Evolution of primate gene expression

Evolutionary trees from DNA sequences: A maximum likelihood approach.

Felsenstein, J. (1981) · Journal of Molecular Evolution · doi:10.1007/bf01734359 · Cited by 14,571

Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.

Tajima, F. (1989) · Genetics · doi:10.1093/genetics/123.3.585 · Cited by 14,056

Genome sequencing in microfabricated high-density picolitre reactors

Margulies, M., Egholm, M., Altman, W. E., Attiya, S., Bader, J. S., Bemben, L. A., Berka, J., Braverman, M. S., Chen, Y.-J., Chen, Z., et al. (2005) · Nature · doi:10.1038/nature03959 · Cited by 7,693

The Neutral Theory of Molecular Evolution

Kimura, M. (1979) · Scientific American · doi:10.1038/scientificamerican1179-98 · Cited by 7,687

The Neutral Theory of Molecular Evolution

Kimura, M. (1983) · Cambridge University Press eBooks · doi:10.1017/cbo9780511623486 · Cited by 6,300

A haplotype map of the human genome

The International HapMap Consortium (2005) · Nature · doi:10.1038/nature04226 · Cited by 5,858

On the Origin of Species by Means of Natural Selection

Livezey, R. L., & Darwin, C. R. (1953) · The American Midland Naturalist · doi:10.2307/2485224 · Cited by 5,431

The Design and Implementation of FFTW3

Frigo, M., & Johnson, S. G. (2005) · Proceedings of the IEEE · doi:10.1109/jproc.2004.840301 · Cited by 5,086

Statistical tests of neutrality of mutations.

Fu, Y., & Li, W. (1993) · Genetics · doi:10.1093/genetics/133.3.693 · Cited by 4,067

Evolutionary Rate at the Molecular Level

KIMURA, M. (1968) · Nature · doi:10.1038/217624a0 · Cited by 3,747

The evolution of gene expression levels in mammalian organs

Brawand, D., Soumillon, M., Necsulea, A., Julien, P., Csárdi, G., Harrigan, P., Weier, M., Liechti, A., Aximu-Petri, A., Kircher, M., et al. (2011) · Nature · doi:10.1038/nature10532 · Cited by 1,248

Functional and Evolutionary Insights into Human Brain Development through Global Transcriptome Analysis

Johnson, M. B., Kawasawa, Y. I., Mason, C. E., Krsnik, Ž., Coppola, G., Bogdanović, D., Geschwind, D. H., Mane, S. M., State, M. W., & Šestan, N. (2009) · Neuron · doi:10.1016/j.neuron.2009.03.027 · Cited by 603

Conservation and evolution of gene coexpression networks in human and chimpanzee brains

Oldham, M. C., Horvath, S., & Geschwind, D. H. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0605938103 · Cited by 566

Cortical Evolution: Judge the Brain by Its Cover

Geschwind, D. H., & Rakic, P. (2013) · Neuron · doi:10.1016/j.neuron.2013.10.045 · Cited by 519

Comparative studies of gene expression and the evolution of gene regulation

Romero, I. G., Ruvinsky, I., & Gilad, Y. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3229 · Cited by 488

Divergence of human and mouse brain transcriptome highlights Alzheimer disease pathways

Miller, J. A., Horvath, S., & Geschwind, D. H. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0914257107 · Cited by 480

Large-Scale Cellular-Resolution Gene Profiling in Human Neocortex Reveals Species-Specific Molecular Signatures

Zeng, H., Shen, E. H., Hohmann, J. G., Oh, S. W., Bernard, A., Royall, J. J., Glattfelder, K. J., Sunkin, S. M., Morris, J. A., Guillozet-Bongaarts, A. L., et al. (2012) · Cell · doi:10.1016/j.cell.2012.02.052 · Cited by 426

Conservation genetics in transition to conservation genomics

Ouborg, N. J., Pertoldi, C., Loeschcke, V., Bijlsma, R., & Hedrick, P. W. (2010) · Trends in Genetics · doi:10.1016/j.tig.2010.01.001 · Cited by 426

Transcriptional neoteny in the human brain

Somel, M., Franz, H., Zheng, Y., Lorenc, A., Guo, S., Giger, T., Kelso, J. F., Nickel, B., Dannemann, M., Bahn, S., et al. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0900544106 · Cited by 422

Human-Specific NOTCH2NL Genes Expand Cortical Neurogenesis through Delta/Notch Regulation

Suzuki, I. K., Gacquer, D., Van Heurck, R., Kumar, D., Wojno, M., Bilheu, A., Herpoel, A., Lambert, N., Cheron, J., Polleux, F., et al. (2018) · Cell · doi:10.1016/j.cell.2018.03.067 · Cited by 471

Paternal Age Effect Mutations and Selfish Spermatogonial Selection: Causes and Consequences for Human Disease

Goriely, A., & Wilkie, A. O. M. (2012) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2011.12.017 · Cited by 365

Population genomics of marine fishes: identifying adaptive variation in space and time

Nielsen, E. E., Hemmer‐Hansen, J., LARSEN, P. F., & Bekkevold, D. (2009) · Molecular Ecology · doi:10.1111/j.1365-294x.2009.04272.x · Cited by 332

Genome sequencing and comparison of two nonhuman primate animal models, the cynomolgus and Chinese rhesus macaques

Yan, G., Zhang, G., Fang, X., Zhang, Y., Li, C., Ling, F., Cooper, D. N., Li, Q., Li, Y., van Gool, A. J., et al. (2011) · Nature Biotechnology · doi:10.1038/nbt.1992 · Cited by 312

The Evolution of Gene Expression in cis and trans

Signor, S. A., & Nuzhdin, S. V. (2018) · Trends in Genetics · doi:10.1016/j.tig.2018.03.007 · Cited by 307

Constraint and turnover in sex-biased gene expression in the genus Drosophila

Zhang, Y., Sturgill, D. M., Parisi, M. J., Kumar, S., & Oliver, B. (2007) · Nature · doi:10.1038/nature06323 · Cited by 293

Darwinian evolution in the light of genomics

Koonin, E. V. (2008) · Nucleic Acids Research · doi:10.1093/nar/gkp089 · Cited by 264

Gene expression variability across cells and species shapes innate immunity

Hagai, T., Chen, X., Miragaia, R. J., Rostom, R., Gomes, T., Kunowska, N., Henriksson, J., Park, J.-E., Proserpio, V., Donati, G., et al. (2018) · Nature · doi:10.1038/s41586-018-0657-2 · Cited by 220

The new mutation theory of phenotypic evolution

Nei, M. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0703349104 · Cited by 245

Extension of cortical synaptic development distinguishes humans from chimpanzees and macaques

Liu, X., Somel, M., Tang, L., Yan, Z., Jiang, X., Guo, S., Yuan, Y., He, L., Oleksiak, A., Zhang, Y., et al. (2012) · Genome Research · doi:10.1101/gr.127324.111 · Cited by 251

Null mutations in human and mouse orthologs frequently result in different phenotypes

Liao, B.-Y., & Zhang, J. (2008) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0800387105 · Cited by 234

Human brain evolution: transcripts, metabolites and their regulators

Somel, M., Liu, X., & Khaitovich, P. (2013) · Nature reviews. Neuroscience · doi:10.1038/nrn3372 · Cited by 246

Looking for Darwin in all the wrong places: the misguided quest for positive selection at the nucleotide sequence level

Hughes, A. L. (2007) · Heredity · doi:10.1038/sj.hdy.6801031 · Cited by 242

Evolutionary dynamics of coding and non-coding transcriptomes

Necşulea, A., & Kaessmann, H. (2014) · Nature Reviews Genetics · doi:10.1038/nrg3802 · Cited by 234

The Role of Nucleosome Positioning in the Evolution of Gene Regulation

Tsankov, A. M., Thompson, D. A., Socha, A. L., Regev, A., & Rando, O. J. (2010) · PLoS Biology · doi:10.1371/journal.pbio.1000414 · Cited by 223

Activating mutations in FGFR3 and HRAS reveal a shared genetic origin for congenital disorders and testicular tumors

Goriely, A., Hansen, R. M. S., Taylor, I. B., Olesen, I. A., Jacobsen, G. K., McGowan, S. J., Pfeifer, S. P., McVean, G. A. T., Meyts, E. R.-D., & Wilkie, A. O. M. (2009) · Nature Genetics · doi:10.1038/ng.470 · Cited by 205

Application of single nucleotide polymorphisms to non‐model species: a technical review

Garvin, M. R., Saitoh, K., & Gharrett, A. J. (2010) · Molecular Ecology Resources · doi:10.1111/j.1755-0998.2010.02891.x · Cited by 223

Mapping Gene Expression in Two Xenopus Species: Evolutionary Constraints and Developmental Flexibility

Yanai, I., Peshkin, L., Jorgensen, P., & Kirschner, M. W. (2011) · Developmental Cell · doi:10.1016/j.devcel.2011.03.015 · Cited by 204

Transcriptional profiles of supragranular-enriched genes associate with corticocortical network architecture in the human brain

Krienen, F. M., Yeo, B. T. T., Ge, T., Buckner, R. L., & Sherwood, C. C. (2016) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1510903113 · Cited by 190

Conservation of core gene expression in vertebrate tissues

Chan, E. T., Quon, G. T., Chua, G., Babak, T., Trochesset, M., Zirngibl, R. A., Aubin, J., Ratcliffe, M. J., Wilde, A., Brudno, M., et al. (2009) · Journal of Biology · doi:10.1186/jbiol130 · Cited by 190

Comparative Analysis of Gene Regulatory Networks: From Network Reconstruction to Evolution

Thompson, D. A., Regev, A., & Roy, S. (2015) · Annual Review of Cell and Developmental Biology · doi:10.1146/annurev-cellbio-100913-012908 · Cited by 178

Protein abundances are more conserved than mRNA abundances across diverse taxa

Laurent, J. M., Vogel, C., Kwon, T., Craig, S. A., Boutz, D. R., Huse, H. K., Nozue, K., Walia, H., Whiteley, M., Ronald, P. C., et al. (2010) · PROTEOMICS · doi:10.1002/pmic.201000327 · Cited by 156

Distinct longevity mechanisms across and within species and their association with aging

Tyshkovskiy, A., Ma, S., Shindyapina, A. V., Tikhonov, S., Lee, S.-G., Bozaykut, P., Castro, J. P., Seluanov, A., Schork, N. J., Gorbunova, V., et al. (2023) · Cell · doi:10.1016/j.cell.2023.05.002 · Cited by 162

Human uniqueness: genome interactions with environment, behaviour and culture

Varki, A. P., Geschwind, D. H., & Eichler, E. E. (2008) · Nature Reviews Genetics · doi:10.1038/nrg2428 · Cited by 172

Extreme events reveal an alimentary limit on sustained maximal human energy expenditure

Thurber, C., Dugas, L. R., Ocobock, C., Carlson, B., Speakman, J. R., & Pontzer, H. (2019) · Science Advances · doi:10.1126/sciadv.aaw0341 · Cited by 163

Global analysis of alternative splicing differences between humans and chimpanzeesPreprint

Calarco, J. A., Xing, Y., Cáceres, M., Calarco, J. P., Xiao, X. G., Pan, Q., Lee, C. J., Preuss, T. M., & Blencowe, B. J. (2007) · Genes & Development · doi:10.1101/gad.1606907 · Cited by 166

Human-specific genetics: new tools to explore the molecular and cellular basis of human evolution

Pollen, A. A., Kilik, U., Lowe, C. B., & Camp, J. G. (2023) · Nature Reviews Genetics · doi:10.1038/s41576-022-00568-4 · Cited by 165

Adaptive evolution of four microcephaly genes and the evolution of brain size in anthropoid primates

Montgomery, S. H., Capellini, I., Venditti, C., Barton, R. A., & Mundy, N. I. (2011) · Molecular Biology and Evolution · doi:10.1093/molbev/msq237 · Cited by 143

Conserved expression without conserved regulatory sequence: the more things change, the more they stay the same

Weirauch, M. T., & Hughes, T. R. (2010) · Trends in Genetics · doi:10.1016/j.tig.2009.12.002 · Cited by 152

Redundancy and rewiring of genetic networks following genome-wide duplication events

Smet, R. D., & de Peer, Y. V. (2012) · Current Opinion in Plant Biology · doi:10.1016/j.pbi.2012.01.003 · Cited by 152

A comparison of RNA-Seq and high-density exon array for detecting differential gene expression between closely related species

Liu, S., Lin, L., Jiang, P., Wang, D., & Xing, Y. (2011) · Nucleic Acids Research · doi:10.1093/nar/gkq817 · Cited by 146

Comprehensive transcriptome analysis of neocortical layers in humans, chimpanzees and macaques

He, Z., Han, D., Efimova, O., Guijarro, P., Yu, Q., Oleksiak, A., Jiang, S., Anokhin, K. V., Velichkovsky, B. M., Grünewald, S., et al. (2017) · Nature Neuroscience · doi:10.1038/nn.4548 · Cited by 137

Gene Expression Differences Among Primates Are Associated With Changes in a Histone Epigenetic Modification

Cain, C. E., Blekhman, R., Marioni, J. C., & Gilad, Y. (2011) · Genetics · doi:10.1534/genetics.110.126177 · Cited by 140

Genome-wide characterization of transcriptional start sites in humans by integrative transcriptome analysisPreprint

Yamashita, R., Sathira, N. P., Kanai, A., Tanimoto, K., Arauchi, T., Tanaka, Y., Hashimoto, S.-I., Sugano, S., Nakai, K., & Suzuki, Y. (2011) · Genome Research · doi:10.1101/gr.110254.110 · Cited by 136

Modeling Gene Expression Evolution with an Extended Ornstein–Uhlenbeck Process Accounting for Within-Species Variation

Rohlfs, R. V., Harrigan, P., & Nielsen, R. (2013) · Molecular Biology and Evolution · doi:10.1093/molbev/mst190 · Cited by 141

Evolution of the human-specific microRNA miR-941

Hu, H., He, L., Fominykh, K., Zheng, Y., Guo, S., Zhang, X., Taylor, M. S., Tang, L., Li, J., Liu, J., et al. (2012) · Nature Communications · doi:10.1038/ncomms2146 · Cited by 133

MicroRNA Expression and Regulation in Human, Chimpanzee, and Macaque Brains

Hu, H. Y., Guo, S., Xi, J., Yan, Z., Fu, N., Zhang, X., Menzel, C., Liang, H., Yang, H., Zhao, M., et al. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1002327 · Cited by 130

A comparative transcriptional landscape of maize and sorghum obtained by single-molecule sequencingPreprint

Wang, B., Regulski, M., Tseng, E., Olson, A. J., Goodwin, S., McCombie, W. R., & Ware, D. (2018) · Genome Research · doi:10.1101/gr.227462.117 · Cited by 129

Gene pleiotropy constrains gene expression changes in fish adapted to different thermal conditions

Papakostas, S., Vøllestad, L. A., Bruneaux, M., Aykanat, T., Vanoverbeke, J., Ning, M., Primmer, C. R., & Leder, E. H. (2014) · Nature Communications · doi:10.1038/ncomms5071 · Cited by 122

The molecular signature of selection underlying human adaptations

Harris, E. E., & Meyer, D. (2006) · American Journal of Physical Anthropology · doi:10.1002/ajpa.20518 · Cited by 110

Large-scale RNA-Seq Transcriptome Analysis of 4043 Cancers and 548 Normal Tissue Controls across 12 TCGA Cancer Types

Peng, L. J., Bian, X. W., Li, D. K., Xu, C. S., Wang, G., Xia, Q. Y., & Xiong, Q. (2015) · Scientific Reports · doi:10.1038/srep13413 · Cited by 116

Positive selection for elevated gene expression noise in yeast

Zhang, Z., Qian, W., & Zhang, J. (2009) · Molecular Systems Biology · doi:10.1038/msb.2009.58 · Cited by 113

Human brain evolution: From gene discovery to phenotype discovery

Preuss, T. M. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1201894109 · Cited by 114

Functional implications of Neandertal introgression in modern humans

Dannemann, M., Prüfer, K., & Kelso, J. (2017) · Genome biology · doi:10.1186/s13059-017-1181-7 · Cited by 92

Genetic basis of human brain evolution

Vallender, E. J., Mekel-Bobrov, N., & Lahn, B. T. (2008) · Trends in Neurosciences · doi:10.1016/j.tins.2008.08.010 · Cited by 102

Brain and testis: more alike than previously thought?

Matos, B., Publicover, S. J., Castro, L. F. C., Esteves, P. J., & Fardilha, M. (2021) · Open Biology · doi:10.1098/rsob.200322 · Cited by 104

Evolution of Gene Expression in Fire Ants: The Effects of Developmental Stage, Caste, and Species

Ometto, L., Shoemaker, D., Ross, K. G., & Keller, L. (2010) · Molecular Biology and Evolution · doi:10.1093/molbev/msq322 · Cited by 98

Human-specific features of spatial gene expression and regulation in eight brain regionsPreprint

Xu, C., Li, Q., Efimova, O., He, L., Tatsumoto, S., Stepanova, V. V., Oishi, T., Udono, T., Yamaguchi, K., Shigenobu, S., et al. (2018) · Genome Research · doi:10.1101/gr.231357.117 · Cited by 95

Conifer genomics and adaptation: at the crossroads of genetic diversity and genome function

Prunier, J., Verta, J., & MacKay, J. J. (2015) · New Phytologist · doi:10.1111/nph.13565 · Cited by 102

SOME INCONVENIENT TRUTHS ABOUT SEX CHROMOSOME DOSAGE COMPENSATION AND THE POTENTIAL ROLE OF SEXUAL CONFLICT

Mank, J. E., Hosken, D. J., & Wedell, N. (2011) · Evolution · doi:10.1111/j.1558-5646.2011.01316.x · Cited by 91

Detecting signatures of selection on gene expression

Price, P. D., Droguett, D. H. P., Taylor, J. A., Kim, D. W., Place, E., Rogers, T. F., Mank, J. E., Cooney, C. R., & Wright, A. E. (2022) · Nature Ecology & Evolution · doi:10.1038/s41559-022-01761-8 · Cited by 89

Toward a universal microarray: prediction of gene expression through nearest-neighbor probe sequence identification

Royce, T. E., Rozowsky, J. S., & Gerstein, M. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkm549 · Cited by 88

Comparison of Protein and mRNA Expression Evolution in Humans and Chimpanzees

Fu, N., Drinnenberg, I. A., Kelso, J. F., Wu, J., Pääbo, S., Zeng, R., & Khaitovich, P. (2007) · PLoS ONE · doi:10.1371/journal.pone.0000216 · Cited by 88

Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid

Pankey, M. S., Minin, V. N., Imholte, G. C., Suchard, M. A., & Oakley, T. H. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1416574111 · Cited by 87

General hallmarks of microRNAs in brain evolution and development

Chen, W., & Qin, C. (2015) · RNA Biology · doi:10.1080/15476286.2015.1048954 · Cited by 90

The Evolution and Adaptive Potential of Transcriptional Variation in Sticklebacks—Signatures of Selection and Widespread Heritability

Leder, E. H., McCairns, R. J. S., Leinonen, T., Cano, J. M., Viitaniemi, H. M., Nikinmaa, M., Primmer, C. R., & Merilä, J. (2014) · Molecular Biology and Evolution · doi:10.1093/molbev/msu328 · Cited by 85

Rapid evolution of cancer/testis genes on the X chromosome

Stevenson, B. J., Iseli, C., Panji, S., Zahn‐Zabal, M., Hide, W., Old, L. J., Simpson, A. J., & Jongeneel, C. V. (2007) · BMC Genomics · doi:10.1186/1471-2164-8-129 · Cited by 86

Evolutionary principles of modular gene regulation in yeasts

Thompson, D. A., Roy, S., Chan, M., Styczynsky, M. P., Pfiffner, J., French, C., Socha, A., Thielke, A., Napolitano, S., Muller, P., et al. (2013) · eLife · doi:10.7554/elife.00603 · Cited by 78

Divergence of nucleosome positioning between two closely related yeast species: genetic basis and functional consequences

Tirosh, I., Sigal, N., & Barkai, N. (2010) · Molecular Systems Biology · doi:10.1038/msb.2010.20 · Cited by 77

Accelerated evolution of oligodendrocytes in the human brain

Berto, S., Mendizabal, I., Usui, N., Toriumi, K., Chatterjee, P., Douglas, C., Tamminga, C. A., Preuss, T. M., Yi, S. V., & Konopka, G. (2019) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1907982116 · Cited by 78

Co-binding by YY1 identifies the transcriptionally active, highly conserved set of CTCF-bound regions in primate genomes

Schwalie, P. C., Ward, M. C., Cain, C. E., Faure, A. J., Gilad, Y., Odom, D. T., & Flicek, P. (2013) · Genome biology · doi:10.1186/gb-2013-14-12-r148 · Cited by 79

Epigenetic modifications are associated with inter-species gene expression variation in primates

Zhou, X., Cain, C. E., Myrthil, M., Lewellen, N., Michelini, K., Davenport, E., Stephens, M., Pritchard, J. K., & Gilad, Y. (2014) · Genome biology · doi:10.1186/s13059-014-0547-3 · Cited by 76

Global gene expression profiling of healthy human brain and its application in studying neurological disorders

Negi, S., & Guda, C. (2017) · Scientific Reports · doi:10.1038/s41598-017-00952-9 · Cited by 80

Autism Overflows: Increasing Prevalence and Proliferating Theories

Waterhouse, L. H. (2008) · Neuropsychology Review · doi:10.1007/s11065-008-9074-x · Cited by 79

In vitro assays fail to predict in vivo effects of regulatory polymorphisms

Cirulli, E. T., & Goldstein, D. B. (2007) · Human Molecular Genetics · doi:10.1093/hmg/ddm140 · Cited by 75

Genes Expressed in Specific Areas of the Human Fetal Cerebral Cortex Display Distinct Patterns of Evolution

Lambert, N., Lambot, M.-A., Bilheu, A., Albert, V., Englert, Y., Libert, F., Noel, J.-C., Sotiriou, C., Holloway, A. K., Pollard, K. S., et al. (2011) · PLoS ONE · doi:10.1371/journal.pone.0017753 · Cited by 73

Increased growth in sunflower correlates with reduced defences and altered gene expression in response to biotic and abiotic stress

Mayrose, M., Kane, N. C., Mayrose, I., Dlugosch, K. M., & Rieseberg, L. H. (2011) · Molecular Ecology · doi:10.1111/j.1365-294x.2011.05301.x · Cited by 71

Gene expression dynamics during rapid organismal diversification in African cichlid fishes

Taher, A. E., Böhne, A., Boileau, N., Ronco, F., Indermaur, A., Widmer, L., & Salzburger, W. (2020) · Nature Ecology & Evolution · doi:10.1038/s41559-020-01354-3 · Cited by 71

Evolution of Gene Regulation in Humans

Reilly, S. K., & Noonan, J. P. (2016) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-090314-045935 · Cited by 66

Early Origins of Adult Disease: Approaches for Investigating the Programmable Epigenome in Humans, Nonhuman Primates, and Rodents

Ganu, R., Harris, R. A., Collins, K., & Aagaard, K. M. (2012) · ILAR Journal · doi:10.1093/ilar.53.3-4.306 · Cited by 70

Human disease locus discovery and mapping to molecular pathways through phylogenetic profiling

Tabach, Y., Golan, T., Hernández‐Hernández, A., Messer, A. R., Fukuda, T., Kouznetsova, A., Liu, J., Lilienthal, I., Levy, C., & Ruvkun, G. (2013) · Molecular Systems Biology · doi:10.1038/msb.2013.50 · Cited by 63

Local Adaptation at the Transcriptome Level in Brown Trout: Evidence from Early Life History Temperature Genomic Reaction Norms

Meier, K., Hansen, M. M., Normandeau, É., Mensberg, K. D., Frydenberg, J., Larsen, P. F., Bekkevold, D., & Bernatchez, L. (2014) · PLoS ONE · doi:10.1371/journal.pone.0085171 · Cited by 65

Substantial contribution of genetic variation in the expression of transcription factors to phenotypic variation revealed by eRD-GWAS

Lin, H.-Y., Liu, Q., Li, X., Yang, J., Liu, S., Huang, Y., Scanlon, M. J., Nettleton, D. S., & Schnable, P. S. (2017) · Genome biology · doi:10.1186/s13059-017-1328-6 · Cited by 65

Diversification in the genetic architecture of gene expression and transcriptional networks in organ differentiation of Populus

Drost, D. R., Benedict, C. I., Berg, A. S., Novaes, E., Novaes, C. R. D. B., Yu, Q., Dervinis, C., Maia, J. M., Yap, J. S. F., Miles, B. L., et al. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0914709107 · Cited by 63

Predicted overlapping microRNA regulators of acetylcholine packaging and degradation in neuroinflammation-related disorders

Nadorp, B., & Soreq, H. (2014) · Frontiers in Molecular Neuroscience · doi:10.3389/fnmol.2014.00009 · Cited by 64

Positive Selection Underlies Faster-Z Evolution of Gene Expression in Birds

Dean, R., Harrison, P. W., Wright, A. E., Zimmer, F., & Mank, J. E. (2015) · Molecular Biology and Evolution · doi:10.1093/molbev/msv138 · Cited by 65

Natural Variation in Gene Expression Between Wild and Weedy Populations of Helianthus annuus

Lai, Z., Kane, N. C., Zou, Y., & Rieseberg, L. H. (2008) · Genetics · doi:10.1534/genetics.108.091041 · Cited by 63

Chromatin regulators as capacitors of interspecies variations in gene expression

Tirosh, I., Reikhav, S., Sigal, N., Assia, Y., & Barkai, N. (2010) · Molecular Systems Biology · doi:10.1038/msb.2010.84 · Cited by 62

A cis-acting structural variation at the ZNF558 locus controls a gene regulatory network in human brain development

Johansson, P. A., Brattås, P. L., Douse, C. H., Hsieh, P., Adami, A., Pontis, J., Grassi, D. A., Garza, R., Sozzi, E., Cataldo, L. R., et al. (2021) · Cell stem cell · doi:10.1016/j.stem.2021.09.008 · Cited by 64

Differences in transcription levels among wild, domesticated, and hybrid Atlantic salmon (Salmo salar) from two environments

Debes, P. V., Normandeau, É., Fraser, D. J., Bernatchez, L., & Hutchings, J. A. (2012) · Molecular Ecology · doi:10.1111/j.1365-294x.2012.05567.x · Cited by 58

Pervasive Correlated Evolution in Gene Expression Shapes Cell and Tissue Type Transcriptomes

Liang, C., Musser, J. M., Cloutier, A., Prum, R. O., & Wagner, G. P. (2018) · Genome Biology and Evolution · doi:10.1093/gbe/evy016 · Cited by 54

Tissue Specificity and Sex-Specific Regulatory Variation Permit the Evolution of Sex-Biased Gene Expression

Dean, R., & Mank, J. E. (2016) · The American Naturalist · doi:10.1086/687526 · Cited by 62

Tissue-Specific Evolution of Protein Coding Genes in Human and Mouse

Kryuchkova-Mostacci, N., & Robinson‐Rechavi, M. (2015) · PLoS ONE · doi:10.1371/journal.pone.0131673 · Cited by 59

Global Coevolution of Human MicroRNAs and Their Target Genes

Barbash, S., Shifman, S., & Soreq, H. (2014) · Molecular Biology and Evolution · doi:10.1093/molbev/msu090 · Cited by 58

The Archaeological Record Speaks: Bridging Anthropology and Linguistics

Balari, S., Benítez‐Burraco, A., Camps, M., Martínez, V. M. L., Lorenzo, G., & Uriagereka, J. (2011) · International Journal of Evolutionary Biology · doi:10.4061/2011/382679 · Cited by 56

CYP3 phylogenomics: evidence for positive selection of CYP3A4 and CYP3A7

Qiu, H., Taudien, S., Herlyn, H., Schmitz, J., Zhou, Y., Chen, G., Roberto, R., Rocchi, M., Platzer, M., & Wojnowski, L. (2008) · Pharmacogenetics and Genomics · doi:10.1097/fpc.0b013e3282f313f8 · Cited by 53

miRNA regulatory variation in human evolution

Li, J., & Zhang, Z. (2012) · Trends in Genetics · doi:10.1016/j.tig.2012.10.008 · Cited by 52

Evolution of alternative splicing in primate brain transcriptomes

Lin, L., Shen, S., Jiang, P., Sato, S., Davidson, B. L., & Xing, Y. (2010) · Human Molecular Genetics · doi:10.1093/hmg/ddq201 · Cited by 53

Structural divergence between the human and chimpanzee genomes

Kehrer‐Sawatzki, H., & Cooper, D. N. (2006) · Human Genetics · doi:10.1007/s00439-006-0270-6 · Cited by 54

Comparative analysis of the transcriptomes of Populus trichocarpa and Arabidopsis thaliana suggests extensive evolution of gene expression regulation in angiosperms

Quesada, T., Li, Z., Dervinis, C., Li, Y., Bocock, P. N., Tuskan, G. A., Casella, G., Davis, J. M., & Kirst, M. (2008) · New Phytologist · doi:10.1111/j.1469-8137.2008.02586.x · Cited by 52

Assessing the Conservation of Mammalian Gene Expression Using High-Density Exon Arrays

Xing, Y., Ouyang, Z., Kapur, K., Scott, M. P., & Wong, W. H. (2007) · Molecular Biology and Evolution · doi:10.1093/molbev/msm061 · Cited by 52

Parallel Patterns of Evolution in the Genomes and Transcriptomes of Humans and Chimpanzees

Khaitovich, P., Hellmann, I., Enard, W., Nowick, K., Leinweber, M., Franz, H., Weiß, G., Lachmann, M., & Pääbo, S. (2005) · Science · doi:10.1126/science.1108296 · Cited by 590

Positive selection on gene expression in the human brain

Khaitovich, P., Tang, K., Franz, H., Kelso, J. F., Hellmann, I., Enard, W., Lachmann, M., & Pääbo, S. (2006) · Current Biology · doi:10.1016/j.cub.2006.03.082 · Cited by 58

Evolution of Gene Expression in Human and Chimpanzee Brains

Osada, N., Sugano, S., & Suzuki, Y. (2013) · Wiley eBooks · doi:10.1002/9780470015902.a0020748.pub2

Expression profiling in primates reveals a rapid evolution of human transcription factors

Gilad, Y., Oshlack, A., Smyth, G. K., Speed, T. P., & White, K. P. (2006) · Nature · doi:10.1038/nature04559 · Cited by 323

Toward a Neutral Evolutionary Model of Gene Expression

Khaitovich, P., Pääbo, S., & Weiß, G. (2005) · Genetics · doi:10.1534/genetics.104.037135 · Cited by 106