Sridhar Hannenhalli

50 papers A* 4A 1B 4C 4Misc 1Journal 24Unranked 11

Year	Rank	Type	Title / Venue / Authors
2021	J	`jnl`	PathExt: a general framework for path-based mining of omics-integrated biological networks. Bioinform. Narmada Sambaturu, Vaidehi Pusadkar, Sridhar Hannenhalli, Nagasuma Chandra
2021	J	`jnl`	Prioritizing and characterizing functionally relevant genes across human tissues. PLoS Comput. Biol. Gowthami Somepalli, Sarthak Sahoo, Arashdeep Singh, Sridhar Hannenhalli
2019	J	`jnl`	ChIPulate: A comprehensive ChIP-seq simulation pipeline. PLoS Comput. Biol. Vishaka Datta, Sridhar Hannenhalli, Rahul Siddharthan
2017	J	`jnl`	A network diffusion approach to inferring sample-specific function reveals functional changes associated with breast cancer. PLoS Comput. Biol. Sushant Patkar, Assaf Magen, Roded Sharan, Sridhar Hannenhalli
2015	—	`conf`	Chromatin and genomic determinants of alternative splicing. BCB Kun Wang, Kan Cao, Sridhar Hannenhalli
2015	J	`jnl`	Phenotype-Dependent Coexpression Gene Clusters: Application to Normal and Premature Ageing. IEEE ACM Trans. Comput. Biol. Bioinform. Kun Wang, Avinash Das Sahu, Zheng-Mei Xiong, Kan Cao, Sridhar Hannenhalli
2015	J	`jnl`	Regulated CRISPR Modules Exploit a Dual Defense Strategy of Restriction and Abortive Infection in a Model of Prokaryote-Phage Coevolution. PLoS Comput. Biol. M. Senthil Kumar, Joshua B. Plotkin, Sridhar Hannenhalli
2013	Misc	`conf`	Epigenomic Model of Cardiac Enhancers with Application to Genome Wide Association Studies. Pacific Symposium on Biocomputing Avinash Das Sahu, Radhouane Aniba, Yen-Pei Christy Chang, Sridhar Hannenhalli
2013	—	`conf`	Identification of gene clusters with phenotype-dependent expression with application to normal and premature ageing. BCB Kun Wang, Avinash Das Sahu, Zheng-Mei Xiong, Kan Cao, Sridhar Hannenhalli
2013	J	`jnl`	Inferring evolution of gene duplicates using probabilistic models and nonparametric belief propagation. BMC Genom. Jia Zeng, Sridhar Hannenhalli
2013	—	`conf`	Topological properties of chromosome conformation graphs reflect spatial proximities within chromatin. BCB Hao Wang, Geet Duggal, Rob Patro, Michelle Girvan, Sridhar Hannenhalli, Carl Kingsford
2013	J	`jnl`	Widespread evidence of viral miRNAs targeting host pathways. BMC Bioinform. Joseph W. Carl, Joanne Trgovcich, Sridhar Hannenhalli
2010	J	`jnl`	Mimosa: Mixture model of co-expression to detect modulators of regulatory interaction. Algorithms Mol. Biol. Matthew Hansen, Logan Everett, Larry N. Singh, Sridhar Hannenhalli
2009	C	`conf`	Mimosa: Mixture Model of Co-expression to Detect Modulators of Regulatory Interaction. WABI Matthew Hansen, Logan Everett, Larry N. Singh, Sridhar Hannenhalli
2009	J	`jnl`	PTM-Switchboard - a database of posttranslational modifications of transcription factors, the mediating enzymes and target genes. Nucleic Acids Res. Logan Everett, Antony Vo, Sridhar Hannenhalli
2008	J	`jnl`	A Tutorial of the Poisson Random Field Model in Population Genetics. Adv. Bioinformatics Praveen Sethupathy, Sridhar Hannenhalli
2008	J	`jnl`	Eukaryotic transcription factor binding sites - modeling and integrative search methods. Bioinform. Sridhar Hannenhalli
2008	J	`jnl`	Guest Editors' Introduction to the Special Section on Algorithms in Bioinformatics. IEEE ACM Trans. Comput. Biol. Bioinform. Raffaele Giancarlo, Sridhar Hannenhalli
2007	C	`ed.`	Algorithms in Bioinformatics, 7th International Workshop, WABI 2007, Philadelphia, PA, USA, September 8-9, 2007, Proceedings WABI Raffaele Giancarlo, Sridhar Hannenhalli
2006	—	`conf`	Conservation Patterns in Comparative Genomics Perry Evans, Greg Donahue, Sridhar Hannenhalli
2006	—	`conf`	Dense subgraph computation via stochastic search: application to detect transcriptional modules. ISMB (Supplement of Bioinformatics) Logan Everett, Li-San Wang, Sridhar Hannenhalli
2006	J	`jnl`	Selection of Target Sites for Mobile DNA Integration in the Human Genome. PLoS Comput. Biol. Charles C. Berry, Sridhar Hannenhalli, Jeremy Leipzig, Frederic D. Bushman
2005	—	`conf`	An Interaction-Dependent Model for Transcription Factor Binding. Systems Biology and Regulatory Genomics Li-San Wang, Shane T. Jensen, Sridhar Hannenhalli
2005	—	`conf`	Enhanced position weight matrices using mixture models. ISMB (Supplement of Bioinformatics) Sridhar Hannenhalli, Li-San Wang
2005	J	`jnl`	Generalizations of Markov model to characterize biological sequences. BMC Bioinform. Junwen Wang, Sridhar Hannenhalli
2004	J	`jnl`	A Note on Efficient Computation of Haplotypes via Perfect Phylogeny. J. Comput. Biol. Vineet Bafna, Dan Gusfield, Sridhar Hannenhalli, Shibu Yooseph
2002	A	`conf`	1.375-Approximation Algorithm for Sorting by Reversals. ESA Piotr Berman, Sridhar Hannenhalli, Marek Karpinski
2002	B	`ed.`	Proceedings of the Sixth Annual International Conference on Computational Biology, RECOMB 2002, Washington, DC, USA, April 18-21, 2002 RECOMB Gene Myers, Sridhar Hannenhalli, David Sankoff, Sorin Istrail, Pavel A. Pevzner, Michael S. Waterman
2001	J	`jnl`	1.375-Approximation Algorithm for Sorting by Reversals Electron. Colloquium Comput. Complex. Piotr Berman, Sridhar Hannenhalli, Marek Karpinski
2001	J	`jnl`	Enrichment of regulatory signals in conserved non-coding genomic sequence. Bioinform. Samuel Levy, Sridhar Hannenhalli, Christopher T. Workman
2001	—	`conf`	Promoter prediction in the human genome. ISMB (Supplement of Bioinformatics) Sridhar Hannenhalli, Samuel Levy
2000	J	`jnl`	Ligand-Receptor Pairing Via Tree Comparison. J. Comput. Biol. Vineet Bafna, Sridhar Hannenhalli, Ken Rice, Lisa Vawter
1999	J	`jnl`	Transforming Cabbage into Turnip: Polynomial Algorithm for Sorting Signed Permutations by Reversals. J. ACM Sridhar Hannenhalli, Pavel A. Pevzner
1997	J	`jnl`	Hardness of Flip-Cut Problems from Optical Mapping. J. Comput. Biol. Vlado Dancík, Sridhar Hannenhalli, S. Muthukrishnan
1997	—	`conf`	Hardness of flip-cut problems from optical mapping [DNA molecules application]. SEQUENCES Vlado Dancík, Sridhar Hannenhalli, S. Muthukrishnan
1997	A*	`conf`	Local Rules for Protein Folding on a Triangular Lattice and Generalized Hydrophobicity in the HP Model. SODA Richa Agarwala, Serafim Batzoglou, Vlado Dancík, Scott E. Decatur, Martin Farach, Sridhar Hannenhalli, Steven Skiena
1997	J	`jnl`	Local Rules for Protein Folding on a Triangular Lattice and Generalized Hydrophobicity in the HP Model. J. Comput. Biol. Richa Agarwala, Serafim Batzoglou, Vlado Dancík, Scott E. Decatur, Sridhar Hannenhalli, Martin Farach, S. Muthukrishnan, Steven Skiena
1997	B	`conf`	Local rules for protein folding on a triangular lattice and generalized hydrophobicity in the HP model. RECOMB Richa Agarwala, Serafim Batzoglou, Vlado Dancík, Scott E. Decatur, Martin Farach, Sridhar Hannenhalli, S. Muthukrishnan, Steven Skiena
1996	B	`conf`	Fast Sorting by Reversal. CPM Piotr Berman, Sridhar Hannenhalli
1996	J	`jnl`	Polynomial-time Algorithm for Computing Translocation Distance Between Genomes. Discret. Appl. Math. Sridhar Hannenhalli
1996	J	`jnl`	Positional sequencing by hybridization. Comput. Appl. Biosci. Sridhar Hannenhalli, William Feldman, Herbert F. Lewis, Steven Skiena, Pavel A. Pevzner
1996	A*	`conf`	To Cut... or Not to Cut (Applications of Comparative Physical Maps in Molecular Evolution). SODA Sridhar Hannenhalli, Pavel A. Pevzner
1995	B	`conf`	Polynomial-time Algorithm for Computing Translocation Distance between Genomes. CPM Sridhar Hannenhalli
1995	—	`ch.`	Towards a Computational Theory of Genome Rearrangements. Computer Science Today Sridhar Hannenhalli, Pavel A. Pevzner
1995	A*	`conf`	Transforming Men into Mice (Polynomial Algorithm for Genomic Distance Problem). FOCS Sridhar Hannenhalli, Pavel A. Pevzner
1995	A*	`conf`	Transforming cabbage into turnip: polynomial algorithm for sorting signed permutations by reversals. STOC Sridhar Hannenhalli, Pavel A. Pevzner
1994	—	`conf`	A SIMD solution to the sequence comparison problem on the MGAP. ASAP Manjit Borah, Raminder Singh Bajwa, Sridhar Hannenhalli, Mary Jane Irwin
1993	C	`conf`	A Distributed Algorithm for Ear Decomposition. ICCI Sridhar Hannenhalli, Kalyan S. Perumalla, N. Chandrasekharan, R. Sridhar
1992	C	`conf`	Efficient Algorithms for Computing Matching and Chromatic Polynominals on Series-Parallel Graphs. ICCI N. Chandrasekharan, Sridhar Hannenhalli
1991	—	`conf`	Parallel Transitive Closure Computations Using Topological Sort. PDIS Kien A. Hua, Sridhar Hannenhalli