in the animal kingdom. Molecular Biology and Evolution. 26: 123-9. PMID 18936441 DOI: 10.1093/Molbev/Msn233  0.304
2008 Wu WS, Li WH, Chen BS. Reconstructing a network of stress-response regulators via dynamic system modeling of gene regulation. Gene Regulation and Systems Biology. 2: 53-62. PMID 19787074  0.414
2008 Wu WS, Li WH. Systematic identification of yeast cell cycle transcription factors using multiple data sources. Bmc Bioinformatics. 9: 522. PMID 19061501 DOI: 10.1186/1471-2105-9-522  0.47
2008 Zhang X, Byrnes JK, Gal TS, Li WH, Borevitz JO. Whole genome transcriptome polymorphisms in Arabidopsis thaliana. Genome Biology. 9: R165. PMID 19025653 DOI: 10.1186/Gb-2008-9-11-R165  0.746
2008 Wu WS, Li WH. Identifying gene regulatory modules of heat shock response in yeast. Bmc Genomics. 9: 439. PMID 18811975 DOI: 10.1186/1471-2164-9-439  0.458
2008 Sanna CR, Li WH, Zhang L. Overlapping genes in the human and mouse genomes. Bmc Genomics. 9: 169. PMID 18410680 DOI: 10.1186/1471-2164-9-169  0.47
2008 Zhang C, Li WH, Krainer AR, Zhang MQ. RNA landscape of evolution for optimal exon and intron discrimination. Proceedings of the National Academy of Sciences of the United States of America. 105: 5797-802. PMID 18391195 DOI: 10.1073/Pnas.0801692105  0.366
2008 Chen CY, Tsai HK, Hsu CM, May Chen MJ, Hung HG, Huang GT, Li WH. Discovering gapped binding sites of yeast transcription factors. Proceedings of the National Academy of Sciences of the United States of America. 105: 2527-32. PMID 18272477 DOI: 10.1073/Pnas.0712188105  0.327
2008 Prachumwat A, Li WH. Gene number expansion and contraction in vertebrate genomes with respect to invertebrate genomes. Genome Research. 18: 221-32. PMID 18083775 DOI: 10.1101/Gr.7046608  0.791
2007 Chen BS, Wu WS, Wu WS, Li WH. On the adaptive design rules of biochemical networks in evolution. Evolutionary Bioinformatics Online. 3: 27-39. PMID 19430602  0.398
2007 Lin LH, Lee HC, Li WH, Chen BS. A systematic approach to detecting transcription factors in response to environmental stresses. Bmc Bioinformatics. 8: 473. PMID 18067669 DOI: 10.1186/1471-2105-8-473  0.323
2007 Lin YC, Hsieh LC, Kuo MW, Yu J, Kuo HH, Lo WL, Lin RJ, Yu AL, Li WH. Human TRIM71 and its nematode homologue are targets of let-7 microRNA and its zebrafish orthologue is essential for development. Molecular Biology and Evolution. 24: 2525-34. PMID 17890240 DOI: 10.1093/Molbev/Msm195  0.304
2007 Jiang C, Han L, Su B, Li WH, Zhao Z. Features and trend of loss of promoter-associated CpG islands in the human and mouse genomes. Molecular Biology and Evolution. 24: 1991-2000. PMID 17591602 DOI: 10.1093/Molbev/Msm128  0.339
2007 Wu WS, Li WH, Chen BS. Identifying regulatory targets of cell cycle transcription factors using gene expression and ChIP-chip data. Bmc Bioinformatics. 8: 188. PMID 17559637 DOI: 10.1186/1471-2105-8-188  0.481
2007 Tsai HK, Chou MY, Shih CH, Huang GT, Chang TH, Li WH. MYBS: a comprehensive web server for mining transcription factor binding sites in yeast. Nucleic Acids Research. 35: W221-6. PMID 17537814 DOI: 10.1093/Nar/Gkm379  0.334
2007 Liang H, Li WH. Gene essentiality, gene duplicability and protein connectivity in human and mouse. Trends in Genetics : Tig. 23: 375-8. PMID 17512629 DOI: 10.1016/j.tig.2007.04.005  0.323
2007 Chen CC, Li WH, Sung HM. Patterns of internal gene duplication in the course of metazoan evolution. Gene. 396: 59-65. PMID 17442504 DOI: 10.1016/j.gene.2007.02.021  0.306
2007 Ha M, Li WH, Chen ZJ. External factors accelerate expression divergence between duplicate genes. Trends in Genetics : Tig. 23: 162-6. PMID 17320239 DOI: 10.1016/J.Tig.2007.02.005  0.407
2007 Lin YS, Hsu WL, Hwang JK, Li WH. Proportion of solvent-exposed amino acids in a protein and rate of protein evolution. Molecular Biology and Evolution. 24: 1005-11. PMID 17264066 DOI: 10.1093/Molbev/Msm019  0.327
2007 Chen FC, Chen CJ, Li WH, Chuang TJ. Human-specific insertions and deletions inferred from mammalian genome sequences. Genome Research. 17: 16-22. PMID 17095709 DOI: 10.1101/Gr.5429606  0.426
2007 Lin YS, Hwang JK, Li WH. Protein complexity, gene duplicability and gene dispensability in the yeast genome. Gene. 387: 109-17. PMID 17049186 DOI: 10.1016/J.Gene.2006.08.022  0.42
2006 Saunders MA, Good JM, Lawrence EC, Ferrell RE, Li WH, Nachman MW. Human adaptive evolution at Myostatin (GDF8), a regulator of muscle growth. American Journal of Human Genetics. 79: 1089-97. PMID 17186467 DOI: 10.1086/509707  0.312
2006 Kim J, Shiu SH, Thoma S, Li WH, Patterson SE. Patterns of expansion and expression divergence in the plant polygalacturonase gene family. Genome Biology. 7: R87. PMID 17010199 DOI: 10.1186/Gb-2006-7-9-R87  0.362
2006 Wu WS, Li WH, Chen BS. Computational reconstruction of transcriptional regulatory modules of the yeast cell cycle. Bmc Bioinformatics. 7: 421. PMID 17010188 DOI: 10.1186/1471-2105-7-421  0.515
2006 Gu J, Li WH. Are GC-rich isochores vanishing in mammals? Gene. 385: 50-6. PMID 16987615 DOI: 10.1016/J.Gene.2006.03.026  0.453
2006 Lin YS, Byrnes JK, Hwang JK, Li WH. Codon-usage bias versus gene conversion in the evolution of yeast duplicate genes. Proceedings of the National Academy of Sciences of the United States of America. 103: 14412-6. PMID 16971485 DOI: 10.1073/Pnas.0606348103  0.788
2006 Byrnes JK, Morris GP, Li WH. Reorganization of adjacent gene relationships in yeast genomes by whole-genome duplication and gene deletion. Molecular Biology and Evolution. 23: 1136-43. PMID 16527865 DOI: 10.1093/Molbev/Msj121  0.816
2006 Shiu SH, Byrnes JK, Pan R, Zhang P, Li WH. Role of positive selection in the retention of duplicate genes in mammalian genomes. Proceedings of the National Academy of Sciences of the United States of America. 103: 2232-6. PMID 16461903 DOI: 10.1073/Pnas.0510388103  0.786
2006 Prachumwat A, Li WH. Protein function, connectivity, and duplicability in yeast. Molecular Biology and Evolution. 23: 30-9. PMID 16120800 DOI: 10.1093/Molbev/Msi249  0.744
2005 Chen FC, Wang SS, Chen CJ, Li WH, Chuang TJ. Alternatively and constitutively spliced exons are subject to different evolutionary forces. Molecular Biology and Evolution. 23: 675-82. PMID 16368777 DOI: 10.1093/Molbev/Msj081  0.346
2005 Lin LH, Lee HC, Li WH, Chen BS. Dynamic modeling of cis-regulatory circuits and gene expression prediction via cross-gene identification. Bmc Bioinformatics. 6: 258. PMID 16232312 DOI: 10.1186/1471-2105-6-258  0.332
2005 Tan Y, Yoder AD, Yamashita N, Li WH. Evidence from opsin genes rejects nocturnality in ancestral primates. Proceedings of the National Academy of Sciences of the United States of America. 102: 14712-6. PMID 16192351 DOI: 10.1073/Pnas.0507042102  0.439
2005 Shiu SH, Shih MC, Li WH. Transcription factor families have much higher expansion rates in plants than in animals. Plant Physiology. 139: 18-26. PMID 16166257 DOI: 10.1104/Pp.105.065110  0.325
2005 Li WH, Yang J, Gu X. Expression divergence between duplicate genes. Trends in Genetics : Tig. 21: 602-7. PMID 16140417 DOI: 10.1016/J.Tig.2005.08.006  0.482
2005 Li WH, Saunders MA. News and views: the chimpanzee and us. Nature. 437: 50-1. PMID 16136126 DOI: 10.1038/437050A  0.338
2005 Zhang L, Li WH. Human SNPs reveal no evidence of frequent positive selection. Molecular Biology and Evolution. 22: 2504-7. PMID 16107590 DOI: 10.1093/Molbev/Msi240  0.381
2005 Yang J, Su AI, Li WH. Gene expression evolves faster in narrowly than in broadly expressed mammalian genes. Molecular Biology and Evolution. 22: 2113-8. PMID 15987875 DOI: 10.1093/Molbev/Msi206  0.375
2005 Chen BS, Wang YC, Wu WS, Li WH. A new measure of the robustness of biochemical networks. Bioinformatics (Oxford, England). 21: 2698-705. PMID 15731208 DOI: 10.1093/Bioinformatics/Bti348  0.437
2005 Yi S, Li WH. Molecular evolution of recombination hotspots and highly recombining pseudoautosomal regions in hominoids. Molecular Biology and Evolution. 22: 1223-30. PMID 15703241 DOI: 10.1093/Molbev/Msi106  0.343
2005 Ponger L, Li WH. Evolutionary diversification of DNA methyltransferases in eukaryotic genomes. Molecular Biology and Evolution. 22: 1119-28. PMID 15689527 DOI: 10.1093/Molbev/Msi098  0.387
2005 Zhang L, Lu HH, Chung WY, Yang J, Li WH. Patterns of segmental duplication in the human genome. Molecular Biology and Evolution. 22: 135-41. PMID 15371527 DOI: 10.1093/Molbev/Msh262  0.333
2005 Oakley TH, Gu Z, Abouheif E, Patel NH, Li WH. Comparative methods for the analysis of gene-expression evolution: an example using yeast functional genomic data. Molecular Biology and Evolution. 22: 40-50. PMID 15356281 DOI: 10.1093/Molbev/Msh257  0.608
2005 Byrnes JK, Li WH. Patterns of gene deletion following genome duplication in yeast 2005 Ieee Computational Systems Bioinformatics Conference, Workshops and Poster Abstracts. 25-26. DOI: 10.1109/CSBW.2005.104  0.759
2004 Qin H, Wu WB, Comeron JM, Kreitman M, Li WH. Intragenic spatial patterns of codon usage bias in prokaryotic and eukaryotic genomes. Genetics. 168: 2245-60. PMID 15611189 DOI: 10.1534/Genetics.104.030866  0.371
2004 Marland E, Prachumwat A, Maltsev N, Gu Z, Li WH. Higher gene duplicabilities for metabolic proteins than for nonmetabolic proteins in yeast and E. coli. Journal of Molecular Evolution. 59: 806-14. PMID 15599512 DOI: 10.1007/S00239-004-0068-X  0.796
2004 Zhang P, Min W, Li WH. Different age distribution patterns of human, nematode, and Arabidopsis duplicate genes. Gene. 342: 263-8. PMID 15527985 DOI: 10.1016/J.Gene.2004.08.001  0.405
2004 Huang SW, Friedman R, Yu N, Yu A, Li WH. How strong is the mutagenicity of recombination in mammals? Molecular Biology and Evolution. 22: 426-31. PMID 15496551 DOI: 10.1093/Molbev/Msi025  0.372
2004 Yang J, Li WH. Developmental constraint on gene duplicability in fruit flies and nematodes. Gene. 340: 237-40. PMID 15475164 DOI: 10.1016/J.Gene.2004.06.057  0.415
2004 Chen TM, Lu CC, Li WH. Prediction of splice sites with dependency graphs and their expanded bayesian networks. Bioinformatics (Oxford, England). 21: 471-82. PMID 15374869 DOI: 10.1093/Bioinformatics/Bti025  0.4
2004 Wang D, Hsieh M, Li WH. A general tendency for conservation of protein length across eukaryotic kingdoms. Molecular Biology and Evolution. 22: 142-7. PMID 15371528 DOI: 10.1093/Molbev/Msh263  0.322
2004 Tzeng YH, Pan R, Li WH. Comparison of three methods for estimating rates of synonymous and nonsynonymous nucleotide substitutions. Molecular Biology and Evolution. 21: 2290-8. PMID 15329386 DOI: 10.1093/Molbev/Msh242  0.314
2004 Gu Z, Rifkin SA, White KP, Li WH. Duplicate genes increase gene expression diversity within and between species. Nature Genetics. 36: 577-9. PMID 15122255 DOI: 10.1038/Ng1355  0.578
2004 Chaw SM, Chang CC, Chen HL, Li WH. Dating the monocot-dicot divergence and the origin of core eudicots using whole chloroplast genomes. Journal of Molecular Evolution. 58: 424-41. PMID 15114421 DOI: 10.1007/S00239-003-2564-9  0.375
2004 Shiu SH, Karlowski WM, Pan R, Tzeng YH, Mayer KF, Li WH. Comparative analysis of the receptor-like kinase family in Arabidopsis and rice. The Plant Cell. 16: 1220-34. PMID 15105442 DOI: 10.1105/Tpc.020834  0.358
2004 Yu N, Jensen-Seaman MI, Chemnick L, Ryder O, Li WH. Nucleotide diversity in gorillas. Genetics. 166: 1375-83. PMID 15082556 DOI: 10.1534/Genetics.166.3.1375  0.746
2004 Chen HC, Lee HC, Lin TY, Li WH, Chen BS. Quantitative characterization of the transcriptional regulatory network in the yeast cell cycle. Bioinformatics (Oxford, England). 20: 1914-27. PMID 15044243 DOI: 10.1093/Bioinformatics/Bth178  0.398
2004 Shiu SH, Li WH. Origins, lineage-specific expansions, and multiple losses of tyrosine kinases in eukaryotes. Molecular Biology and Evolution. 21: 828-40. PMID 14963097 DOI: 10.1093/Molbev/Msh077  0.334
2004 Yi S, Summers TJ, Pearson NM, Li WH. Recombination has little effect on the rate of sequence divergence in pseudoautosomal boundary 1 among humans and great apes. Genome Research. 14: 37-43. PMID 14672979 DOI: 10.1101/Gr.1777204  0.363
2004 Wang D, Oakley T, Mower J, Shimmin LC, Yim S, Honeycutt RL, Tsao H, Li WH. Molecular evolution of bat color vision genes. Molecular Biology and Evolution. 21: 295-302. PMID 14660703 DOI: 10.1093/Molbev/Msh015  0.384
2004 Zhang L, Li WH. Mammalian housekeeping genes evolve more slowly than tissue-specific genes. Molecular Biology and Evolution. 21: 236-9. PMID 14595094 DOI: 10.1093/Molbev/Msh010  0.436
2003 Yang J, Lusk R, Li WH. Organismal complexity, protein complexity, and gene duplicability. Proceedings of the National Academy of Sciences of the United States of America. 100: 15661-5. PMID 14660792 DOI: 10.1073/Pnas.2536672100  0.39
2003 Jensen-Seaman MI, Li WH. Evolution of the hominoid semenogelin genes, the major proteins of ejaculated semen. Journal of Molecular Evolution. 57: 261-70. PMID 14629036 DOI: 10.1007/S00239-003-2474-X  0.749
2003 Lu J, Li WH, Wu CI. Comment on "Chromosomal speciation and molecular divergence-accelerated evolution in rearranged chromosomes". Science (New York, N.Y.). 302: 988; author reply 98. PMID 14605352 DOI: 10.1126/Science.1088277  0.512
2003 Zhang P, Gu Z, Li WH. Different evolutionary patterns between young duplicate genes in the human genome. Genome Biology. 4: R56. PMID 12952535 DOI: 10.1186/Gb-2003-4-9-R56  0.603
2003 Yu N, Jensen-Seaman MI, Chemnick L, Kidd JR, Deinard AS, Ryder O, Kidd KK, Li WH. Low nucleotide diversity in chimpanzees and bonobos. Genetics. 164: 1511-8. PMID 12930756  0.747
2003 John PR, Makova K, Li WH, Jenkins T, Ramsay M. DNA polymorphism and selection at the melanocortin-1 receptor gene in normally pigmented southern African individuals. Annals of the New York Academy of Sciences. 994: 299-306. PMID 12851329 DOI: 10.1111/J.1749-6632.2003.Tb03193.X  0.646
2003 Makova KD, Li WH. Divergence in the spatial pattern of gene expression between human duplicate genes. Genome Research. 13: 1638-45. PMID 12840042 DOI: 10.1101/Gr.1133803  0.661
2003 Li WH, Gu Z, Cavalcanti AR, Nekrutenko A. Detection of gene duplications and block duplications in eukaryotic genomes. Journal of Structural and Functional Genomics. 3: 27-34. PMID 12836682 DOI: 10.1023/A:1022644628861  0.579
2003 Nekrutenko A, Chung WY, Li WH. ETOPE: Evolutionary test of predicted exons. Nucleic Acids Research. 31: 3564-7. PMID 12824366 DOI: 10.1093/Nar/Gkg597  0.318
2003 Shih AC, Li WH. GS-Aligner: a novel tool for aligning genomic sequences using bit-level operations. Molecular Biology and Evolution. 20: 1299-309. PMID 12777500 DOI: 10.1093/Molbev/Msg139  0.345
2003 Yang J, Gu Z, Li WH. Rate of protein evolution versus fitness effect of gene deletion. Molecular Biology and Evolution. 20: 772-4. PMID 12679525 DOI: 10.1093/Molbev/Msg078  0.616
2003 Xia X, Xie Z, Li WH. Effects of GC content and mutational pressure on the lengths of exons and coding sequences. Journal of Molecular Evolution. 56: 362-70. PMID 12612839 DOI: 10.1007/S00239-002-2406-1  0.363
2003 Wolfe KH, Li WH. Molecular evolution meets the genomics revolution. Nature Genetics. 33: 255-65. PMID 12610535 DOI: 10.1038/Ng1088  0.38
2003 Cavalcanti AR, Ferreira R, Gu Z, Li WH. Patterns of gene duplication in Saccharomyces cerevisiae and Caenorhabditis elegans. Journal of Molecular Evolution. 56: 28-37. PMID 12569420 DOI: 10.1007/S00239-002-2377-2  0.562
2003 Gu Z, Steinmetz LM, Gu X, Scharfe C, Davis RW, Li WH. Role of duplicate genes in genetic robustness against null mutations. Nature. 421: 63-6. PMID 12511954 DOI: 10.1038/Nature01198  0.615
2003 Yang YW, Chen Y, Li WH. The influence of adjacent nucleotides on the pattern of nucleotide substitution in mitochondrial introns of angiosperms. Journal of Molecular Evolution. 55: 111-5. PMID 12165848 DOI: 10.1007/S00239-001-2310-0  0.339
2002 Yi S, Ellsworth DL, Li WH. Slow molecular clocks in Old World monkeys, apes, and humans. Molecular Biology and Evolution. 19: 2191-8. PMID 12446810 DOI: 10.1093/Oxfordjournals.Molbev.A004043  0.371
2002 Gu Z, Nicolae D, Lu HH, Li WH. Rapid divergence in expression between duplicate genes inferred from microarray data. Trends in Genetics : Tig. 18: 609-13. PMID 12446139 DOI: 10.1016/S0168-9525(02)02837-8  0.511
2002 Li WH, Yi S, Makova K. Male-driven evolution. Current Opinion in Genetics & Development. 12: 650-6. PMID 12433577 DOI: 10.1016/S0959-437X(02)00354-4  0.571
2002 Kaessmann H, Zöllner S, Nekrutenko A, Li WH. Signatures of domain shuffling in the human genome. Genome Research. 12: 1642-50. PMID 12421750 DOI: 10.1101/Gr.520702  0.304
2002 Sun H, Merugu S, Gu X, Kang YY, Dickinson DP, Callaerts P, Li WH. Identification of essential amino acid changes in paired domain evolution using a novel combination of evolutionary analysis and in vitro and in vivo studies. Molecular Biology and Evolution. 19: 1490-500. PMID 12200477 DOI: 10.1093/Oxfordjournals.Molbev.A004212  0.333
2002 Mu J, Duan J, Makova KD, Joy DA, Huynh CQ, Branch OH, Li WH, Su XZ. Chromosome-wide SNPs reveal an ancient origin for Plasmodium falciparum. Nature. 418: 323-6. PMID 12124624 DOI: 10.1038/Nature00836  0.609
2002 Yang YW, Tai PY, Chen Y, Li WH. A study of the phylogeny of Brassica rapa, B. nigra, Raphanus sativus, and their related genera using noncoding regions of chloroplast DNA. Molecular Phylogenetics and Evolution. 23: 268-75. PMID 12069556 DOI: 10.1016/S1055-7903(02)00026-X  0.385
2002 Cropp S, Boinski S, Li WH. Allelic variation in the squirrel monkey x-linked color vision gene: biogeographical and behavioral correlates. Journal of Molecular Evolution. 54: 734-45. PMID 12029355 DOI: 10.1007/S00239-001-0073-2  0.36
2002 Makova KD, Li WH. Strong male-driven evolution of DNA sequences in humans and apes. Nature. 416: 624-6. PMID 11948348 DOI: 10.1038/416624A  0.599
2002 Gu Z, Cavalcanti A, Chen FC, Bouman P, Li WH. Extent of gene duplication in the genomes of Drosophila, nematode, and yeast. Molecular Biology and Evolution. 19: 256-62. PMID 11861885 DOI: 10.1093/Oxfordjournals.Molbev.A004079  0.596
2002 Nekrutenko A, Makova KD, Li WH. The K(A)/K(S) ratio test for assessing the protein-coding potential of genomic regions: an empirical and simulation study. Genome Research. 12: 198-202. PMID 11779845 DOI: 10.1101/Gr.200901  0.635
2002 Mu J, Duan J, Makova KD, Joy DA, Huynh CQ, Branch OH, Li W, Su X. Erratum: correction: Chromosome-wide SNPs reveal an ancient origin for Plasmodium falciparum Nature. 419: 487-487. DOI: 10.1038/Nature01168  0.579
2001 Nekrutenko A, Li WH. Transposable elements are found in a large number of human protein-coding genes Trends in Genetics. 17: 619-621. PMID 11672845 DOI: 10.1016/S0168-9525(01)02445-3  0.401
2001 Ota S, Li W. NJML+: An Extension of the NJML Method to Handle Protein Sequence Data and Computer Software Implementation Molecular Biology and Evolution. 18: 1983-1992. PMID 11606695 DOI: 10.1093/Oxfordjournals.Molbev.A003740  0.303
2001 Sun H, Dickinson DP, Costello J, Li WH. Isolation of Cladonema Pax-B genes and studies of the DNA-binding properties of cnidarian Pax paired domains. Molecular Biology and Evolution. 18: 1905-18. PMID 11557796 DOI: 10.1093/Oxfordjournals.Molbev.A003731  0.378
2001 Liu JC, Makova KD, Adkins RM, Gibson S, Li WH. Episodic evolution of growth hormone in primates and emergence of the species specificity of human growth hormone receptor. Molecular Biology and Evolution. 18: 945-53. PMID 11371582 DOI: 10.1093/Oxfordjournals.Molbev.A003895  0.644
2001 Li WH, Gu Z, Wang H, Nekrutenko A. Evolutionary analyses of the human genome. Nature. 409: 847-9. PMID 11237007 DOI: 10.1038/35057039  0.579
2001 Chen F, Li W. Genomic Divergences between Humans and Other Hominoids and the Effective Population Size of the Common Ancestor of Humans and Chimpanzees American Journal of Human Genetics. 68: 444-456. PMID 11170892 DOI: 10.1086/318206  0.37
2001 Adkins RM, Nekrutenko A, Li WH. Bushbaby growth hormone is much more similar to nonprimate growth hormones than to rhesus monkey and human growth hormones. Molecular Biology and Evolution. 18: 55-60. PMID 11141192 DOI: 10.1093/Oxfordjournals.Molbev.A003719  0.307
2000 Gu Z, Wang H, Nekrutenko A, Li WH. Densities, length proportions, and other distributional features of repetitive sequences in the human genome estimated from 430 megabases of genomic sequence. Gene. 259: 81-8. PMID 11163965 DOI: 10.1016/S0378-1119(00)00434-0  0.535
2000 Yao Y, Lü X, Luo H, Li W, Zhang Y. Gene admixture in the Silk Road region of China: Evidence from mtDNA and melanocortin 1 receptor polymorphism Genes & Genetic Systems. 75: 173-178. PMID 11126565 DOI: 10.1266/Ggs.75.173  0.362
2000 Nekrutenko A, Li WH. Assessment of compositional heterogeneity within and between eukaryotic genomes Genome Research. 10: 1986-1995. PMID 11116093 DOI: 10.1101/Gr.10.12.1986  0.358
2000 Yu N, Zheng C, Zhang Y, Li W. Molecular systematics of pikas (genus Ochotona) inferred from mitochondrial DNA sequences. Molecular Phylogenetics and Evolution. 16: 85-95. PMID 10877942 DOI: 10.1006/Mpev.2000.0776  0.331
1999 Yang YW, Lai KN, Tai PY, Ma DP, Li WH. Molecular phylogenetic studies of Brassica, rorippa, arabidopsis and allied genera based on the internal transcribed spacer region of 18S-25S rDNA. Molecular Phylogenetics and Evolution. 13: 455-62. PMID 10620403 DOI: 10.1006/Mpev.1999.0648  0.312
1999 Yang YW, Lai KN, Tai PY, Li WH. Rates of nucleotide substitution in angiosperm mitochondrial DNA sequences and dates of divergence between Brassica and other angiosperm lineages. Journal of Molecular Evolution. 48: 597-604. PMID 10198125 DOI: 10.1007/Pl00006502  0.413
1999 Callaerts P, Munoz-Marmol AM, Glardon S, Castillo E, Sun H, Li WH, Gehring WJ, Salo E. Isolation and expression of a Pax-6 gene in the regenerating and intact Planarian Dugesia(G)tigrina. Proceedings of the National Academy of Sciences of the United States of America. 96: 558-63. PMID 9892672 DOI: 10.1073/Pnas.96.2.558  0.382
1998 Hunt DM, Dulai KS, Cowing JA, Julliot C, Mollon JD, Bowmaker JK, Li WH, Hewett-Emmett D. Molecular evolution of trichromacy in primates. Vision Research. 38: 3299-306. PMID 9893841 DOI: 10.1016/S0042-6989(97)00443-4  0.415
1998 Shyue SK, Boissinot S, Schneider H, Sampaio I, Schneider MP, Abee CR, Williams L, Hewett-Emmett D, Sperling HG, Cowing JA, Dulai KS, Hunt DM, Li WH. Molecular genetics of spectral tuning in New World monkey color vision. Journal of Molecular Evolution. 46: 697-702. PMID 9608052 DOI: 10.1007/Pl00006350  0.574
1998 Gu X, Li W. Estimation of evolutionary distances under stationary and nonstationary models of nucleotide substitution Proceedings of the National Academy of Sciences of the United States of America. 95: 5899-5905. PMID 9600890 DOI: 10.1073/Pnas.95.11.5899  0.38
1998 Zhao Z, Hewett-Emmett D, Li WH. Frequent gene conversion between human red and green opsin genes. Journal of Molecular Evolution. 46: 494-6. PMID 9541545 DOI: 10.1007/Pl00013147  0.464
1998 Gu X, Hewett-Emmett D, Li W. Directional mutational pressure affects the amino acid composition and hydrophobicity of proteins in bacteria Genetica. 102: 383-391. DOI: 10.1007/978-94-011-5210-5_31  0.36
1997 Zhou YH, Hewett-Emmett D, Ward JP, Li WH. Unexpected conservation of the X-linked color vision gene in nocturnal prosimians: evidence from two bush babies. Journal of Molecular Evolution. 45: 610-8. PMID 9419238 DOI: 10.1007/Pl00006265  0.403
1997 Sun H, Rodin A, Zhou Y, Dickinson DP, Harper DE, Hewett-Emmett D, Li WH. Evolution of paired domains: isolation and sequencing of jellyfish and hydra Pax genes related to Pax-5 and Pax-6. Proceedings of the National Academy of Sciences of the United States of America. 94: 5156-61. PMID 9144207 DOI: 10.1073/Pnas.94.10.5156  0.406
1997 Shimmin LC, Mai P, Li WH. Sequences and evolution of human and squirrel monkey blue opsin genes. Journal of Molecular Evolution. 44: 378-82. PMID 9089077 DOI: 10.1007/Pl00006157  0.45
1996 Zhou Y, Li W. Gene conversion and natural selection in the evolution of X-linked color vision genes in higher primates. Molecular Biology and Evolution. 13: 780-783. PMID 8754214 DOI: 10.1093/Oxfordjournals.Molbev.A025638  0.465
1996 Li W, Gu X. Estimating evolutionary distances between DNA sequences. Methods in Enzymology. 266: 449-459. PMID 8743699 DOI: 10.1016/S0076-6879(96)66028-5  0.322
1996 Li W, Ellsworth DL, Krushkal J, Chang BH-, Hewett-Emmett D. Rates of Nucleotide Substitution in Primates and Rodents and the Generation–Time Effect Hypothesis Molecular Phylogenetics and Evolution. 5: 182-187. PMID 8673286 DOI: 10.1006/Mpev.1996.0012  0.347
1996 Nakamuta M, Chang BH, Hoogeveen R, Li W, Chan L. Mouse microsomal triglyceride transfer protein large subunit: cDNA cloning, tissue-specific expression, and chromosomal localization Genomics. 33: 313-316. PMID 8660984 DOI: 10.1006/Geno.1996.0200  0.361
1996 Gu X, Li W. A general additive distance with time-reversibility and rate variation among nucleotide sites Proceedings of the National Academy of Sciences of the United States of America. 93: 4671-4676. PMID 8643462 DOI: 10.1073/Pnas.93.10.4671  0.305
1995 Shimmin LC, Chang BH, Li WH. Contrasting rates of nucleotide substitution in the X-linked and Y-linked zinc finger genes. Journal of Molecular Evolution. 39: 569-78. PMID 7807546 DOI: 10.1007/Bf00160402  0.438
1995 Nakamuta M, Oka K, Krushkal J, Kobayashi K, Yamamoto M, Li W, Chan L. Alternative mRNA Splicing and Differential Promoter Utilization Determine Tissue-specific Expression of the Apolipoprotein B mRNA-editing Protein (Apobec1) Gene in Mice. STRUCTURE AND EVOLUTION OF Apobec1 AND RELATED NUCLEOSIDE/NUCLEOTIDE DEAMINASES Journal of Biological Chemistry. 270: 13042-13056. PMID 7768898 DOI: 10.1074/Jbc.270.22.13042  0.343
1995 Chang BH, Li WH. Estimating the intensity of male-driven evolution in rodents by using X-linked and Y-linked Ube 1 genes and pseudogenes. Journal of Molecular Evolution. 40: 70-7. PMID 7714913 DOI: 10.1007/Bf00166597  0.394
1995 Shyue SK, Hewett-Emmett D, Sperling HG, Hunt DM, Bowmaker JK, Mollon JD, Li WH. Adaptive evolution of color vision genes in higher primates. Science (New York, N.Y.). 269: 1265-7. PMID 7652574 DOI: 10.1126/Science.7652574  0.383
1995 Li W, Gu X. Statistical models for studying DNA sequence evolution Physica a: Statistical Mechanics and Its Applications. 221: 159-167. DOI: 10.1016/0378-4371(95)00235-Y  0.326
1994 Shyue SK, Li L, Chang BH, Li WH. Intronic gene conversion in the evolution of human X-linked color vision genes. Molecular Biology and Evolution. 11: 548-51. PMID 8015447 DOI: 10.1093/Oxfordjournals.Molbev.A040134  0.456
1994 Oka K, Ishimura-Oka K, Chu M, Sullivan M, Krushkal J, Li W, Chan L. Mouse very-low-density-lipoprotein receptor(VLDLR) cDNA cloning tissue-specific expression and evolutionary relationship with the low-density-lipoprotein receptor Febs Journal. 224: 975-982. PMID 7925422 DOI: 10.1111/J.1432-1033.1994.00975.X  0.315
1993 Shimmin LC, Chang BH, Li WH. Male-driven evolution of DNA sequences. Nature. 362: 745-7. PMID 8469284 DOI: 10.1038/362745A0  0.384
1993 Li WH. Unbiased estimation of the rates of synonymous and nonsynonymous substitution. Journal of Molecular Evolution. 36: 96-9. PMID 8433381 DOI: 10.1007/Bf02407308  0.321
1993 Shimmin LC, Chang BH, Hewett-Emmett D, Li WH. Potential problems in estimating the male-to-female mutation rate ratio from DNA sequence data. Journal of Molecular Evolution. 37: 160-6. PMID 8411204 DOI: 10.1007/Bf02407351  0.38
1993 Li W. So, what about the molecular clock hypothesis? Current Opinion in Genetics & Development. 3: 896-901. PMID 8118215 DOI: 10.1016/0959-437X(93)90011-D  0.322
1993 Ellsworth DL, Hewett-Emmett D, Li W. Insulin-like Growth Factor II Intron Sequences Support the Hominoid Rate-Slowdown Hypothesis Molecular Phylogenetics and Evolution. 2: 315-321. PMID 8049780 DOI: 10.1006/Mpev.1993.1030  0.378
1993 Zharkikh A, Li W. Inconsistency of the Maximum-parsimony Method: the Case of Five Taxa With a Molecular Clock Systematic Biology. 42: 113-125. DOI: 10.1093/Sysbio/42.2.113  0.317
1992 Seino S, Bell GI, Li W. Sequences of primate insulin genes support the hypothesis of a slower rate of molecular evolution in humans and apes than in monkeys. Molecular Biology and Evolution. 9: 193-203. PMID 1560757 DOI: 10.1093/Oxfordjournals.Molbev.A040713  0.381
1992 O'hUigin C, Li W. The molecular clock ticks regularly in muroid rodents and hamsters. Journal of Molecular Evolution. 35: 377-384. PMID 1487823 DOI: 10.1007/Bf00171816  0.318
1992 Zharkikh A, Li W. Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences. I. Four taxa with a molecular clock. Molecular Biology and Evolution. 9: 1119-1147. PMID 1435238 DOI: 10.1093/Oxfordjournals.Molbev.A040782  0.329
1992 Zharkikh A, Li W. Statistical properties of bootstrap estimation of phylogenetic variability from nucleotide sequences: II. Four taxa without a molecular clock. Journal of Molecular Evolution. 35: 356-366. PMID 1404421 DOI: 10.1007/Bf00161173  0.329
1992 Gu X, Li W. Higher rates of amino acid substitution in rodents than in humans. Molecular Phylogenetics and Evolution. 1: 211-214. PMID 1342937 DOI: 10.1016/1055-7903(92)90017-B  0.331
1991 Graur D, Hide WA, Li WH. Is the guinea-pig a rodent? Nature. 351: 649-52. PMID 2052090 DOI: 10.1038/351649A0  0.599
1991 Graur D, Li WH. Neutral mutation hypothesis test [10] Nature. 354: 114-115. PMID 1944591 DOI: 10.1038/354114E0  0.533
1991 Yang YW, Chan L, Li WH. Cloning and sequencing of bovine apolipoprotein E complementary DNA and molecular evolution of apolipoproteins E, C-I, and C-II. Journal of Molecular Evolution. 32: 469-75. PMID 1908018 DOI: 10.1007/Bf02102649  0.311
1990 Hiraoka BY, Sharief FS, Yang Y, Li W, Li SS-. The cDNA and protein sequences of mouse lactate dehydrogenase B. Molecular evolution of vertebrate lactate dehydrogenase genes A (muscle), B (heart) and C (testis). Febs Journal. 189: 215-220. PMID 2338075 DOI: 10.1111/J.1432-1033.1990.Tb15479.X  0.409
1990 Li WH, Gouy M. Statistical tests of molecular phylogenies. Methods in Enzymology. 183: 645-59. PMID 2314297 DOI: 10.1016/0076-6879(90)83042-8  0.583
1990 O'huigin C, Chan L, Li W. Cloning and sequencing of bovine apolipoprotein A-I cDNA and molecular evolution of apolipoproteins A-I and B-100. Molecular Biology and Evolution. 7: 327-339. PMID 2117227 DOI: 10.1093/Oxfordjournals.Molbev.A040608  0.388
1990 Gouy M, Li W. Archaebacterial or eocyte tree Nature. 343: 419-419. DOI: 10.1038/343419A0  0.54
1989 Wolfe KH, Sharp PM, Li WH. Mutation rates differ among regions of the mammalian genome. Nature. 337: 283-5. PMID 2911369 DOI: 10.1038/337283A0  0.437
1989 Wolfe KH, Gouy M, Yang YW, Sharp PM, Li WH. Date of the monocot-dicot divergence estimated from chloroplast DNA sequence data. Proceedings of the National Academy of Sciences of the United States of America. 86: 6201-5. PMID 2762323 DOI: 10.1073/Pnas.86.16.6201  0.631
1989 Sharp PM, Shields DC, Wolfe KH, Li WH. Chromosomal location and evolutionary rate variation in enterobacterial genes. Science (New York, N.Y.). 246: 808-10. PMID 2683084 DOI: 10.1126/Science.2683084  0.46
1989 Li W. A statistical test of phylogenies estimated from sequence data. Molecular Biology and Evolution. 6: 424-435. PMID 2615641 DOI: 10.1093/Oxfordjournals.Molbev.A040560  0.308
1989 Sharp PM, Li WH. On the rate of DNA sequence evolution in Drosophila Journal of Molecular Evolution. 28: 398-402. PMID 2501501 DOI: 10.1007/Bf02603075  0.443
1989 Graur D, Shuali Y, Li WH. Deletions in processed pseudogenes accumulate faster in rodents than in humans. Journal of Molecular Evolution. 28: 279-85. PMID 2499684 DOI: 10.1007/Bf02103423  0.589
1989 Gouy M, Li WH. Phylogenetic analysis based on rRNA sequences supports the archaebacterial rather than the eocyte tree. Nature. 339: 145-7. PMID 2497353 DOI: 10.1038/339145A0  0.603
1989 Gouy M, Li WH. Molecular phylogeny of the kingdoms Animalia, Plantae, and Fungi. Molecular Biology and Evolution. 6: 109-22. PMID 2469937 DOI: 10.1093/Oxfordjournals.Molbev.A040536  0.614
1989 Wolfe KH, Sharp PM, Li WH. Rates of synonymous substitution in plant nuclear genes Journal of Molecular Evolution. 29: 208-211. DOI: 10.1007/Bf02100204  0.378
1988 Li WH, Wu CI, Luo CC. A new method for estimating synonymous and nonsynonymous rates of nucleotide substitution considering the relative likelihood of nucleotide and codon changes. Molecular Biology and Evolution. 2: 150-74. PMID 3916709 DOI: 10.1093/Oxfordjournals.Molbev.A040343  0.549
1988 Li WH, Tanimura M, Sharp PM. Rates and dates of divergence between AIDS virus nucleotide sequences Molecular Biology and Evolution. 5: 313-330. PMID 3405075 DOI: 10.1093/Oxfordjournals.Molbev.A040503  0.313
1988 Graur D, Li WH. Evolution of protein inhibitors of serine proteinases: positive Darwinian selection or compositional effects? Journal of Molecular Evolution. 28: 131-5. PMID 3148733 DOI: 10.1007/Bf02143504  0.583
1988 Li WH, Wu CI. Rates of nucleotide substitution are evidently higher in rodents than in man. Molecular Biology and Evolution. 4: 74-82. PMID 3128714 DOI: 10.1093/Oxfordjournals.Molbev.A040423  0.482
1987 Pamilo P, Nei M, Li WH. Accumulation of mutations in sexual and asexual populations Genetical Research. 49: 135-146. PMID 3596234 DOI: 10.1017/S0016672300026938  0.54
1987 Sharp PM, Li WH. The codon adaptation index-a measure of directional synonymous codon usage bias, and its potential applications Nucleic Acids Research. 15: 1281-1295. PMID 3547335 DOI: 10.1093/Nar/15.3.1281  0.408
1987 Wolfe KH, Li WH, Sharp PM. Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast, and nuclear DNAs. Proceedings of the National Academy of Sciences of the United States of America. 84: 9054-8. PMID 3480529 DOI: 10.1073/Pnas.84.24.9054  0.319
1987 Sharp PM, Li WH. The Rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias Molecular Biology and Evolution. 4: 222-230. PMID 3328816 DOI: 10.1093/Oxfordjournals.Molbev.A040443  0.44
1987 Byrnes L, Luo CC, Li WH, Yang CY, Chan L. Chicken apolipoprotein A-I: cDNA sequence, tissue expression and evolution. Biochemical and Biophysical Research Communications. 148: 485-92. PMID 3118875 DOI: 10.1016/0006-291X(87)91137-5  0.308
1987 Li WH, Tanimura M, Sharp PM. An evaluation of the molecular clock hypothesis using mammalian DNA sequences Journal of Molecular Evolution. 25: 330-342. PMID 3118047 DOI: 10.1007/Bf02603118  0.341
1987 Li WH. Models of nearly neutral mutations with particular implications for nonrandom usage of synonymous codons. Journal of Molecular Evolution. 24: 337-45. PMID 3110426 DOI: 10.1007/Bf02134132  0.339
1987 Li WH, Tanimura M. The molecular clock runs more slowly in man than in apes and monkeys. Nature. 326: 93-6. PMID 3102974 DOI: 10.1038/326093A0  0.377
1987 Sharp PM, Li WH. Ubiquitin genes as a paradigm of concerted evolution of tandem repeats Journal of Molecular Evolution. 25: 58-64. PMID 3041010 DOI: 10.1007/Bf02100041  0.469
1987 Li WH. Evolutionary change of restriction sites under unequal rates of nucleotide substitution among the three positions of codons. Journal of Molecular Evolution. 23: 205-10. PMID 3027354 DOI: 10.1007/Bf02115577  0.319
1987 Sharp PM, Li WH. Molecular evolution of ubiquitin genes Trends in Ecology and Evolution. 2: 328-332. DOI: 10.1016/0169-5347(87)90108-X  0.387
1986 Sharp PM, Li WH. Codon usage in regulatory genes in Escherichia coli does not reflect selection for 'rare' codons Nucleic Acids Research. 14: 7737-7749. PMID 3534792 DOI: 10.1093/Nar/14.19.7737  0.445
1986 Fukasawa KM, Li WH, Yagi K, Luo CC, Li SS. Molecular evolution of mammalian lactate dehydrogenase-A genes and pseudogenes: association of a mouse processed pseudogene with a B1 repetitive sequence. Molecular Biology and Evolution. 3: 330-42. PMID 3444409 DOI: 10.1093/Oxfordjournals.Molbev.A040402  0.431
1986 Sharp PM, Li WH. An evolutionary perspective on synonymous codon usage in unicellular organisms Journal of Molecular Evolution. 24: 28-38. PMID 3104616 DOI: 10.1007/Bf02099948  0.434
1986 Luo CC, Li WH, Moore MN, Chan L. Structure and evolution of the apolipoprotein multigene family. Journal of Molecular Biology. 187: 325-40. PMID 3084795 DOI: 10.1016/0022-2836(86)90436-5  0.447
1985 Wu CI, Li WH. Evidence for higher rates of nucleotide substitution in rodents than in man. Proceedings of the National Academy of Sciences of the United States of America. 82: 1741-5. PMID 3856856 DOI: 10.1073/Pnas.82.6.1741  0.571
1984 Lopez LC, Li WH, Frazier ML, Luo CC, Saunders GF. Evolution of glucagon genes Molecular Biology and Evolution. 1: 335-344. PMID 6599970 DOI: 10.1093/Oxfordjournals.Molbev.A040322  0.369
1984 Li W, Wu C, Luo C. Nonrandomness of point mutation as reflected in nucleotide substitutions in pseudogenes and its evolutionary implications Journal of Molecular Evolution. 21: 58-71. PMID 6442359 DOI: 10.1007/Bf02100628  0.511
1982 Gojobori T, Li WH, Graur D. Patterns of nucleotide substitution in pseudogenes and functional genes Journal of Molecular Evolution. 18: 360-369. PMID 7120431 DOI: 10.1007/Bf01733904  0.61
1982 Nei M, Li WH, Tajima F, Narain P. Polymorphism and evolution of the Rh blood groups. Jinrui Idengaku Zasshi. the Japanese Journal of Human Genetics. 26: 263-78. PMID 6808203 DOI: 10.1007/Bf01876357  0.517
1982 Li W, GOJOBORI T, NEI M. Positive selection causes purifying selection (reply) Nature. 295: 630-630. DOI: 10.1038/295630B0  0.48
1981 Li WH, Gojobori T, Nei M. Pseudogenes as a paradigm of neutral evolution. Nature. 292: 237-9. PMID 7254315 DOI: 10.1038/292237A0  0.594
1980 Nei M, Li W. Non-random association between electromorphs and inversion chromosomes in finite populations Genetics Research. 35: 65-83. PMID 7450499 DOI: 10.1017/S001667230001394X  0.482
1979 Nei M, Li W. Mathematical model for studying genetic variation in terms of restriction endonucleases Proceedings of the National Academy of Sciences of the United States of America. 76: 5269-5273. PMID 291943 DOI: 10.1073/Pnas.76.10.5269  0.542
1976 Nei M, Li W. The transient distribution of allele frequencies under mutation pressure. Genetics Research. 28: 205-214. PMID 1026567 DOI: 10.1017/S0016672300016906  0.479
1976 Li W. Growth of deleterious mutant genes in a large population Annals of Human Genetics. 39: 441-445. PMID 952486 DOI: 10.1111/J.1469-1809.1976.Tb00150.X  0.389
1976 Li W. A note on the arrival probability, first arrival time and age of a mutant gene in a finite population. Annals of Human Genetics. 39: 435-439. PMID 952485 DOI: 10.1111/J.1469-1809.1976.Tb00149.X  0.367
1976 Li W. Effect of Migration on Genetic Distance The American Naturalist. 110: 841-847. DOI: 10.1086/283106  0.309
1975 Nei M, Li W. Probability of identical monomorphism in related species. Genetics Research. 26: 31-43. PMID 1218734 DOI: 10.1017/S0016672300015822  0.491
1975 Li W, Nei M. Drift variances of heterozygosity and genetic distance in transient states. Genetics Research. 25: 229-247. PMID 1183809 DOI: 10.1017/S0016672300015664  0.478
1975 Li W. Total number of individuals affected by deleterious mutant genes in a finite population. Annals of Human Genetics. 38: 333-340. PMID 1137347 DOI: 10.1111/J.1469-1809.1975.Tb00618.X  0.314
1974 Li W, Nei M. Stable linkage disequilibrium without epistasis in subdivided populations Theoretical Population Biology. 6: 173-183. PMID 4445973 DOI: 10.1016/0040-5809(74)90022-7  0.507
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