Russell L. Malmberg

Publication Activity (10 Years)

Years Active: 2003-2021
Publications (10 Years): 6

Top Topics

Protein Interaction

Network Topology

Gene Regulation

Efficient Learning

Top Venues

Publications

Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Liming Cai
Human MicroRNA Target Prediction via Multi-Hypotheses Learning. J. Comput. Biol. 28 (2) (2021)
Mohammad Mohebbi, Liang Ding, Russell L. Malmberg, Liming Cai
A Multi-hypothesis Learning Algorithm for Human and Mouse miRNA Target Prediction. ICCABS (2019)
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 (2018)
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) (2018)
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)
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)
Liang Ding, Xingran Xue, Sal LaMarca, Mohammad Mohebbi, Abdul Samad, Russell L. Malmberg, Liming Cai
-tree model. Bioinform. 31 (16) (2015)
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)
Liang Ding, Xingran Xue, Sal LaMarca, Mohammad Mohebbi, Abdul Samad, Russell L. Malmberg, Liming Cai
-Tree Model. CMSR@ECCB (2014)
Liang Ding, Joseph Robertson, Russell L. Malmberg, Liming Cai
Protein Closed Loop Prediction from Contact Probabilities. ISBRA (2013)
Anuj Srivastava, Xiaoyu Zhang, Sal LaMarca, Liming Cai, Russell L. Malmberg
. ISBRA (2013)
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) (2012)
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) (2012)
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) (2011)
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) (2011)
Pooya Shareghi, Yingfeng Wang, Russell L. Malmberg, Liming Cai
Simultaneous Prediction of RNA Secondary Structure and Helix Coaxial Stacking. BIBM (2011)
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)
Russell L. Malmberg, Timothy I. Shaw, Liming Cai
RNApasta: a tool for analysis of RNA structural alignments. Int. J. Bioinform. Res. Appl. 6 (6) (2010)
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) (2009)
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) (2008)
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) (2006)
Jizhen Zhao, Russell L. Malmberg, Liming Cai
RNA Folding Including Pseudoknots Via Graph Tree Decomposition. WABI (2006)
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) (2006)
Jizhen Zhao, Liming Cai, Russell L. Malmberg
Learning the Parameters of Stochastic Grammar Models for RNA Structures with Pseudoknots. GrC (2006)
Yinglei Song, Chunmei Liu, Russell L. Malmberg, Liming Cai
Phylogenetic Network Inferences Through Efficient Haplotyping. WABI (2006)
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)
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) (2005)
Chunmei Liu, Yinglei Song, Russell L. Malmberg, Liming Cai
Profiling and Searching for RNA Pseudoknot Structures in Genomes. Trans. Comp. Sys. Biology 2 (2005)
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)
Yinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai
Efficient Parameterized Algorithm for Biopolymer Structure-Sequence Alignment. WABI (2005)
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) (2004)
Liming Cai, Russell L. Malmberg, Yunzhou Wu
Stochastic modeling of RNA pseudoknotted structures: a grammatical approach. ISMB (Supplement of Bioinformatics) (2003)