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Zhenglong Gu, Ph.D. - Publications

Affiliations: 
University of Chicago, Chicago, IL 
Area:
Molecular Evolution
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52 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
2019 Yang X, Zhang R, Nakahira K, Gu Z. Mitochondrial DNA Mutation, Diseases, and Nutrient-Regulated Mitophagy. Annual Review of Nutrition. 39: 201-226. PMID 31433742 DOI: 10.1146/Annurev-Nutr-082018-124643  0.343
2019 Guo X, Zhang R, Li Y, Wang Z, Ishchuk OP, Ahmad KM, Wee J, Piskur J, Shapiro JA, Gu Z. Understand the Genomic Diversity and Evolution of Fungal Pathogen Candida glabrata by Genome-wide Analysis of Genetic Variations. Methods (San Diego, Calif.). PMID 31059831 DOI: 10.1016/J.Ymeth.2019.05.002  0.388
2018 Kraja AT, Liu C, Fetterman JL, Graff M, Have CT, Gu C, Yanek LR, Feitosa MF, Arking DE, Chasman DI, Young K, Ligthart S, Hill WD, Weiss S, Luan J, ... ... Gu Z, et al. Associations of Mitochondrial and Nuclear Mitochondrial Variants and Genes with Seven Metabolic Traits. American Journal of Human Genetics. PMID 30595373 DOI: 10.1016/J.Ajhg.2018.12.001  0.414
2018 Wang Z, Sun X, Wee J, Guo X, Gu Z. Novel insights into global translational regulation through Pumilio family RNA-binding protein Puf3p revealed by ribosomal profiling. Current Genetics. PMID 29951697 DOI: 10.1007/S00294-018-0862-4  0.352
2017 Zhang R, Wang Y, Ye K, Picard M, Gu Z. Independent impacts of aging on mitochondrial DNA quantity and quality in humans. Bmc Genomics. 18: 890. PMID 29157198 DOI: 10.1186/S12864-017-4287-0  0.334
2017 Cheng J, Guo X, Cai P, Cheng X, Piskur J, Ma Y, Jiang H, Gu Z. Parallel Evolution of Chromatin Structure Underlying Metabolic Adaptation. Molecular Biology and Evolution. PMID 28961859 DOI: 10.1093/Molbev/Msx220  0.395
2017 Wang J, Zou H, Chen L, Long X, Lan J, Liu W, Ma L, Wang C, Xu X, Ren L, Gu Z, Li N, Hu X, Zhao Y, Zhao Y. Convergent and divergent genetic changes in the genome of Chinese and European pigs. Scientific Reports. 7: 8662. PMID 28819228 DOI: 10.1038/S41598-017-09061-Z  0.369
2016 Hanson MR, Gu Z, Keinan A, Ye K, Germain A, Billing-Ross P. Association of mitochondrial DNA variants with myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) symptoms. Journal of Translational Medicine. 14: 342. PMID 27998272 DOI: 10.1186/S12967-016-1104-5  0.63
2016 Wang Y, Picard M, Gu Z. Genetic Evidence for Elevated Pathogenicity of Mitochondrial DNA Heteroplasmy in Autism Spectrum Disorder. Plos Genetics. 12: e1006391. PMID 27792786 DOI: 10.1371/Journal.Pgen.1006391  0.333
2016 Kothapalli KS, Ye K, Gadgil MS, Carlson SE, O'Brien KO, Zhang JY, Park HG, Ojukwu K, Zou J, Hyon SS, Joshi KS, Gu Z, Keinan A, Brenna JT. Positive Selection on a Regulatory Insertion-Deletion Polymorphism in FADS2 Influences Apparent Endogenous Synthesis of Arachidonic Acid. Molecular Biology and Evolution. PMID 27188529 DOI: 10.1093/Molbev/Msw049  0.619
2016 Sun X, Wang Z, Guo X, Li H, Gu Z. Coordinated Evolution of Transcriptional and Post-Transcriptional Regulation for Mitochondrial Functions in Yeast Strains. Plos One. 11: e0153523. PMID 27077367 DOI: 10.1371/Journal.Pone.0153523  0.412
2016 Billing-Ross P, Germain A, Ye K, Keinan A, Gu Z, Hanson MR. Mitochondrial DNA variants correlate with symptoms in myalgic encephalomyelitis/chronic fatigue syndrome. Journal of Translational Medicine. 14: 19. PMID 26791940 DOI: 10.1186/S12967-016-0771-6  0.625
2015 Wang Z, Sun X, Zhao Y, Guo X, Jiang H, Li H, Gu Z. Evolution of gene regulation during transcription and translation. Genome Biology and Evolution. 7: 1155-67. PMID 25877616 DOI: 10.1093/Gbe/Evv059  0.387
2015 Barker B, Xu L, Gu Z. Dynamic epistasis under varying environmental perturbations. Plos One. 10: e0114911. PMID 25625594 DOI: 10.1371/Journal.Pone.0114911  0.406
2015 Lei R, Ye K, Gu Z, Sun X. Diminishing returns in next-generation sequencing (NGS) transcriptome data. Gene. 557: 82-7. PMID 25497830 DOI: 10.1016/J.Gene.2014.12.013  0.364
2014 Jiang H, Xu L, Wang Z, Keene J, Gu Z. Coordinating expression of RNA binding proteins with their mRNA targets. Scientific Reports. 4: 7175. PMID 25417751 DOI: 10.1038/Srep07175  0.32
2014 Ye K, Lu J, Ma F, Keinan A, Gu Z. Reply to Just et al.: Mitochondrial DNA heteroplasmy could be reliably detected with massively parallel sequencing technologies. Proceedings of the National Academy of Sciences of the United States of America. 111: E4548-50. PMID 25319265 DOI: 10.1073/Pnas.1415171111  0.621
2014 Ye K, Lu J, Ma F, Keinan A, Gu Z. Extensive pathogenicity of mitochondrial heteroplasmy in healthy human individuals. Proceedings of the National Academy of Sciences of the United States of America. 111: 10654-9. PMID 25002485 DOI: 10.1073/Pnas.1403521111  0.648
2014 Ahmad KM, KokoÅ¡ar J, Guo X, Gu Z, Ishchuk OP, PiÅ¡kur J. Genome structure and dynamics of the yeast pathogen Candida glabrata. Fems Yeast Research. 14: 529-35. PMID 24528571 DOI: 10.1111/1567-1364.12145  0.369
2013 Ye K, Lu J, Raj SM, Gu Z. Human expression QTLs are enriched in signals of environmental adaptation. Genome Biology and Evolution. 5: 1689-701. PMID 23960253 DOI: 10.1093/Gbe/Evt124  0.312
2013 Liu X, Jiang H, Gu Z, Roberts JW. High-resolution view of bacteriophage lambda gene expression by ribosome profiling. Proceedings of the National Academy of Sciences of the United States of America. 110: 11928-33. PMID 23812753 DOI: 10.1073/Pnas.1309739110  0.399
2012 Xu L, Barker B, Gu Z. Dynamic epistasis for different alleles of the same gene. Proceedings of the National Academy of Sciences of the United States of America. 109: 10420-5. PMID 22689976 DOI: 10.1073/Pnas.1121507109  0.429
2012 Jiang H, Guo X, Xu L, Gu Z. Rewiring of posttranscriptional RNA regulons: Puf4p in fungi as an example. Molecular Biology and Evolution. 29: 2169-76. PMID 22438588 DOI: 10.1093/Molbev/Mss085  0.413
2011 Ye K, Gu Z. Recent advances in understanding the role of nutrition in human genome evolution. Advances in Nutrition (Bethesda, Md.). 2: 486-96. PMID 22332091 DOI: 10.3945/An.111.001024  0.349
2011 Xu L, Jiang H, Chen H, Gu Z. Genetic architecture of growth traits revealed by global epistatic interactions. Genome Biology and Evolution. 3: 909-14. PMID 21859803 DOI: 10.1093/Gbe/Evr065  0.33
2011 Zou Y, Huang W, Gu Z, Gu X. Predominant gain of promoter TATA box after gene duplication associated with stress responses. Molecular Biology and Evolution. 28: 2893-904. PMID 21515810 DOI: 10.1093/Molbev/Msr116  0.43
2011 Jiang H, Xu L, Gu Z. Growth of novel epistatic interactions by gene duplication. Genome Biology and Evolution. 3: 295-301. PMID 21402864 DOI: 10.1093/Gbe/Evr016  0.421
2010 Nishant KT, Wei W, Mancera E, Argueso JL, Schlattl A, Delhomme N, Ma X, Bustamante CD, Korbel JO, Gu Z, Steinmetz LM, Alani E. The baker's yeast diploid genome is remarkably stable in vegetative growth and meiosis. Plos Genetics. 6: e1001109. PMID 20838597 DOI: 10.1371/Journal.Pgen.1001109  0.33
2010 Jiang H, Guan W, Gu Z. Tinkering evolution of post-transcriptional RNA regulons: puf3p in fungi as an example. Plos Genetics. 6: e1001030. PMID 20661438 DOI: 10.1371/Journal.Pgen.1001030  0.411
2010 Zanders S, Ma X, Roychoudhury A, Hernandez RD, Demogines A, Barker B, Gu Z, Bustamante CD, Alani E. Detection of heterozygous mutations in the genome of mismatch repair defective diploid yeast using a Bayesian approach. Genetics. 186: 493-503. PMID 20660644 DOI: 10.1534/Genetics.110.120105  0.374
2010 Guan W, Jiang H, Guo X, Mancera E, Xu L, Li Y, Steinmetz L, Li Y, Gu Z. Antagonistic changes in sensitivity to antifungal drugs by mutations of an important ABC transporter gene in a fungal pathogen. Plos One. 5: e11309. PMID 20593017 DOI: 10.1371/Journal.Pone.0011309  0.354
2009 Li YD, Liang H, Gu Z, Lin Z, Guan W, Zhou L, Li YQ, Li WH. Detecting positive selection in the budding yeast genome. Journal of Evolutionary Biology. 22: 2430-7. PMID 19878412 DOI: 10.1111/J.1420-9101.2009.01851.X  0.367
2009 Gu Z, Oliver S. Yeasts as models in evolutionary biology. Genome Biology. 10: 304. PMID 19291267 DOI: 10.1186/Gb-2009-10-3-304  0.345
2008 Jiang H, Zhang Y, Sun J, Wang W, Gu Z. Differential selection on gene translation efficiency between the filamentous fungus Ashbya gossypii and yeasts. Bmc Evolutionary Biology. 8: 343. PMID 19111070 DOI: 10.1186/1471-2148-8-343  0.417
2008 Chen H, Xu L, Gu Z. Regulation dynamics of WGD genes during yeast metabolic oscillation. Molecular Biology and Evolution. 25: 2513-6. PMID 18815125 DOI: 10.1093/Molbev/Msn212  0.438
2008 Jiang H, Guan W, Pinney D, Wang W, Gu Z. Relaxation of yeast mitochondrial functions after whole-genome duplication. Genome Research. 18: 1466-71. PMID 18669479 DOI: 10.1101/Gr.074674.107  0.402
2007 Wei W, McCusker JH, Hyman RW, Jones T, Ning Y, Cao Z, Gu Z, Bruno D, Miranda M, Nguyen M, Wilhelmy J, Komp C, Tamse R, Wang X, Jia P, et al. Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789. Proceedings of the National Academy of Sciences of the United States of America. 104: 12825-30. PMID 17652520 DOI: 10.1073/Pnas.0701291104  0.368
2007 Jiang H, Liu D, Gu Z, Wang W. Rapid evolution in a pair of recent duplicate segments of rice. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 308: 50-7. PMID 16838296 DOI: 10.1002/Jez.B.21122  0.404
2005 Maltsev N, Glass EM, Ovchinnikova G, Gu Z. Molecular mechanisms involved in robustness of yeast central metabolism against null mutations. Journal of Biochemistry. 137: 177-87. PMID 15749832 DOI: 10.1093/Jb/Mvi017  0.354
2005 Gu Z, David L, Petrov D, Jones T, Davis RW, Steinmetz LM. Elevated evolutionary rates in the laboratory strain of Saccharomyces cerevisiae. Proceedings of the National Academy of Sciences of the United States of America. 102: 1092-7. PMID 15647350 DOI: 10.1073/Pnas.0409159102  0.351
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  0.596
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  0.74
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  0.564
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  0.577
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  0.575
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  0.595
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  0.561
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  0.612
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  0.562
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  0.581
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  0.565
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  0.512
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