Eunjung (Alice) Lee

Publications

1. Human cytomegalovirus harnesses host L1 retrotransposon for efficient replication. Nat Commun. 2024 09 02; 15(1):7640. View Abstract
2. Analysis of REST binding sites with canonical and non-canonical motifs in human cell lines. BMC Med Genomics. 2024 04 17; 17(Suppl 1):92. View Abstract
3. Prevalence and mechanisms of somatic deletions in single human neurons during normal aging and in DNA repair disorders. Nat Commun. 2022 10 07; 13(1):5918. View Abstract
4. Somatic mutations in single human cardiomyocytes reveal age-associated DNA damage and widespread oxidative genotoxicity. Nat Aging. 2022 08; 2(8):714-725. View Abstract
5. A neurodevelopmental disorder caused by a novel de novo SVA insertion in exon 13 of the SRCAP gene. Eur J Hum Genet. 2022 09; 30(9):1083-1087. View Abstract
6. Somatic genomic changes in single Alzheimer's disease neurons. Nature. 2022 04; 604(7907):714-722. View Abstract
7. Whole-genome analysis reveals the contribution of non-coding de novo transposon insertions to autism spectrum disorder. Mob DNA. 2021 Nov 27; 12(1):28. View Abstract
8. Genomic approaches to trace the history of human brain evolution with an emerging opportunity for transposon profiling of ancient humans. Mob DNA. 2021 Oct 18; 12(1):22. View Abstract
9. Comprehensive identification of transposable element insertions using multiple sequencing technologies. Nat Commun. 2021 06 22; 12(1):3836. View Abstract
10. Identification and Genotyping of Transposable Element Insertions From Genome Sequencing Data. Curr Protoc Hum Genet. 2020 09; 107(1):e102. View Abstract
11. APP gene copy number changes reflect exogenous contamination. Nature. 2020 08; 584(7821):E20-E28. View Abstract
12. Parallel RNA and DNA analysis after deep sequencing (PRDD-seq) reveals cell type-specific lineage patterns in human brain. Proc Natl Acad Sci U S A. 2020 06 23; 117(25):13886-13895. View Abstract
13. Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition. Nat Genet. 2020 03; 52(3):306-319. View Abstract
14. Global impact of somatic structural variation on the DNA methylome of human cancers. Genome Biol. 2019 10 15; 20(1):209. View Abstract
15. Patient-Customized Oligonucleotide Therapy for a Rare Genetic Disease. N Engl J Med. 2019 10 24; 381(17):1644-1652. View Abstract
16. An enhanced genetic model of colorectal cancer progression history. Genome Biol. 2019 08 15; 20(1):168. View Abstract
17. DeviCNV: detection and visualization of exon-level copy number variants in targeted next-generation sequencing data. BMC Bioinformatics. 2018 Oct 16; 19(1):381. View Abstract
18. A Pan-Cancer Compendium of Genes Deregulated by Somatic Genomic Rearrangement across More Than 1,400 Cases. Cell Rep. 2018 07 10; 24(2):515-527. View Abstract
19. Immune signatures correlate with L1 retrotransposition in gastrointestinal cancers. Genome Res. 2018 08; 28(8):1136-1146. View Abstract
20. Large-scale clinical validation of biomarkers for pancreatic cancer using a mass spectrometry-based proteomics approach. Oncotarget. 2017 Jun 27; 8(26):42761-42771. View Abstract
21. NGSCheckMate: software for validating sample identity in next-generation sequencing studies within and across data types. Nucleic Acids Res. 2017 Jun 20; 45(11):e103. View Abstract
22. A Pan-Cancer Proteogenomic Atlas of PI3K/AKT/mTOR Pathway Alterations. Cancer Cell. 2017 06 12; 31(6):820-832.e3. View Abstract
23. Intersection of diverse neuronal genomes and neuropsychiatric disease: The Brain Somatic Mosaicism Network. Science. 2017 04 28; 356(6336). View Abstract
24. Epigenetic Memory Underlies Cell-Autonomous Heterogeneous Behavior of Hematopoietic Stem Cells. Cell. 2016 11 17; 167(5):1310-1322.e17. View Abstract
25. The Impact of Environmental and Endogenous Damage on Somatic Mutation Load in Human Skin Fibroblasts. PLoS Genet. 2016 10; 12(10):e1006385. View Abstract
26. Next-generation sequencing-based detection of germline L1-mediated transductions. BMC Genomics. 2016 05 10; 17:342. View Abstract
27. Resolving rates of mutation in the brain using single-neuron genomics. Elife. 2016 Feb 22; 5. View Abstract
28. Pericentromeric satellite repeat expansions through RNA-derived DNA intermediates in cancer. Proc Natl Acad Sci U S A. 2015 Dec 08; 112(49):15148-53. View Abstract
29. Intron retention is a widespread mechanism of tumor-suppressor inactivation. Nat Genet. 2015 Nov; 47(11):1242-8. View Abstract
30. Somatic mutation in single human neurons tracks developmental and transcriptional history. Science. 2015 Oct 02; 350(6256):94-98. View Abstract
31. Cell lineage analysis in human brain using endogenous retroelements. Neuron. 2015 Jan 07; 85(1):49-59. View Abstract
32. Integrated genomic characterization of papillary thyroid carcinoma. Cell. 2014 Oct 23; 159(3):676-90. View Abstract
33. The somatic genomic landscape of chromophobe renal cell carcinoma. Cancer Cell. 2014 Sep 08; 26(3):319-330. View Abstract
34. Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin. Cell. 2014 Aug 14; 158(4):929-944. View Abstract
35. The somatic genomic landscape of glioblastoma. Cell. 2013 Oct 10; 155(2):462-77. View Abstract
36. The Cancer Genome Atlas Pan-Cancer analysis project. Nat Genet. 2013 Oct; 45(10):1113-20. View Abstract
37. Primate genome architecture influences structural variation mechanisms and functional consequences. Proc Natl Acad Sci U S A. 2013 Sep 24; 110(39):15764-9. View Abstract
38. Single-neuron sequencing analysis of L1 retrotransposition and somatic mutation in the human brain. Cell. 2012 Oct 26; 151(3):483-96. View Abstract
39. Comprehensive genomic characterization of squamous cell lung cancers. Nature. 2012 Sep 27; 489(7417):519-25. View Abstract
40. Comprehensive molecular characterization of human colon and rectal cancer. Nature. 2012 Jul 18; 487(7407):330-7. View Abstract
41. Landscape of somatic retrotransposition in human cancers. Science. 2012 Aug 24; 337(6097):967-71. View Abstract
42. Copy number variation detection in whole-genome sequencing data using the Bayesian information criterion. Proc Natl Acad Sci U S A. 2011 Nov 15; 108(46):E1128-36. View Abstract
43. Integrated genomic analyses of ovarian carcinoma. Nature. 2011 Jun 29; 474(7353):609-15. View Abstract
44. Prediction of cancer prognosis with the genetic basis of transcriptional variations. Genomics. 2011 Jun; 97(6):350-7. View Abstract
45. Predicting disease phenotypes based on the molecular networks with condition-responsive correlation. Int J Data Min Bioinform. 2011; 5(2):131-42. View Abstract
46. Relationships between genetic polymorphisms and transcriptional profiles for outcome prediction in anticancer agent treatment. BMB Rep. 2010 Dec; 43(12):836-41. View Abstract
47. Prediction of extracellular matrix proteins based on distinctive sequence and domain characteristics. J Comput Biol. 2010 Jan; 17(1):97-105. View Abstract
48. Pathway level analysis by augmenting activities of transcription factor target genes. IET Syst Biol. 2009 Nov; 3(6):534-42. View Abstract
49. Analysis of AML genes in dysregulated molecular networks. BMC Bioinformatics. 2009 Sep 17; 10 Suppl 9:S2. View Abstract
50. Comparative analysis of the JAK/STAT signaling through erythropoietin receptor and thrombopoietin receptor using a systems approach. BMC Bioinformatics. 2009 Jan 30; 10 Suppl 1:S53. View Abstract
51. Inferring pathway activity toward precise disease classification. PLoS Comput Biol. 2008 Nov; 4(11):e1000217. View Abstract
52. Network-based classification of breast cancer metastasis. Mol Syst Biol. 2007; 3:140. View Abstract
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