Russell L. Malmberg

According to our database, Russell L. Malmberg authored at least 29 papers between 2003 and 2021.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2021

Human MicroRNA Target Prediction via Multi-Hypotheses Learning.

Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Liming Cai

J. Comput. Biol., 2021

2019

A Multi-hypothesis Learning Algorithm for Human and Mouse miRNA Target Prediction.

Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Liming Cai

Proceedings of the Computational Advances in Bio and Medical Sciences, 2019

2018

Accurate prediction of human miRNA targets via graph modeling of the miRNA-target duplex.

Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Cory Momany, Khaled Rasheed, Liming Cai

J. Bioinform. Comput. Biol., 2018

Efficient Learning of Optimal Markov Network Topology with k-Tree Modeling.

Liang Ding, Di Chang, Russell L. Malmberg, Aaron Martínez, David Robinson, Matthew Wicker, Hongfei Yan, Liming Cai

CoRR, 2018

2016

Genome-wide identification and evolutionary analysis of long non-coding RNAs in cereals.

Ying Sun, Willie L. Rogers, Katrien M. Devos, Liming Cai, Russell L. Malmberg

Proceedings of the 6th IEEE International Conference on Computational Advances in Bio and Medical Sciences, 2016

2015

Accurate prediction of RNA nucleotide interactions with backbone <i>k</i>-tree model.

Liang Ding, Xingran Xue, Sal LaMarca, Mohammad Mohebbi, Abdul Samad, Russell L. Malmberg, Liming Cai

Bioinform., 2015

2014

Stochastic k-Tree Grammar and Its Application in Biomolecular Structure Modeling.

Liang Ding, Abdul Samad, Xingran Xue, Xiuzhen Huang, Russell L. Malmberg, Liming Cai

Proceedings of the Language and Automata Theory and Applications, 2014

Ab initio Prediction of RNA Nucleotide Interactions with Backbone <i>k</i>-Tree Model.

Liang Ding, Xingran Xue, Sal LaMarca, Mohammad Mohebbi, Abdul Samad, Russell L. Malmberg, Liming Cai

Proceedings of the 1st Workshop on Computational Methods for Structural RNAs (CMSR 2014), 2014

2013

Patterns of Chromatin-Modifications Discriminate Different Genomic Features in <i>Arabidopsis</i>.

Anuj Srivastava, Xiaoyu Zhang, Sal LaMarca, Liming Cai, Russell L. Malmberg

Proceedings of the Bioinformatics Research and Applications, 9th International Symposium, 2013

Protein Closed Loop Prediction from Contact Probabilities.

Liang Ding, Joseph Robertson, Russell L. Malmberg, Liming Cai

Proceedings of the Bioinformatics Research and Applications, 9th International Symposium, 2013

2012

Stable stem enabled Shannon entropies distinguish non-coding RNAs from random backgrounds.

Yingfeng Wang, Amir Manzour, Pooya Shareghi, Timothy I. Shaw, Ying-Wai Li, Russell L. Malmberg, Liming Cai

BMC Bioinform., 2012

TRFolder-W: a web server for telomerase RNA structure prediction in yeast genomes.

Dong Zhang, Xingran Xue, Russell L. Malmberg, Liming Cai

Bioinform., 2012

2011

Analyzing Modular RNA Structure reveals Low Global Structural Entropy in microRNA Sequence.

Timothy I. Shaw, Amir Manzour, Yingfeng Wang, Russell L. Malmberg, Liming Cai

J. Bioinform. Comput. Biol., 2011

TRFolder: computational prediction of novel telomerase RNA structures in yeast genomes.

Leilei Guo, Dong Zhang, Yingfeng Wang, Russell L. Malmberg, Michael J. McEachern, Liming Cai

Int. J. Bioinform. Res. Appl., 2011

Simultaneous Prediction of RNA Secondary Structure and Helix Coaxial Stacking.

Pooya Shareghi, Yingfeng Wang, Russell L. Malmberg, Liming Cai

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011

2010

RNApasta: a tool for analysis of RNA structural alignments.

Russell L. Malmberg, Timothy I. Shaw, Liming Cai

Int. J. Bioinform. Res. Appl., 2010

2009

RNATOPS-W: a web server for RNA structure searches of genomes.

Yingfeng Wang, Zhibin Huang, Yong Wu, Russell L. Malmberg, Liming Cai

Bioinform., 2009

2008

Fast and accurate search for non-coding RNA pseudoknot structures in genomes.

Zhibin Huang, Yong Wu, Joseph Robertson, Liang Feng, Russell L. Malmberg, Liming Cai

Bioinform., 2008

2006

Efficient Parameterized Algorithms for Biopolymer Structure-Sequence Alignment.

Yinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai

IEEE ACM Trans. Comput. Biol. Bioinform., 2006

Memory efficient alignment between RNA sequences and stochastic grammar models of pseudoknots.

Yinglei Song, Chunmei Liu, Russell L. Malmberg, Congzhou He, Liming Cai

Int. J. Bioinform. Res. Appl., 2006

Rapid <i>ab initio</i> RNA Folding Including Pseudoknots Via Graph Tree Decomposition.

Jizhen Zhao, Russell L. Malmberg, Liming Cai

Proceedings of the Algorithms in Bioinformatics, 6th International Workshop, 2006

Phylogenetic Network Inferences Through Efficient Haplotyping.

Yinglei Song, Chunmei Liu, Russell L. Malmberg, Liming Cai

Proceedings of the Algorithms in Bioinformatics, 6th International Workshop, 2006

Learning the Parameters of Stochastic Grammar Models for RNA Structures with Pseudoknots.

Jizhen Zhao, Liming Cai, Russell L. Malmberg

Proceedings of the 2006 IEEE International Conference on Granular Computing, 2006

2005

Profiling and Searching for RNA Pseudoknot Structures in Genomes.

Chunmei Liu, Yinglei Song, Russell L. Malmberg, Liming Cai

Trans. Comp. Sys. Biology, 2005

RNA Structural Homology Search with a Succinct Stochastic Grammar Model.

Yinglei Song, Jizhen Zhao, Chunmei Liu, Kan Liu, Russell L. Malmberg, Liming Cai

J. Comput. Sci. Technol., 2005

Efficient Parameterized Algorithm for Biopolymer Structure-Sequence Alignment.

Yinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai

Proceedings of the Algorithms in Bioinformatics, 5th International Workshop, 2005

Tree Decomposition Based Fast Search of RNA Structures Including Pseudoknots in Genomes.

Yinglei Song, Chunmei Liu, Russell L. Malmberg, Fangfang Pan, Liming Cai

Proceedings of the Fourth International IEEE Computer Society Computational Systems Bioinformatics Conference, 2005

2004

LumberJack: a heuristic tool for sequence alignment exploration and phylogenetic inference.

Carolyn J. Lawrence, Christian M. Zmasek, R. Kelly Dawe, Russell L. Malmberg

Bioinform., 2004

2003

Stochastic modeling of RNA pseudoknotted structures: a grammatical approach.

Liming Cai, Russell L. Malmberg, Yunzhou Wu

Proceedings of the Eleventh International Conference on Intelligent Systems for Molecular Biology, June 29, 2003