Russell L. Malmberg

32 papers C 4Misc 2Journal 16Unranked 10

Year	Rank	Type	Title / Venue / Authors
2021	J	`jnl`	Human MicroRNA Target Prediction via Multi-Hypotheses Learning. J. Comput. Biol. Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Liming Cai
2019	—	`conf`	A Multi-hypothesis Learning Algorithm for Human and Mouse miRNA Target Prediction. ICCABS Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Liming Cai
2018	J	`jnl`	Accurate prediction of human miRNA targets via graph modeling of the miRNA-target duplex. J. Bioinform. Comput. Biol. Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Cory Momany, Khaled Rasheed, Liming Cai
2018	J	`jnl`	Efficient Learning of Optimal Markov Network Topology with k-Tree Modeling. CoRR Liang Ding, Di Chang, Russell L. Malmberg, Aaron Martínez, David Robinson, Matthew Wicker, Hongfei Yan, Liming Cai
2016	—	`conf`	Accurate prediction of human miRNA targets via graph modeling of miRNA-target duplex. ICCABS Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Cory Momany, Khaled Rasheed, Liming Cai
2016	—	`conf`	Genome-wide identification and evolutionary analysis of long non-coding RNAs in cereals. ICCABS Ying Sun, Willie L. Rogers, Katrien M. Devos, Liming Cai, Russell L. Malmberg
2015	J	`jnl`	Accurate prediction of RNA nucleotide interactions with backbone Bioinform. Liang Ding, Xingran Xue, Sal LaMarca, Mohammad Mohebbi, Abdul Samad, Russell L. Malmberg, Liming Cai
2014	—	`conf`	Ab initio Prediction of RNA Nucleotide Interactions with Backbone CMSR@ECCB Liang Ding, Xingran Xue, Sal LaMarca, Mohammad Mohebbi, Abdul Samad, Russell L. Malmberg, Liming Cai
2014	C	`conf`	Stochastic k-Tree Grammar and Its Application in Biomolecular Structure Modeling. LATA Liang Ding, Abdul Samad, Xingran Xue, Xiuzhen Huang, Russell L. Malmberg, Liming Cai
2013	—	`conf`	Patterns of Chromatin-Modifications Discriminate Different Genomic Features in ISBRA Anuj Srivastava, Xiaoyu Zhang, Sal LaMarca, Liming Cai, Russell L. Malmberg
2013	—	`conf`	Protein Closed Loop Prediction from Contact Probabilities. ISBRA Liang Ding, Joseph Robertson, Russell L. Malmberg, Liming Cai
2012	J	`jnl`	Stable stem enabled Shannon entropies distinguish non-coding RNAs from random backgrounds. BMC Bioinform. Yingfeng Wang, Amir Manzour, Pooya Shareghi, Timothy I. Shaw, Ying-Wai Li, Russell L. Malmberg, Liming Cai
2012	J	`jnl`	TRFolder-W: a web server for telomerase RNA structure prediction in yeast genomes. Bioinform. Dong Zhang, Xingran Xue, Russell L. Malmberg, Liming Cai
2011	J	`jnl`	Analyzing Modular RNA Structure reveals Low Global Structural Entropy in microRNA Sequence. J. Bioinform. Comput. Biol. Timothy I. Shaw, Amir Manzour, Yingfeng Wang, Russell L. Malmberg, Liming Cai
2011	—	`conf`	Simultaneous Prediction of RNA Secondary Structure and Helix Coaxial Stacking. BIBM Pooya Shareghi, Yingfeng Wang, Russell L. Malmberg, Liming Cai
2011	—	`conf`	Stable stem enabled shannon entropies distinguish non-coding RNAs from random backgrounds. ICCABS Yingfeng Wang, Amir Manzour, Pooya Shareghi, Timothy I. Shaw, Ying-Wai Li, Russell L. Malmberg, Liming Cai
2011	J	`jnl`	TRFolder: computational prediction of novel telomerase RNA structures in yeast genomes. Int. J. Bioinform. Res. Appl. Leilei Guo, Dong Zhang, Yingfeng Wang, Russell L. Malmberg, Michael J. McEachern, Liming Cai
2010	J	`jnl`	RNApasta: a tool for analysis of RNA structural alignments. Int. J. Bioinform. Res. Appl. Russell L. Malmberg, Timothy I. Shaw, Liming Cai
2009	J	`jnl`	RNATOPS-W: a web server for RNA structure searches of genomes. Bioinform. Yingfeng Wang, Zhibin Huang, Yong Wu, Russell L. Malmberg, Liming Cai
2008	J	`jnl`	Fast and accurate search for non-coding RNA pseudoknot structures in genomes. Bioinform. Zhibin Huang, Yong Wu, Joseph Robertson, Liang Feng, Russell L. Malmberg, Liming Cai
2006	J	`jnl`	Efficient Parameterized Algorithms for Biopolymer Structure-Sequence Alignment. IEEE ACM Trans. Comput. Biol. Bioinform. Yinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai
2006	Misc	`conf`	Learning the Parameters of Stochastic Grammar Models for RNA Structures with Pseudoknots. GrC Jizhen Zhao, Liming Cai, Russell L. Malmberg
2006	J	`jnl`	Memory efficient alignment between RNA sequences and stochastic grammar models of pseudoknots. Int. J. Bioinform. Res. Appl. Yinglei Song, Chunmei Liu, Russell L. Malmberg, Congzhou He, Liming Cai
2006	C	`conf`	Phylogenetic Network Inferences Through Efficient Haplotyping. WABI Yinglei Song, Chunmei Liu, Russell L. Malmberg, Liming Cai
2006	C	`conf`	Rapid WABI Jizhen Zhao, Russell L. Malmberg, Liming Cai
2005	C	`conf`	Efficient Parameterized Algorithm for Biopolymer Structure-Sequence Alignment. WABI Yinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai
2005	Misc	`conf`	Profiling and Searching for RNA Pseudoknot Structures in Genomes. International Conference on Computational Science (2) Chunmei Liu, Yinglei Song, Russell L. Malmberg, Liming Cai
2005	J	`jnl`	Profiling and Searching for RNA Pseudoknot Structures in Genomes. Trans. Comp. Sys. Biology Chunmei Liu, Yinglei Song, Russell L. Malmberg, Liming Cai
2005	J	`jnl`	RNA Structural Homology Search with a Succinct Stochastic Grammar Model. J. Comput. Sci. Technol. Yinglei Song, Jizhen Zhao, Chunmei Liu, Kan Liu, Russell L. Malmberg, Liming Cai
2005	—	`conf`	Tree Decomposition Based Fast Search of RNA Structures Including Pseudoknots in Genomes. CSB Yinglei Song, Chunmei Liu, Russell L. Malmberg, Fangfang Pan, Liming Cai
2004	J	`jnl`	LumberJack: a heuristic tool for sequence alignment exploration and phylogenetic inference. Bioinform. Carolyn J. Lawrence, Christian M. Zmasek, R. Kelly Dawe, Russell L. Malmberg
2003	—	`conf`	Stochastic modeling of RNA pseudoknotted structures: a grammatical approach. ISMB (Supplement of Bioinformatics) Liming Cai, Russell L. Malmberg, Yunzhou Wu