| Year |
Citation |
Score |
| 2024 |
Tian H, Luan P, Liu Y, Li G. Tet-mediated DNA methylation dynamics affect chromosome organization. Nucleic Acids Research. PMID 38300758 DOI: 10.1093/nar/gkae054 |
0.36 |
|
| 2024 |
Liu Y, Reed SC, Lo C, Choudhury AD, Parsons HA, Stover DG, Ha G, Gydush G, Rhoades J, Rotem D, Freeman S, Katz D, Bandaru R, Zheng H, Fu H, et al. FinaleMe: Predicting DNA methylation by the fragmentation patterns of plasma cell-free DNA. Biorxiv : the Preprint Server For Biology. PMID 38260558 DOI: 10.1101/2024.01.02.573710 |
0.388 |
|
| 2023 |
Fu H, Zheng H, Chen X, Weirauch MT, Muglia LJ, Wang L, Liu Y. NOMe-HiC: joint profiling of genetic variant, DNA methylation, chromatin accessibility, and 3D genome in the same DNA molecule. Genome Biology. 24: 50. PMID 36927507 DOI: 10.1186/s13059-023-02889-x |
0.396 |
|
| 2021 |
Liu Y. At the dawn: cell-free DNA fragmentomics and gene regulation. British Journal of Cancer. PMID 34815523 DOI: 10.1038/s41416-021-01635-z |
0.347 |
|
| 2020 |
Zheng H, Zhu MS, Liu Y. FinaleDB: a browser and database of cell-free DNA fragmentation patterns. Bioinformatics (Oxford, England). PMID 33258919 DOI: 10.1093/bioinformatics/btaa999 |
0.39 |
|
| 2019 |
Wan N, Weinberg D, Liu TY, Niehaus K, Ariazi EA, Delubac D, Kannan A, White B, Bailey M, Bertin M, Boley N, Bowen D, Cregg J, Drake AM, Ennis R, ... ... Liu Y, et al. Machine learning enables detection of early-stage colorectal cancer by whole-genome sequencing of plasma cell-free DNA. Bmc Cancer. 19: 832. PMID 31443703 DOI: 10.1186/S12885-019-6003-8 |
0.352 |
|
| 2019 |
Li G, Liu Y, Zhang Y, Kubo N, Yu M, Fang R, Kellis M, Ren B. Joint profiling of DNA methylation and chromatin architecture in single cells. Nature Methods. PMID 31384045 DOI: 10.1038/S41592-019-0502-Z |
0.708 |
|
| 2019 |
Liu Y, Liu T, Weinberg D, Torre CJDL, Tan CL, Schmitt AD, Selvaraj S, Tran V, Laurent LC, Bidard F, Haque IS. Abstract 5177: Spatial co-fragmentation pattern of cell-free DNA recapitulates in vivo chromatin organization and identifies tissue-of-origin Cancer Research. DOI: 10.1158/1538-7445.Sabcs18-5177 |
0.406 |
|
| 2019 |
Wan N, Weinberg D, Liu T, Niehaus K, Delubac D, Kannan A, White B, Ariazi EA, Bailey M, Bertin M, Boley N, Bowen D, Cregg J, Drake A, Ennis R, ... ... Liu Y, et al. Su1658 – Machine Learning Enables Detection of Early-Stage Colorectal Cancer by Whole-Genome Sequencing of Plasma Cell-Free Dna Gastroenterology. 156. DOI: 10.1016/S0016-5085(19)38396-9 |
0.354 |
|
| 2017 |
Luo H, Xi Y, Li W, Li J, Li Y, Dong S, Peng L, Liu Y, Yu W. Cell identity bookmarking through heterogeneous chromatin landscape maintenance during the cell cycle. Human Molecular Genetics. 26: 4231-4243. PMID 29088426 DOI: 10.1093/Hmg/Ddx312 |
0.444 |
|
| 2017 |
Liu Y, Sarkar A, Kheradpour P, Ernst J, Kellis M. Evidence of reduced recombination rate in human regulatory domains. Genome Biology. 18: 193. PMID 29058599 DOI: 10.1186/S13059-017-1308-X |
0.769 |
|
| 2017 |
Liu Y, Reed S, Choudhury AD, Parsons HA, Stover DG, Ha G, Gydush G, Rhoades J, Rotem D, Freeman S, Adalsteinsson V, Kellis M. Abstract 5689: Identify tissue-of-origin in cancer cfDNA by whole genome sequencing Cancer Research. 77: 5689-5689. DOI: 10.1158/1538-7445.Am2017-5689 |
0.648 |
|
| 2016 |
Smith JG, Felix JF, Morrison AC, Kalogeropoulos A, Trompet S, Wilk JB, Gidlöf O, Wang X, Morley M, Mendelson M, Joehanes R, Ligthart S, Shan X, Bis JC, Wang YA, ... ... Liu Y, et al. Discovery of Genetic Variation on Chromosome 5q22 Associated with Mortality in Heart Failure. Plos Genetics. 12: e1006034. PMID 27149122 DOI: 10.1371/Journal.Pgen.1006034 |
0.642 |
|
| 2015 |
Brat DJ, Verhaak RG, Aldape KD, Yung WK, Salama SR, Cooper LA, Rheinbay E, Miller CR, Vitucci M, Morozova O, Robertson AG, Noushmehr H, Laird PW, Cherniack AD, ... ... Liu Y, ... ... Liu Y, et al. Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas. The New England Journal of Medicine. 372: 2481-98. PMID 26061751 DOI: 10.1056/Nejmoa1402121 |
0.724 |
|
| 2015 |
Lay FD, Liu Y, Kelly TK, Witt H, Farnham PJ, Jones PA, Berman BP. The role of DNA methylation in directing the functional organization of the cancer epigenome. Genome Research. 25: 467-77. PMID 25747664 DOI: 10.1101/Gr.183368.114 |
0.74 |
|
| 2015 |
Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ, Amin V, Whitaker JW, Schultz MD, Ward LD, ... ... Liu Y, et al. Integrative analysis of 111 reference human epigenomes. Nature. 518: 317-30. PMID 25693563 DOI: 10.1038/Nature14248 |
0.483 |
|
| 2014 |
Arking DE, Pulit SL, Crotti L, van der Harst P, Munroe PB, Koopmann TT, Sotoodehnia N, Rossin EJ, Morley M, Wang X, Johnson AD, Lundby A, Gudbjartsson DF, Noseworthy PA, Eijgelsheim M, ... ... Liu Y, et al. Genetic association study of QT interval highlights role for calcium signaling pathways in myocardial repolarization. Nature Genetics. 46: 826-36. PMID 24952745 DOI: 10.1038/Ng.3014 |
0.621 |
|
| 2014 |
Lay FD, Liu Y, Kelly TK, Witt H, Blattler A, Farnham PJ, Berman BP, Jones PA. Abstract 4780: The effects of the global loss of DNA methylation on the functional organization of the epigenome Cancer Research. 74: 4780-4780. DOI: 10.1158/1538-7445.Am2014-4780 |
0.597 |
|
| 2013 |
Kasowski M, Kyriazopoulou-Panagiotopoulou S, Grubert F, Zaugg JB, Kundaje A, Liu Y, Boyle AP, Zhang QC, Zakharia F, Spacek DV, Li J, Xie D, Olarerin-George A, Steinmetz LM, Hogenesch JB, et al. Extensive variation in chromatin states across humans. Science (New York, N.Y.). 342: 750-2. PMID 24136358 DOI: 10.1126/Science.1242510 |
0.586 |
|
| 2013 |
Kandoth C, Schultz N, Cherniack AD, Akbani R, Liu Y, Shen H, Robertson AG, Pashtan I, Shen R, Benz CC, Yau C, Laird PW, Ding L, Zhang W, et al. Integrated genomic characterization of endometrial carcinoma. Nature. 497: 67-73. PMID 23636398 DOI: 10.1038/Nature12113 |
0.509 |
|
| 2012 |
Kelly TK, Liu Y, Lay FD, Liang G, Berman BP, Jones PA. Genome-wide mapping of nucleosome positioning and DNA methylation within individual DNA molecules. Genome Research. 22: 2497-506. PMID 22960375 DOI: 10.1101/Gr.143008.112 |
0.748 |
|
| 2012 |
Liu Y, Siegmund KD, Laird PW, Berman BP. Bis-SNP: combined DNA methylation and SNP calling for Bisulfite-seq data. Genome Biology. 13: R61. PMID 22784381 DOI: 10.1186/Gb-2012-13-7-R61 |
0.718 |
|
| 2012 |
Wiggs JL, Yaspan BL, Hauser MA, Kang JH, Allingham RR, Olson LM, Abdrabou W, Fan BJ, Wang DY, Brodeur W, Budenz DL, Caprioli J, Crenshaw A, Crooks K, Delbono E, ... ... Liu Y, et al. Common variants at 9p21 and 8q22 are associated with increased susceptibility to optic nerve degeneration in glaucoma. Plos Genetics. 8: e1002654. PMID 22570617 DOI: 10.1371/Journal.Pgen.1002654 |
0.635 |
|
| 2012 |
Berman BP, Weisenberger DJ, Aman JF, Hinoue T, Ramjan Z, Liu Y, Noushmehr H, Lange CP, van Dijk CM, Tollenaar RA, Van Den Berg D, Laird PW. Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina-associated domains. Nature Genetics. 44: 40-6. PMID 22120008 DOI: 10.1038/Ng.969 |
0.796 |
|
| 2012 |
Berman BP, Weisenberger DJ, Hinoue T, Noushmehr H, Liu Y, Aman JF, Hinoue T, Shen H, Malik S, Mahurkar S, Triche T, Ramjan Z, Nicolet CM, Van Den Berg D, Cope L, et al. Exploring the cancer methylome Bmc Proceedings. 6. DOI: 10.1186/1753-6561-6-S6-O24 |
0.8 |
|
| 2012 |
Nebozhyn M, Cristescu R, Liu Y, Feldman I, Lezhnin S, Zhang T, Zawel L, Fawell S, Dai H, Li J, Loboda A. Abstract 4931: Biomarker discovery in a large panel of cell lines shows different sample size requirement for prediction of response across a set of compounds Cancer Research. 72: 4931-4931. DOI: 10.1158/1538-7445.Am2012-4931 |
0.302 |
|
| Show low-probability matches. |