|Integrative analysis of 111 reference human epigenomes|
A Kundaje, W Meuleman, J Ernst, M Bilenky, A Yen, A Heravi-Moussavi, ...
Nature 518 (7539), 317-330, 2015
|Mutational landscape and significance across 12 major cancer types|
C Kandoth, MD McLellan, F Vandin, K Ye, B Niu, C Lu, M Xie, Q Zhang, ...
Nature 502 (7471), 333-339, 2013
|Age-related mutations associated with clonal hematopoietic expansion and malignancies|
M Xie, C Lu, J Wang, MD McLellan, KJ Johnson, MC Wendl, ...
Nature medicine 20 (12), 1472-1478, 2014
|MSIsensor: microsatellite instability detection using paired tumor-normal sequence data|
B Niu, K Ye, Q Zhang, C Lu, M Xie, MD McLellan, MC Wendl, L Ding
Bioinformatics 30 (7), 1015-1016, 2013
|The human epigenome browser at Washington University|
X Zhou, B Maricque, M Xie, D Li, V Sundaram, EA Martin, BC Koebbe, ...
Nature methods 8 (12), 989-990, 2011
|Integrated analysis of germline and somatic variants in ovarian cancer|
KL Kanchi, KJ Johnson, C Lu, MD McLellan, MDM Leiserson, MC Wendl, ...
Nature communications 5 (1), 1-14, 2014
|Patterns and functional implications of rare germline variants across 12 cancer types|
C Lu, M Xie, MC Wendl, J Wang, MD McLellan, MDM Leiserson, K Huang, ...
Nature communications 6 (1), 1-13, 2015
|DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape|
M Xie, C Hong, B Zhang, RF Lowdon, X Xing, D Li, X Zhou, HJ Lee, ...
Nature genetics 45 (7), 836–841, 2013
|Comparative epigenomic annotation of regulatory DNA|
S Xiao, D Xie, X Cao, P Yu, X Xing, CC Chen, M Musselman, M Xie, ...
Cell 149 (6), 1381-1392, 2012
|Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods|
M Stevens, JB Cheng, D Li, M Xie, C Hong, CL Maire, KL Ligon, M Hirst, ...
Genome research 23 (9), 1541-1553, 2013
|Systematic discovery of complex insertions and deletions in human cancers|
K Ye, J Wang, R Jayasinghe, EW Lameijer, JF McMichael, J Ning, ...
Nature medicine 22 (1), 97-104, 2016
|Divergent viral presentation among human tumors and adjacent normal tissues|
S Cao, MC Wendl, MA Wyczalkowski, K Wylie, K Ye, R Jayasinghe, M Xie, ...
Scientific reports 6, 28294, 2016
|Establishing guidelines to harmonize tumor mutational burden (TMB): in silico assessment of variation in TMB quantification across diagnostic platforms: phase I of the Friends …|
DM Merino, LM McShane, D Fabrizio, V Funari, SJ Chen, JR White, ...
Journal for Immunotherapy of Cancer 8 (1), 2020
|High Frequency Strand Slippage Mutations in CTCF in MSI‐Positive Endometrial Cancers|
I Zighelboim, DG Mutch, A Knapp, L Ding, M Xie, DE Cohn, PJ Goodfellow
Human mutation 35 (1), 63-65, 2013
|The impact of chromosomal translocation locus and fusion oncogene coding sequence in synovial sarcomagenesis|
KB Jones, JJ Barrott, M Xie, M Haldar, H Jin, JF Zhu, MJ Monument, ...
Oncogene 35 (38), 5021-5032, 2016
|Endoplasmic Reticulum Mediated Necrosis-like Apoptosis of HeLa Cells Induced by Ca2+ Oscillation|
Q Hu, J Chang, L Tao, G Yan, M Xie, Z Wang
BMB Reports 38 (6), 709-716, 2005
|MIRMMR: binary classification of microsatellite instability using methylation and mutations|
SM Foltz, WW Liang, M Xie, L Ding
Bioinformatics 33 (23), 3799-3801, 2017
|Cloning and characterization of chicken SPATA4 gene and analysis of its specific expression|
M Xie, C Ai, X Jin, S Liu, S Tao, Z Li, Z Wang
Molecular and cellular biochemistry 306 (1-2), 79-85, 2007
|TMB standardization by alignment to reference standards: Phase II of the Friends of Cancer Research TMB Harmonization Project|
DM Merino, L McShane, M Butler, VA Funari, MD Hellmann, R Chaudhary, ...
J Clin Oncol 37 (15_suppl), 2624-2624, 2019
|Multifactorial deep learning reveals pan-cancer genomic tumor clusters with distinct immunogenomic landscape and response to immunotherapy|
F Xie, J Zhang, J Wang, A Reuben, W Xu, X Yi, FS Varn, Y Ye, J Cheng, ...
Clinical Cancer Research, 2020