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2020 – today
- 2021
[j15]Lifan Liang
, Kunju Zhu, Junyan Tao, Songjian Lu:
ORN: Inferring patient-specific dysregulation status of pathway modules in cancer with OR-gate Network. PLoS Comput. Biol. 17(4) (2021)- 2020
- [j14]Lifan Liang, Kunju Zhu, Songjian Lu:
BEM: Mining Coregulation Patterns in Transcriptomics via Boolean Matrix Factorization. Bioinform. 36(13): 4030-4037 (2020)
2010 – 2019
- 2019
- [j13]Xiao-Nan Fan, Shao-Wu Zhang, Song-Yao Zhang, Kunju Zhu, Songjian Lu:
Prediction of lncRNA-disease associations by integrating diverse heterogeneous information sources with RWR algorithm and positive pointwise mutual information. BMC Bioinform. 20(1): 87:1-87:12 (2019) - [j12]Lifan Liang, Vicky Chen, Kunju Zhu, Xiaonan Fan, Xinghua Lu, Songjian Lu:
Integrating data and knowledge to identify functional modules of genes: a multilayer approach. BMC Bioinform. 20(1): 225:1-225:15 (2019) - [j11]Chunhui Cai, Gregory F. Cooper, Kevin N. Lu, Xiaojun Ma, Shuping Xu, Zhenlong Zhao, Xueer Chen, Yifan Xue, Adrian V. Lee, Nathan Clark, Vicky Chen, Songjian Lu, Lujia Chen, Liyue Yu, Harry Hochheiser, Xia Jiang, Q. Jane Wang, Xinghua Lu:
Systematic discovery of the functional impact of somatic genome alterations in individual tumors through tumor-specific causal inference. PLoS Comput. Biol. 15(7) (2019) - [i4]Lifan Liang, Songjian Lu:
Noisy and Incomplete Boolean Matrix Factorizationvia Expectation Maximization. CoRR abs/1905.12766 (2019) - 2016
- [j10]Songjian Lu, Gunasheil Mandava, Gaibo Yan, Xinghua Lu:
An exact algorithm for finding cancer driver somatic genome alterations: the weighted mutually exclusive maximum set cover problem. Algorithms Mol. Biol. 11: 11 (2016) - 2015
- [j9]Songjian Lu, Kevin N. Lu, Shi-Yuan Cheng, Bo Hu, Xiaojun Ma, Nicholas Nystrom, Xinghua Lu:
Identifying Driver Genomic Alterations in Cancers by Searching Minimum-Weight, Mutually Exclusive Sets. PLoS Comput. Biol. 11(8) (2015) - [c10]Songjian Lu, Kevin N. Lu, Shi-Yuan Cheng, Bo Hu, Xiaojun Ma, Nicholas Nystrom, Xinghua Lu:
Identifying driver genomic alterations in cancers by searching minimum-weight, mutually exclusive sets. BIBM 2015: 1728-1730 - 2014
- [i3]Songjian Lu, Xinghua Lu:
An exact algorithm for the weighed mutually exclusive maximum set cover problem. CoRR abs/1401.6385 (2014) - 2013
- [j8]Songjian Lu, Xinghua Lu:
Using graph model to find transcription factor modules: the hitting set problem and an exact algorithm. Algorithms Mol. Biol. 8: 2 (2013) - [i2]Songjian Lu, Xinghua Lu:
An exact algorithm with the time complexity of $O^*(1.299^m)$ for the weighed mutually exclusive set cover problem. CoRR abs/1302.5820 (2013) - 2012
- [j7]Jianer Chen, Yang Liu, Songjian Lu, Sing-Hoi Sze, Fenghui Zhang:
Iterative Expansion and Color Coding: An Improved Algorithm for 3D-Matching. ACM Trans. Algorithms 8(1): 6:1-6:22 (2012) - 2011
- [j6]Jianer Chen, Qilong Feng, Yang Liu, Songjian Lu, Jianxin Wang:
Improved deterministic algorithms for weighted matching and packing problems. Theor. Comput. Sci. 412(23): 2503-2512 (2011) - [c9]Songjian Lu, Xinghua Lu:
A graph model and an exact algorithm for finding transcription factor modules. BCB 2011: 355-359
2000 – 2009
- 2009
- [j5]Jianer Chen, Songjian Lu:
Improved Parameterized Set Splitting Algorithms: A Probabilistic Approach. Algorithmica 54(4): 472-489 (2009) - [j4]Jianer Chen, Yang Liu, Songjian Lu:
An Improved Parameterized Algorithm for the Minimum Node Multiway Cut Problem. Algorithmica 55(1): 1-13 (2009) - [c8]Qilong Feng, Yang Liu, Songjian Lu, Jianxin Wang:
Improved Deterministic Algorithms for Weighted Matching and Packing Problems. TAMC 2009: 211-220 - 2008
- [j3]Jianer Chen, Yang Liu, Songjian Lu, Barry O'Sullivan, Igor Razgon:
A fixed-parameter algorithm for the directed feedback vertex set problem. J. ACM 55(5): 21:1-21:19 (2008) - [j2]Jianer Chen, Fedor V. Fomin, Yang Liu, Songjian Lu, Yngve Villanger:
Improved algorithms for feedback vertex set problems. J. Comput. Syst. Sci. 74(7): 1188-1198 (2008) - [c7]Jianer Chen, Yang Liu, Songjian Lu, Barry O'Sullivan, Igor Razgon:
A fixed-parameter algorithm for the directed feedback vertex set problem. STOC 2008: 177-186 - 2007
- [j1]Songjian Lu, Fenghui Zhang, Jianer Chen, Sing-Hoi Sze:
Finding Pathway Structures in Protein Interaction Networks. Algorithmica 48(4): 363-374 (2007) - [c6]Jianer Chen, Songjian Lu:
Improved Algorithms for Weighted and Unweighted Set Splitting Problems. COCOON 2007: 537-547 - [c5]Jianer Chen, Songjian Lu, Sing-Hoi Sze, Fenghui Zhang:
Improved algorithms for path, matching, and packing problems. SODA 2007: 298-307 - [c4]Jianer Chen, Fedor V. Fomin, Yang Liu, Songjian Lu, Yngve Villanger:
Improved Algorithms for the Feedback Vertex Set Problems. WADS 2007: 422-433 - [c3]Jianer Chen, Yang Liu, Songjian Lu:
An Improved Parameterized Algorithm for the Minimum Node Multiway Cut Problem. WADS 2007: 495-506 - [i1]Jianer Chen, Yang Liu, Songjian Lu:
Directed Feedback Vertex Set Problem is FPT. Structure Theory and FPT Algorithmics for Graphs, Digraphs and Hypergraphs 2007 - 2006
- [c2]Yang Liu, Songjian Lu, Jianer Chen, Sing-Hoi Sze:
Greedy Localization and Color-Coding: Improved Matching and Packing Algorithms. IWPEC 2006: 84-95 - 2004
- [c1]Sing-Hoi Sze, Songjian Lu, Jianer Chen:
Integrating Sample-Driven and Pattern-Driven Approaches in Motif Finding. WABI 2004: 438-449
Coauthor Index
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