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ORCIDRussell L. Malmberg
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2020 – today
- 2021
[j15]Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Liming Cai:
Human MicroRNA Target Prediction via Multi-Hypotheses Learning. J. Comput. Biol. 28(2): 117-132 (2021)
2010 – 2019
- 2019
- [c16]Mohammad Mohebbi
, Liang Ding, Russell L. Malmberg, Liming Cai:
A Multi-hypothesis Learning Algorithm for Human and Mouse miRNA Target Prediction. ICCABS 2019: 102-120 - 2018
- [j14]Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Cory Momany, Khaled Rasheed, Liming Cai:
Accurate prediction of human miRNA targets via graph modeling of the miRNA-target duplex. J. Bioinform. Comput. Biol. 16(4): 1850013:1-1850013:18 (2018) - [i1]Liang Ding, Di Chang, Russell L. Malmberg, Aaron Martínez, David Robinson, Matthew Wicker, Hongfei Yan, Liming Cai:
Efficient Learning of Optimal Markov Network Topology with k-Tree Modeling. CoRR abs/1801.06900 (2018) - 2016
- [c15]Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Cory Momany, Khaled Rasheed, Liming Cai:
Accurate prediction of human miRNA targets via graph modeling of miRNA-target duplex. ICCABS 2016: 1 - [c14]Ying Sun, Willie L. Rogers, Katrien M. Devos, Liming Cai, Russell L. Malmberg:
Genome-wide identification and evolutionary analysis of long non-coding RNAs in cereals. ICCABS 2016: 1 - 2015
- [j13]Liang Ding, Xingran Xue, Sal LaMarca, Mohammad Mohebbi, Abdul Samad, Russell L. Malmberg, Liming Cai:
Accurate prediction of RNA nucleotide interactions with backbone k-tree model. Bioinform. 31(16): 2660-2667 (2015) - 2014
- [c13]Liang Ding, Xingran Xue, Sal LaMarca, Mohammad Mohebbi, Abdul Samad, Russell L. Malmberg, Liming Cai:
Ab initio Prediction of RNA Nucleotide Interactions with Backbone k-Tree Model. CMSR@ECCB 2014: 25-42 - [c12]Liang Ding, Abdul Samad, Xingran Xue, Xiuzhen Huang, Russell L. Malmberg, Liming Cai:
Stochastic k-Tree Grammar and Its Application in Biomolecular Structure Modeling. LATA 2014: 308-322 - 2013
- [c11]Anuj Srivastava, Xiaoyu Zhang, Sal LaMarca, Liming Cai, Russell L. Malmberg:
Patterns of Chromatin-Modifications Discriminate Different Genomic Features in Arabidopsis. ISBRA 2013: 52-63 - [c10]Liang Ding, Joseph Robertson, Russell L. Malmberg, Liming Cai:
Protein Closed Loop Prediction from Contact Probabilities. ISBRA 2013: 199-210 - 2012
- [j12]Dong Zhang, Xingran Xue, Russell L. Malmberg, Liming Cai:
TRFolder-W: a web server for telomerase RNA structure prediction in yeast genomes. Bioinform. 28(20): 2696-2697 (2012) - [j11]Yingfeng Wang, Amir Manzour, Pooya Shareghi, Timothy I. Shaw, Ying-Wai Li, Russell L. Malmberg, Liming Cai:
Stable stem enabled Shannon entropies distinguish non-coding RNAs from random backgrounds. BMC Bioinform. 13(S-5): S1 (2012) - 2011
- [j10]Leilei Guo, Dong Zhang, Yingfeng Wang, Russell L. Malmberg, Michael J. McEachern, Liming Cai:
TRFolder: computational prediction of novel telomerase RNA structures in yeast genomes. Int. J. Bioinform. Res. Appl. 7(1): 63-81 (2011) - [j9]Timothy I. Shaw, Amir Manzour, Yingfeng Wang, Russell L. Malmberg, Liming Cai:
Analyzing Modular RNA Structure reveals Low Global Structural Entropy in microRNA Sequence. J. Bioinform. Comput. Biol. 9(2): 283-298 (2011) - [c9]Pooya Shareghi, Yingfeng Wang, Russell L. Malmberg, Liming Cai:
Simultaneous Prediction of RNA Secondary Structure and Helix Coaxial Stacking. BIBM 2011: 89-95 - [c8]Yingfeng Wang, Amir Manzour, Pooya Shareghi, Timothy I. Shaw, Ying-Wai Li, Russell L. Malmberg, Liming Cai:
Stable stem enabled shannon entropies distinguish non-coding RNAs from random backgrounds. ICCABS 2011: 184-189 - 2010
- [j8]Russell L. Malmberg, Timothy I. Shaw, Liming Cai:
RNApasta: a tool for analysis of RNA structural alignments. Int. J. Bioinform. Res. Appl. 6(6): 571-583 (2010)
2000 – 2009
- 2009
- [j7]Yingfeng Wang, Zhibin Huang, Yong Wu, Russell L. Malmberg, Liming Cai:
RNATOPS-W: a web server for RNA structure searches of genomes. Bioinform. 25(8): 1080-1081 (2009) - 2008
- [j6]Zhibin Huang, Yong Wu, Joseph Robertson, Liang Feng, Russell L. Malmberg, Liming Cai:
Fast and accurate search for non-coding RNA pseudoknot structures in genomes. Bioinform. 24(20): 2281-2287 (2008) - 2006
- [j5]Yinglei Song, Chunmei Liu, Russell L. Malmberg, Congzhou He, Liming Cai:
Memory efficient alignment between RNA sequences and stochastic grammar models of pseudoknots. Int. J. Bioinform. Res. Appl. 2(3): 289-304 (2006) - [j4]Yinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai:
Efficient Parameterized Algorithms for Biopolymer Structure-Sequence Alignment. IEEE ACM Trans. Comput. Biol. Bioinform. 3(4): 423-432 (2006) - [c7]Jizhen Zhao, Liming Cai, Russell L. Malmberg:
Learning the Parameters of Stochastic Grammar Models for RNA Structures with Pseudoknots. GrC 2006: 170-175 - [c6]Yinglei Song, Chunmei Liu, Russell L. Malmberg, Liming Cai:
Phylogenetic Network Inferences Through Efficient Haplotyping. WABI 2006: 68-79 - [c5]Jizhen Zhao, Russell L. Malmberg, Liming Cai:
Rapid ab initio RNA Folding Including Pseudoknots Via Graph Tree Decomposition. WABI 2006: 262-273 - 2005
- [j3]Yinglei Song, Jizhen Zhao, Chunmei Liu, Kan Liu, Russell L. Malmberg, Liming Cai:
RNA Structural Homology Search with a Succinct Stochastic Grammar Model. J. Comput. Sci. Technol. 20(4): 454-464 (2005) - [j2]Chunmei Liu, Yinglei Song, Russell L. Malmberg, Liming Cai:
Profiling and Searching for RNA Pseudoknot Structures in Genomes. Trans. Comp. Sys. Biology 2: 37-47 (2005) - [c4]Yinglei Song, Chunmei Liu, Russell L. Malmberg, Fangfang Pan, Liming Cai:
Tree Decomposition Based Fast Search of RNA Structures Including Pseudoknots in Genomes. CSB 2005: 223-234 - [c3]Chunmei Liu, Yinglei Song, Russell L. Malmberg, Liming Cai:
Profiling and Searching for RNA Pseudoknot Structures in Genomes. International Conference on Computational Science (2) 2005: 968-975 - [c2]Yinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai:
Efficient Parameterized Algorithm for Biopolymer Structure-Sequence Alignment. WABI 2005: 376-388 - 2004
- [j1]Carolyn J. Lawrence, Christian M. Zmasek, R. Kelly Dawe, Russell L. Malmberg:
LumberJack: a heuristic tool for sequence alignment exploration and phylogenetic inference. Bioinform. 20(12): 1977-1979 (2004) - 2003
- [c1]Liming Cai, Russell L. Malmberg, Yunzhou Wu:
Stochastic modeling of RNA pseudoknotted structures: a grammatical approach. ISMB (Supplement of Bioinformatics) 2003: 66-73
Coauthor Index
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