Works by Yi, Soojin V

Results: 59

Cell type-specific epigenetic links to schizophrenia risk in the brain.

Published in:

Genome Biology, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s13059-019-1747-7

By:

Mendizabal, Isabel;
Berto, Stefano;
Usui, Noriyoshi;
Toriumi, Kazuya;
Chatterjee, Paramita;
Douglas, Connor;
Huh, Iksoo;
Jeong, Hyeonsoo;
Layman, Thomas;
Tamminga, Carol A.;
Preuss, Todd M.;
Konopka, Genevieve;
Yi, Soojin V.

Publication type:

Article

DNA methylation and transcriptional noise.

Published in:

Epigenetics & Chromatin, 2013, v. 6, n. 1, p. 1, doi. 10.1186/1756-8935-6-9

By:

Iksoo Huh;
Jia Zeng;
Taesung Park;
Soojin V. Yi

Publication type:

Article

Comparative genomics of the miniature wasp and pest control agent <italic>Trichogramma pretiosum</italic>.

Published in:

BMC Biology, 2018, v. 16, n. 1, p. 1, doi. 10.1186/s12915-018-0520-9

By:

Rugman-Jones, Paul F.;
Stouthamer, Richard;
Lindsey, Amelia R. I.;
Kelkar, Yogeshwar D.;
Werren, John H.;
Martinson, Ellen O.;
Yan, Zhichao;
Wu, Xin;
Sun, Dan;
Yi, Soojin V.;
Ye, Gongyin;
Hughes, Daniel S. T.;
Murali, Shwetha C.;
Qu, Jiaxin;
Dugan, Shannon;
Lee, Sandra L.;
Chao, Hsu;
Dinh, Huyen;
Han, Yi;
Doddapaneni, Harsha Vardhan

Publication type:

Article

Correlation Patterns Between DNA Methylation and Gene Expression in The Cancer Genome Atlas.

Published in:

Cancer Informatics, 2019, v. 18, p. N.PAG, doi. 10.1177/1176935119828776

By:

Spainhour, John CG;
Lim, Hong Seo;
Yi, Soojin V;
Qiu, Peng

Publication type:

Article

Correlation Patterns Between DNA Methylation and Gene Expression in The Cancer Genome Atlas.

Published in:

Cancer Informatics, 2019, n. 18, p. N.PAG, doi. 10.1177/1176935119828776

By:

Spainhour, John CG;
Lim, Hong Seo;
Yi, Soojin V;
Qiu, Peng

Publication type:

Article

Heterogeneous Genomic Molecular Clocks in Primates.

Published in:

PLoS Genetics, 2006, v. 3, n. 4, p. 1527, doi. 10.1371/journal.pgen.0020163

By:

Seong-Ho Kim;
Elango, Navin;
Warden, Charles;
Vigoda, Eric;
Yi, Soojin V.

Publication type:

Article

Inactivation of mismatch repair increases the diversity of Vibrio parahaemolyticus.

Published in:

Environmental Microbiology, 2009, v. 11, n. 5, p. 1254, doi. 10.1111/j.1462-2920.2008.01853.x

By:

Hazen, Tracy H.;
Kennedy, K. Danielle;
Chen, Shen;
Yi, Soojin V.;
Sobecky, Patricia A.

Publication type:

Article

Novel genome sequence of Chinese cavefish (Triplophysa rosa) reveals pervasive relaxation of natural selection in cavefish genomes.

Published in:

Molecular Ecology, 2022, v. 31, n. 22, p. 5831, doi. 10.1111/mec.16700

By:

Zhao, Qingyuan;
Shao, Feng;
Li, Yanping;
Yi, Soojin V.;
Peng, Zuogang

Publication type:

Article

Genome‐wide variation in DNA methylation linked to developmental stage and chromosomal suppression of recombination in white‐throated sparrows.

Published in:

Molecular Ecology, 2021, v. 30, n. 14, p. 3453, doi. 10.1111/mec.15793

By:

Sun, Dan;
Layman, Thomas S.;
Jeong, Hyeonsoo;
Chatterjee, Paramita;
Grogan, Kathleen;
Merritt, Jennifer R.;
Maney, Donna L.;
Yi, Soojin V.

Publication type:

Article

Comparative studies of genomic and epigenetic factors influencing transcriptional variation in two insect species.

Published in:

G3: Genes | Genomes | Genetics, 2022, v. 12, n. 11, p. 1, doi. 10.1093/g3journal/jkac230

By:

XinWu;
Bhatia, Neharika;
Grozinger, Christina M.;
Soojin V. Yi

Publication type:

Article

Effects of DNA Methylation and Chromatin State on Rates of Molecular Evolution in Insects.

Published in:

G3: Genes | Genomes | Genetics, 2016, v. 6, n. 2, p. 357, doi. 10.1534/g3.115.023499

By:

Glastad, Karl M.;
Goodisman, Michael A. D.;
Yi, Soojin V.;
Hunt, Brendan G.

Publication type:

Article

Potential Role of DNA Methylation as a Driver of Plastic Responses to the Environment Across Cells, Organisms, and Populations.

Published in:

Genome Biology & Evolution, 2024, v. 16, n. 2, p. 1, doi. 10.1093/gbe/evae022

By:

Bogan, Samuel N;
Yi, Soojin V

Publication type:

Article

Lineage and Parent-of-Origin Effects in DNA Methylation of Honey Bees (Apis mellifera) Revealed by Reciprocal Crosses and Whole-Genome Bisulfite Sequencing.

Published in:

Genome Biology & Evolution, 2020, v. 12, n. 8, p. 1482, doi. 10.1093/gbe/evaa133

By:

Wu, Xin;
Galbraith, David A;
Chatterjee, Paramita;
Jeong, Hyeonsoo;
Grozinger, Christina M;
Yi, Soojin V

Publication type:

Article

Genomic Landscape of Methylation Islands in Hymenopteran Insects.

Published in:

Genome Biology & Evolution, 2018, v. 10, n. 10, p. 2766, doi. 10.1093/gbe/evy203

By:

Jeong, Hyeonsoo;
Wu, Xin;
Smith, Brandon;
Yi, Soojin V

Publication type:

Article

Insights into Epigenome Evolution from Animal and Plant Methylomes.

Published in:

Genome Biology & Evolution, 2017, v. 9, n. 11, p. 3189, doi. 10.1093/gbe/evx203

By:

Yi, Soojin V.

Publication type:

Article

What Signatures Dominantly Associate with Gene Age?

Published in:

Genome Biology & Evolution, 2016, v. 8, n. 10, p. 3083, doi. 10.1093/gbe/evw216

By:

Hongyan Yin;
Guangyu Wang;
Lina Ma;
Yi, Soojin V.;
Zhang Zhang

Publication type:

Article

Specific Modifications of Histone Tails, but Not DNA Methylation, Mirror the Temporal Variation of Mammalian Recombination Hotspots.

Published in:

Genome Biology & Evolution, 2014, v. 6, n. 10, p. 2918, doi. 10.1093/gbe/evu230

By:

Zeng, Jia;
Yi, Soojin V.

Publication type:

Article

Patterning and Regulatory Associations of DNA Methylation Are Mirrored by Histone Modifications in Insects.

Published in:

Genome Biology & Evolution, 2013, v. 5, n. 3, p. 591, doi. 10.1093/gbe/evt030

By:

Hunt, Brendan G.;
Glastad, Karl M.;
Yi, Soojin V.;
Goodisman, Michael A.D.

Publication type:

Article

Path lengths in protein-protein interaction networks and biological complexity.

Published in:

Proteomics, 2011, v. 11, n. 10, p. 1857, doi. 10.1002/pmic.201000684

By:

Xu, Ke;
Bezakova, Ivona;
Bunimovich, Leonid;
Yi, Soojin V.

Publication type:

Article

Detecting differential DNA methylation from sequencing of bisulfite converted DNA of diverse species.

Published in:

Briefings in Bioinformatics, 2019, v. 20, n. 1, p. 33, doi. 10.1093/bib/bbx077

By:

Huh, Iksoo;
Wu, Xin;
Park, Taesung;
Yi, Soojin V

Publication type:

Article

Development of novel EST-SSR markers for ploidy identification based on de novo transcriptome assembly for Misgurnus anguillicaudatus.

Published in:

PLoS ONE, 2018, v. 13, n. 4, p. 1, doi. 10.1371/journal.pone.0195829

By:

Feng, Bing;
Yi, Soojin V.;
Zhang, Manman;
Zhou, Xiaoyun

Publication type:

Article

Distinct epigenomic and transcriptomic modifications associated with Wolbachia-mediated asexuality.

Published in:

PLoS Pathogens, 2020, v. 16, n. 3, p. 1, doi. 10.1371/journal.ppat.1008397

By:

Wu, Xin;
Lindsey, Amelia R. I.;
Chatterjee, Paramita;
Werren, John H.;
Stouthamer, Richard;
Yi, Soojin V.

Publication type:

Article

Asymmetrical Evolution of Promoter Methylation of Mammalian Genes after Duplication.

Published in:

Molecular Biology & Evolution, 2024, v. 41, n. 12, p. 1, doi. 10.1093/molbev/msae259

By:

de la Fuente, Mercedes;
Mendizabal, Isabel;
Han, Mira V;
Yi, Soojin V;
Alvarez-Ponce, David

Publication type:

Article

Epigenetics Research in Evolutionary Biology: Perspectives on Timescales and Mechanisms.

Published in:

Molecular Biology & Evolution, 2024, v. 41, n. 9, p. 1, doi. 10.1093/molbev/msae170

By:

Yi, Soojin V

Publication type:

Article

Enhancer Pleiotropy, Gene Expression, and the Architecture of Human Enhancer–Gene Interactions.

Published in:

Molecular Biology & Evolution, 2021, v. 38, n. 9, p. 3898, doi. 10.1093/molbev/msab085

By:

Singh, Devika;
Yi, Soojin V

Publication type:

Article

Myxosporea (Myxozoa, Cnidaria) Lack DNA Cytosine Methylation.

Published in:

Molecular Biology & Evolution, 2021, v. 38, n. 2, p. 393, doi. 10.1093/molbev/msaa214

By:

Kyger, Ryan;
Luzuriaga-Neira, Agusto;
Layman, Thomas;
Sandberg, Tatiana Orli Milkewitz;
Singh, Devika;
Huchon, Dorothée;
Peri, Sateesh;
Atkinson, Stephen D;
Bartholomew, Jerri L;
Yi, Soojin V;
Alvarez-Ponce, David

Publication type:

Article

Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution.

Published in:

Molecular Biology & Evolution, 2016, v. 33, n. 11, p. 2947, doi. 10.1093/molbev/msw176

By:

Mendizabal, Isabel;
Lei Shi;
Keller, Thomas E.;
Konopka, Genevieve;
Preuss, Todd M.;
Tzung-Fu Hsieh;
Enzhi Hu;
Zhe Zhang;
Bing Su;
Yi, Soojin V.

Publication type:

Article

Evolutionary Transition of Promoter and Gene Body DNA Methylation across Invertebrate-Vertebrate Boundary.

Published in:

Molecular Biology & Evolution, 2016, v. 33, n. 4, p. 1019, doi. 10.1093/molbev/msv345

By:

Keller, Thomas E.;
Han, Priscilla;
Yi, Soojin V.

Publication type:

Article

The Evolution of Invertebrate Gene Body Methylation.

Published in:

Molecular Biology & Evolution, 2012, v. 29, n. 8, p. 1907, doi. 10.1093/molbev/mss062

By:

Sarda, Shrutii;
Zeng, Jia;
Hunt, Brendan G.;
Yi, Soojin V.

Publication type:

Article

Comparative Analyses of DNA Methylation and Sequence Evolution Using Nasonia Genomes.

Published in:

Molecular Biology & Evolution, 2011, v. 28, n. 12, p. 3345, doi. 10.1093/molbev/msr168

By:

Park, Jungsun;
Peng, Zuogang;
Zeng, Jia;
Elango, Navin;
Park, Taesung;
Wheeler, Dave;
Werren, John H.;
Yi, Soojin V.

Publication type:

Article

Sociality Is Linked to Rates of Protein Evolution in a Highly Social Insect.

Published in:

Molecular Biology & Evolution, 2010, v. 27, n. 3, p. 497, doi. 10.1093/molbev/msp225

By:

Hunt, Brendan G.;
Wyder, Stefan;
Elango, Navin;
Werren, John H.;
Zdobnov, Evgeny M.;
Yi, Soojin V.;
Goodisman, Michael A.D.

Publication type:

Article

DNA Methylation and Structural and Functional Bimodality of Vertebrate Promoters.

Published in:

Molecular Biology & Evolution, 2008, v. 25, n. 8, p. 1602, doi. 10.1093/molbev/msn110

By:

Elango, Navin;
Yi, Soojin V.

Publication type:

Article

Mammalian Nonsynonymous Sites Are Not Overdispersed: Comparative Genomic Analysis of Index of Dispersion of Mammalian Proteins.

Published in:

Molecular Biology & Evolution, 2008, v. 25, n. 4, p. 634, doi. 10.1093/molbev/msm281

By:

Kim, Seong-Ho;
Yi, Soojin V.

Publication type:

Article

Non-adaptive evolution of genome complexity.

Published in:

BioEssays, 2006, v. 28, n. 10, p. 979, doi. 10.1002/bies.20478

By:

Yi, Soojin V.

Publication type:

Article

Bis-class: a new classification tool of methylation status using bayes classifier and local methylation information

Published in:

BMC Genomics, 2014, v. 15, n. 1, p. 608, doi. 10.1186/1471-2164-15-608

By:

Iksoo Huh;
Xingyu Yang;
Taesung Park;
Soojin V Yi

Publication type:

Article

Human brain aging is associated with dysregulation of cell type epigenetic identity.

Published in:

GeroScience, 2025, v. 47, n. 3, p. 3759, doi. 10.1007/s11357-024-01450-3

By:

Jeong, Hyeonsoo;
Mendizabal, Isabel;
Yi, Soojin V.

Publication type:

Article

Evaluation of Possible Proximate Mechanisms Underlying the Kinship Theory of Intragenomic Conflict in Social Insects.

Published in:

Integrative & Comparative Biology, 2016, v. 56, n. 6, p. 1206, doi. 10.1093/icb/icw111

By:

Galbraith, David A.;
Yi, Soojin V.;
Grozinger, Christina M.

Publication type:

Article

Epigenetics and Evolution.

Published in:

Integrative & Comparative Biology, 2014, v. 54, n. 1, p. 31, doi. 10.1093/icb/icu040

By:

Mendizabal, I.;
Keller, T. E.;
Zeng, J.;
Yi, Soojin V.

Publication type:

Article

The Function of Intragenic DNA Methylation: Insights from Insect Epigenomes.

Published in:

Integrative & Comparative Biology, 2013, v. 53, n. 2, p. 319, doi. 10.1093/icb/ict003

By:

Hunt, Brendan G.;
Glastad, Karl M.;
Yi, Soojin V.;
Goodisman, Michael A. D.

Publication type:

Article

Development and annotation of shotgun sequence libraries from New World monkeys.

Published in:

Molecular Ecology Resources, 2012, v. 12, n. 5, p. 950, doi. 10.1111/j.1755-0998.2012.03162.x

By:

JAMESON, NATALIE M.;
XU, KE;
YI, SOOJIN V.;
WILDMAN, DEREK E.

Publication type:

Article

Dnmt1a is essential for gene body methylation and the regulation of the zygotic genome in a wasp.

Published in:

PLoS Genetics, 2022, v. 18, n. 5, p. 1, doi. 10.1371/journal.pgen.1010181

By:

Arsala, Deanna;
Wu, Xin;
Yi, Soojin V.;
Lynch, Jeremy A.

Publication type:

Article

Mutations of Different Molecular Origins Exhibit Contrasting Patterns of Regional Substitution Rate Variation.

Published in:

PLoS Computational Biology, 2008, v. 4, n. 2, p. 1, doi. 10.1371/journal.pcbi.1000015

By:

Elango, Navin;
Seong-Ho Kim;
Vigoda, Eric;
Yi, Soojin V.

Publication type:

Article

The multivariate association between genomewide DNA methylation and climate across the range of Arabidopsis thaliana.

Published in:

Molecular Ecology, 2016, v. 25, n. 8, p. 1823, doi. 10.1111/mec.13573

By:

Keller, Thomas E.;
Lasky, Jesse R.;
Yi, Soojin V.

Publication type:

Article

Body-hypomethylated human genes harbor extensive intragenic transcriptional activity and are prone to cancer-associated dysregulation.

Published in:

Nucleic Acids Research, 2017, v. 45, n. 8, p. 4390, doi. 10.1093/nar/gkx020

By:

Mendizabal, Isabel;
Jia Zeng;
Keller, Thomas E.;
Yi, Soojin V.

Publication type:

Article

The draft genome of a socially polymorphic halictid bee, Lasioglossum albipes.

Published in:

Genome Biology, 2013, v. 14, n. 12, p. 265, doi. 10.1186/gb-2013-14-12-r142

By:

Kocher, Sarah D.;
Cai Li;
Wei Yang;
Hao Tan;
Soojin V Yi;
Xingyu Yang;
Hoekstra, Hopi E.;
Guojie Zhang;
Pierce, Naomi E;
Yu, Douglas W

Publication type:

Article

Functional conservation of sequence determinants at rapidly evolving regulatory regions across mammals.

Published in:

PLoS Computational Biology, 2018, v. 14, n. 10, p. 1, doi. 10.1371/journal.pcbi.1006451

By:

Huh, Iksoo;
Mendizabal, Isabel;
Park, Taesung;
Yi, Soojin V.

Publication type:

Article

Dynamic molecular evolution of a supergene with suppressed recombination in white-throated sparrows.

Published in:

eLife, 2022, p. 1, doi. 10.7554/eLife.79387

By:

Hyeonsoo Jeong;
Baran, Nicole M.;
Dan Sun;
Chatterjee, Paramita;
Layman, Thomas S.;
Balakrishnan, Christopher N.;
Maney, Donna L.;
Yi, Soojin V.

Publication type:

Article

Evolution of DNA methylation in the human brain.

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-21917-7

By:

Jeong, Hyeonsoo;
Mendizabal, Isabel;
Berto, Stefano;
Chatterjee, Paramita;
Layman, Thomas;
Usui, Noriyoshi;
Toriumi, Kazuya;
Douglas, Connor;
Singh, Devika;
Huh, Iksoo;
Preuss, Todd M.;
Konopka, Genevieve;
Yi, Soojin V.

Publication type:

Article

Impacts of Chromatin States and Long-Range Genomic Segments on Aging and DNA Methylation.

Published in:

PLoS ONE, 2015, v. 10, n. 6, p. 1, doi. 10.1371/journal.pone.0128517

By:

Sun, Dan;
Yi, Soojin V.

Publication type:

Article

Predicted Functional RNAs within Coding Regions Constrain Evolutionary Rates of Yeast Proteins.

Published in:

PLoS ONE, 2008, v. 3, n. 2, p. 1, doi. 10.1371/journal.pone.0001559

By:

Warden, Charles D.;
Seong-Ho Kim;
Yi, Soojin V.

Publication type:

Article