Representative peer-reviewed publications
since the group was established at MD Anderson
(see a full publication list)
Co-first author;
Corresponding author
-
Li J
, Chen H
, Wang Y
, Chen MM
, Liang H
(2021)
Next-generation analystics for omics data
Cancer Cell 39(1): 3-6 [PDF]
-
Zhao W
, Li J
, Chen MM, Luo Y, Ju Z, Nesser NK, Johnson-Camacho K, Boniface CT, Lawrence Y, Pande NY, Spellman PT, Davies MA, Herlyn M, Gray JW, von Euw E, Slamon DJ, Schultz A, Kumar SV, Korkut A, Akbani R, Lu Y, Brugge JS, Mills GB
, Liang H
(2020)
Large-scale characterization of drug responses of clinically relevant proteins in cancer cell lines
Cancer Cell 38(6): 829-843 [PDF]
-
Chen H, Liang H
(2020)
A high-resolution map of human enhancer RNA loci characterizes super-enhancer activities in cancer
Cancer Cell 38(5): 701-715 [PDF]
-
Li Z
, Gao X
, Peng X
, Chen MM
, Li Z
, Wei B, Wen X, Wei B, Dong Y, Bu Z, Wu A, Wu Q, Zhang L, Li Z, Liu Y, Jia S, Zhang L, Tang L, Shan F, Lv G, Shen L, Ji X, Liang H
, Ji J
(2020)
Multi-omics characterization of molecular features of gastric cancer correlated with response to neoadjuvant chemotherapy
Science Advances 6 (9): e4211 [PDF]
-
Chen H, Li J, Wang Y, Ng PK, Tsang TH, Shaw KR, Mills GB, Liang H
(2020)
Comprehensive Assessment of Computational Algorithms in Predicting Cancer Driver Mutations
Genome Biology 21 (1): 43 [PDF]
-
Yuan Y
, Ju YS
, Kim Y
, Li J, Wang Y, Yoon CJ, Yang Y, Martincorena I, Creighton CJ, Weinstein JN, Xu Y, Han L, Kim H-L, Nakagawa H, Park K
, Campbell PJ
, Liang H
; PCAWG Consortium (2020)
Comprehensive Molecular Characterization of Mitochondrial Genomes in Human Cancers
Nature Genetics 52 (3): 342-352 [PDF]
-
Xu X
, Wang Y
, Mojumdar K
, Zhou Z
, Jeong K, Mangala LS, Yu S, Tsang YH, Lu Y, Lopez-Berestein G, Sood AK, Mills GB, Liang H
(2019)
A-to-I edited miRNA-379-5p inhibits cell proliferation through CD97-induced apoptosis
The Journal of Clinical Investigation 129(12): 5343-5356 [PDF]
-
Gao GF
, Parker JS
, Reynolds SM
, Silva TC
, Wang L
, Zhou W
, Akbani R, Bailey M, Balu S, Berman BP, Brooks D, Chen H, Cherniack AD, Demchok JA, Ding L, Felau I, Gaheen S, Gerhard DS, Heiman DI, Hernandez KM, Hoadley KA, Jayasinghe R, Kemal A, Knijnenburg TA, Laird PW, Mensah MK, Mungall AJ, Robertson G, Shen H, Tarnuzzer R, Wang Z, Wyczalkowski M, Yang L, Zenklusen JC, Zhang Z, The Genomic Data Analysis Network, Liang H
, Noble MS
(2019)
Before and After: A Comparison of Legacy and Harmonized TCGA Data at the Genomic Data Commons
Cell Systems 9(1):24-34.e10 [PDF]
-
Chen MM
, Li J
, JWang Y, Akbani R, Lu Y, Mills GB, Liang H
(2019)
TCPA v3.0: An Integrative Platform to Explore the Pan-cancer Analysis of Functional Proteomic Data
Mol & Cell Proteomics 18(8 suppl 1):S15-S25 [PDF]
-
Ye Y
, Hu Q
, Chen H, Liang K, Yuan Y, Xiang Y, Ruan H, Zhang Z, Song A, Zhang H, Liu L, Diao L, Lou Y, Zhou B, Wang L, Zhou S, Gao J, Jonasch E, Lin SH, Xia Y, Lin C, Yang L
, Mills GB
, Liang H
, Han L
(2019)
Characterization of Hypoxia-associated Molecular Features to Aid Hypoxia-Targeted Therapy
Nature Metabolism 1: 431-444 [PDF]
-
Wang Y, Xu X, Maglic D, Dill MT, Mojumdar K, Ng P, Jeong KJ,Tsang YH, Moreno D, Bhavana VH, Peng X, Ge Z, Chen H, Li J, Chen Z, Zhang H, Han L, Du D, Creighton CJ, Mills GB, The Cancer Genome Atlas Research Network, Camargo F
, Liang H
(2018)
Comprehensive Molecular Characterization of the Hippo Signaling Pathway in Cancer
Cell Reports 25(5):1304-1317 [PDF]
-
Zhang H
, Wang Y
, Li J, Chen H, He X, Liang H
, Lu J
(2018)
Biosynthetic Energy Cost for Amino Acids Decreases in Cancer Evolution
Nature Communications 9(1):4124 [PDF]
-
Fast Evolving Human-specific Neural Enhancers are Associated with Aging-related Diseases
Cell Systems 6(5):604-611 [PDF]
-
Peng X
, Xu Y
, Wang Y, Hawke D, Yu S, Han L, Zhou Z, Jeong KJ, Tsang YH, Zhang M, Lu Y, Hwu P, Scott KL, Liang H
, Mills GB (2018)
A-to-I RNA Editing Contributes to Proteomic Diversity in Cancer
Cancer Cell 33: 450-462 [PDF]
-
A Pan-Cancer Analysis of Enhancer Expression in Nearly 9000 Patient Samples
Cell 173(2):386-399 [PDF]
-
Peng X
, Chen Z
, Farshidfar F
, Xu X, Lorenzi PL, Wang Y, Cheng F, Tan L, Mojumdar K, Du D, Ge Z, Li J, Thomas GV, Birsoy K, Liu L, Zhang H, Zhao Z, Marchand C, Weinstein JN, The Cancer Genome Atlas Research Network, Bathe OF
, Liang H
(2018)
Molecular Characterization and Clinical Relevance of Metabolic Expression Subtypes in Human Cancers
Cell Reports 23(1):255-269 [PDF]
-
Ge Z
, Leighton JS
, Wang Y, Peng X, Chen Z, Chen H, Sun Y, Yao F, Li J, Zhang H, Liu J, Shriver CD, Hu H, The Cancer Genome Atlas Research Network, Piwnica-Worms H, Ma L, Liang H
(2018)
Integrated Genomic Analysis of the Ubiquitin Pathway across Cancer Types
Cell Reports 23(1):213-226 [PDF]
-
Ng P
, Li J
, Jeong K
, Shao S, Chen H, Tsang YH, Sengupta S, Wang Z, Bhavana VH, Tran R, Soewito S, Minussi DC, Moreno D, Kong K, Dogruluk T, Lu H, Gao J, Tokheim C, Zhou DC, Johnson AM, Zeng J, Ip C, Ju Z, Wester M, Yu S, Li Y, Vellano C, Schultz N, Karchin R, Ding L, Lu Y, Cheung L, Chen K, Shaw KR, Meric-Bernstam F, Scott KL, Yi S
, Sahni N
, Liang H
, Mills GB (2018)
Systematic Functional Annotation of Somatic Mutations in Cancer
Cancer Cell 33, 450-462 [PDF]
-
Deng J
, Chen H
, Zhou D
, Zhang J
, Chen Y, Liu Q, Ai D, Zhu H, Chu L, Ren W, Zhang X, Xia Y, Sun M, Zhang H, Li J, Peng X, Li L, Han L, Lin H, Cai X, Xiang J, Chen S, Sun Y, Zhang Y, Zhang J, Chen H, Zhao Y, Liu Y
, Liang H
, Zhao K
(2017)
Comparative genomic analysis of esophageal squamous cell carcinoma between Asian and Caucasian patient populations
Nature Communications 8(1):1533 [PDF]
-
Li J, Akbani R, Zhao W, Lu Y, Weinstein JN, Mills GB
, Liang H
(2017)
Explore, visualize and analyze functional cancer proteomic data using The Cancer Proteome Atlas
Cancer Research 77(21):e51-54 [PDF]
-
Wang Y
, Xu X
, Yu S, Jeong KJ, Zhou Z, Han L, Tsang YH, Li J, Chen H, Mangala LS, Yuan Y, Eterovic AK, Lu Y, Sood AK, Scott KL, Mills GB, Liang H
(2017)
Systematic characterization of A-to-I RNA editing hotspots in microRNAs across human cancers
Genome Research 27(7):1112-1125 [PDF]
-
Li J
, Zhao W
, Akbani R, Liu W, Ju Z, Ling S, Vellano CP, Roebuck P, Yu Q, Eterovic AK, Byers LA, Davies MA, Deng W, Vashisht Gopal YN, Chen G, von Euw EM, Slamon D, Conklin D, Heymach JV, Minna JD, Myers JN, Lu Y, Mills GB
, Liang H
(2017)
Characterization of human cancer cell lines by reverse phase protein arrays
Cancer Cell 31(2): 225-239 [PDF]
-
Yuan Y
, Liu L
, Chen H, Wang Y, Xu Y, Mao H, Li J, Mills GB, Shu Y, Li L, Liang H
(2016)
Comprehensive characterization of molecular differences in cancer between male and female patients
Cancer Cell 29(5): 711-722 [PDF]
-
Chang HR
, Nam S
, Kook MC
, Kim KT, Liu X, Yao H, Jung HR, Lemos R Jr, Seo HH, Park HS, Gim Y, Hong D, Huh I, Kim YW, Tan D, Liu CG, Powis G, Park T
, Liang H
, Kim YH
(2016)
HNF4α is a therapeutic target that links AMPK to WNT signaling in early-stage gastric cancer
-
Han L
, Diao L
, Yu S
, Xu X
, Li J, Zhang R, Yang Y , Werner HM, Eterovic KA, Yuan Y, Li J, Nair N, Minelli R, Tsang Y, Cheung LW, Jeong KJ, Roszik J, Ju Z, Woodman S, Lu Y, Scott KL, Li JB, Mills GB
, Liang H
(2015)
The genomic landscape and clinical relevance of A-to-I RNA editing in human cancers
Cancer Cell 28(5):515-528 [PDF]
-
Yang JY, Werner HM, Li J, Westin SN, Lu Y, Halle MK, Trovik J, Salvesen HB, Mills GB
, Liang H
(2015)
Integrative protein-based prognostic model for early-stage endormetrioid endometrial cancer
Clinical Cancer Research 22(2): 513-523 [PDF]
-
TANRIC: an interactive open platform to explore the function of lncRNAs in cancer
Cancer Research 75(18):3728-37 [PDF]
-
Han L

, Yuan Y

, Zheng S, Yang Y, Li J, Edgerton ME, Diao L, Xu Y,
Verhaak RG,
Liang H
(2014)
The Pan-Cancer analysis of pseudogene expression analysis reveals biologically and clinically relevant tumor subtypes
Nature Communications 5:3963 [PDF]
highlighted in Cancer Discovery [PDF]
-
Yuan Y

, Van Allen EM

, Omberg L

, Wagle N, Amin-Mansour A, Sokolov A, Byers LA, Xu Y, Hess KR, Diao L, Han L, Huang X, Lawrence MS, Weinstein JN, Stuart JM, Mills GB, Garraway LA, Margolin AA

, Getz G

,
Liang H
(2014)
Assessing the clinical utility of cancer genomic and proteomic data across tumor types
Nature Biotechnology 32 (7): 644-52 [PDF]
-
Yang Y, Han L, Yuan Y, Li J, Hei N,
Liang H
(2014)
Gene co-expression network analysis reveals common system-level properties of prognostic genes across cancer types
Nature Communications 5:3231 [PDF]
-
Li J

, Lu Y

, Akbani R, Ju Z, Roebuck PL, Liu W, Yang JY, Broom BM, Verhaak RG, Kane DW, Wakefield C, Weinstein JN, Mills GB

,
Liang H
(2013)
TCPA: a resource for cancer functional proteomics data
Nature Methods 10 (11): 1046-1047 [PDF]
-
Liang H
, Cheung LW
, Li J, Ju Z, Yu S, Stemke-Hale K, Dogruluk T, Lu Y, Liu X, Gu C, Guo W, Scherer SE, Carter H, Westin SN, Dyer MD, Verhaak RG, Zhang F, Karchin R, Liu CG, Lu KH, Broaddus RR, Scott KL, Hennessy BT, Mills GB (2012)
Whole-exome sequencing combined with functional genomics reveals novel candidate driver cancer genes in endometrial cancer
Genome Research 22(11): 2020-2129
[PDF]