Sridhar Hannenhalli

According to our database, Sridhar Hannenhalli authored at least 43 papers between 1991 and 2021.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2021

Prioritizing and characterizing functionally relevant genes across human tissues.

Gowthami Somepalli, Sarthak Sahoo, Arashdeep Singh, Sridhar Hannenhalli

PLoS Comput. Biol., 2021

PathExt: a general framework for path-based mining of omics-integrated biological networks.

Narmada Sambaturu, Vaidehi Pusadkar, Sridhar Hannenhalli, Nagasuma Chandra

Bioinform., 2021

2019

ChIPulate: A comprehensive ChIP-seq simulation pipeline.

Vishaka Datta, Sridhar Hannenhalli, Rahul Siddharthan

PLoS Comput. Biol., 2019

2017

A network diffusion approach to inferring sample-specific function reveals functional changes associated with breast cancer.

Sushant Patkar, Assaf Magen, Roded Sharan, Sridhar Hannenhalli

PLoS Comput. Biol., 2017

2015

Phenotype-Dependent Coexpression Gene Clusters: Application to Normal and Premature Ageing.

Kun Wang, Avinash Das Sahu, Zheng-Mei Xiong, Kan Cao, Sridhar Hannenhalli

IEEE ACM Trans. Comput. Biol. Bioinform., 2015

Regulated CRISPR Modules Exploit a Dual Defense Strategy of Restriction and Abortive Infection in a Model of Prokaryote-Phage Coevolution.

M. Senthil Kumar, Joshua B. Plotkin, Sridhar Hannenhalli

PLoS Comput. Biol., 2015

Chromatin and genomic determinants of alternative splicing.

Kun Wang, Kan Cao, Sridhar Hannenhalli

Proceedings of the 6th ACM Conference on Bioinformatics, 2015

2013

Inferring evolution of gene duplicates using probabilistic models and nonparametric belief propagation.

Jia Zeng, Sridhar Hannenhalli

BMC Genom., 2013

Widespread evidence of viral miRNAs targeting host pathways.

Joseph W. Carl, Joanne Trgovcich, Sridhar Hannenhalli

BMC Bioinform., 2013

Epigenomic Model of Cardiac Enhancers with Application to Genome Wide Association Studies.

Avinash Das Sahu, Radhouane Aniba, Yen-Pei Christy Chang, Sridhar Hannenhalli

Proceedings of the Biocomputing 2013: Proceedings of the Pacific Symposium, 2013

Identification of gene clusters with phenotype-dependent expression with application to normal and premature ageing.

Kun Wang, Avinash Das Sahu, Zheng-Mei Xiong, Kan Cao, Sridhar Hannenhalli

Proceedings of the ACM Conference on Bioinformatics, 2013

Topological properties of chromosome conformation graphs reflect spatial proximities within chromatin.

Hao Wang, Geet Duggal, Rob Patro, Michelle Girvan, Sridhar Hannenhalli, Carl Kingsford

Proceedings of the ACM Conference on Bioinformatics, 2013

2010

Mimosa: Mixture model of co-expression to detect modulators of regulatory interaction.

Matthew Hansen, Logan Everett, Larry N. Singh, Sridhar Hannenhalli

Algorithms Mol. Biol., 2010

2009

PTM-Switchboard - a database of posttranslational modifications of transcription factors, the mediating enzymes and target genes.

Logan Everett, Antony Vo, Sridhar Hannenhalli

Nucleic Acids Res., 2009

2008

Guest Editors' Introduction to the Special Section on Algorithms in Bioinformatics.

Raffaele Giancarlo, Sridhar Hannenhalli

IEEE ACM Trans. Comput. Biol. Bioinform., 2008

Eukaryotic transcription factor binding sites - modeling and integrative search methods.

Sridhar Hannenhalli

Bioinform., 2008

A Tutorial of the Poisson Random Field Model in Population Genetics.

Praveen Sethupathy, Sridhar Hannenhalli

Adv. Bioinformatics, 2008

2006

Selection of Target Sites for Mobile DNA Integration in the Human Genome.

Charles C. Berry, Sridhar Hannenhalli, Jeremy Leipzig, Frederic D. Bushman

PLoS Comput. Biol., 2006

Conservation Patterns in <i>cis</i>-Elements Reveal Compensatory Mutations.

Perry Evans, Greg Donahue, Sridhar Hannenhalli

Proceedings of the Comparative Genomics, 2006

Dense subgraph computation via stochastic search: application to detect transcriptional modules.

Logan Everett, Li-San Wang, Sridhar Hannenhalli

Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006

2005

Generalizations of Markov model to characterize biological sequences.

Junwen Wang, Sridhar Hannenhalli

BMC Bioinform., 2005

An Interaction-Dependent Model for Transcription Factor Binding.

Li-San Wang, Shane T. Jensen, Sridhar Hannenhalli

Proceedings of the Systems Biology and Regulatory Genomics, 2005

Enhanced position weight matrices using mixture models.

Sridhar Hannenhalli, Li-San Wang

Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005

2004

A Note on Efficient Computation of Haplotypes via Perfect Phylogeny.

Vineet Bafna, Dan Gusfield, Sridhar Hannenhalli, Shibu Yooseph

J. Comput. Biol., 2004

2001

1.375-Approximation Algorithm for Sorting by Reversals

Piotr Berman, Sridhar Hannenhalli, Marek Karpinski

Electron. Colloquium Comput. Complex., 2001

Enrichment of regulatory signals in conserved non-coding genomic sequence.

Samuel Levy, Sridhar Hannenhalli, Christopher T. Workman

Bioinform., 2001

Promoter prediction in the human genome.

Sridhar Hannenhalli, Samuel Levy

Proceedings of the Ninth International Conference on Intelligent Systems for Molecular Biology, 2001

2000

Ligand-Receptor Pairing Via Tree Comparison.

Vineet Bafna, Sridhar Hannenhalli, Ken Rice, Lisa Vawter

J. Comput. Biol., 2000

1999

Transforming Cabbage into Turnip: Polynomial Algorithm for Sorting Signed Permutations by Reversals.

Sridhar Hannenhalli, Pavel A. Pevzner

J. ACM, 1999

1997

Hardness of Flip-Cut Problems from Optical Mapping.

Vlado Dancík, Sridhar Hannenhalli, S. Muthukrishnan

J. Comput. Biol., 1997

Local Rules for Protein Folding on a Triangular Lattice and Generalized Hydrophobicity in the HP Model.

Richa Agarwala, Serafim Batzoglou, Vlado Dancík, Scott E. Decatur, Sridhar Hannenhalli, Martin Farach, S. Muthukrishnan, Steven Skiena

J. Comput. Biol., 1997

Local Rules for Protein Folding on a Triangular Lattice and Generalized Hydrophobicity in the HP Model.

Richa Agarwala, Serafim Batzoglou, Vlado Dancík, Scott E. Decatur, Martin Farach, Sridhar Hannenhalli, Steven Skiena

Proceedings of the Eighth Annual ACM-SIAM Symposium on Discrete Algorithms, 1997

Hardness of flip-cut problems from optical mapping [DNA molecules application].

Vlado Dancík, Sridhar Hannenhalli, S. Muthukrishnan

Proceedings of the Compression and Complexity of SEQUENCES 1997, 1997

1996

Polynomial-time Algorithm for Computing Translocation Distance Between Genomes.

Sridhar Hannenhalli

Discret. Appl. Math., 1996

Positional sequencing by hybridization.

Sridhar Hannenhalli, William Feldman, Herbert F. Lewis, Steven Skiena, Pavel A. Pevzner

Comput. Appl. Biosci., 1996

To Cut... or Not to Cut (Applications of Comparative Physical Maps in Molecular Evolution).

Sridhar Hannenhalli, Pavel A. Pevzner

Proceedings of the Seventh Annual ACM-SIAM Symposium on Discrete Algorithms, 1996

Fast Sorting by Reversal.

Piotr Berman, Sridhar Hannenhalli

Proceedings of the Combinatorial Pattern Matching, 7th Annual Symposium, 1996

1995

Transforming Men into Mice (Polynomial Algorithm for Genomic Distance Problem).

Sridhar Hannenhalli, Pavel A. Pevzner

Proceedings of the 36th Annual Symposium on Foundations of Computer Science, 1995

Towards a Computational Theory of Genome Rearrangements.

Sridhar Hannenhalli, Pavel A. Pevzner

Proceedings of the Computer Science Today: Recent Trends and Developments, 1995

1994

A SIMD solution to the sequence comparison problem on the MGAP.

Manjit Borah, Raminder Singh Bajwa, Sridhar Hannenhalli, Mary Jane Irwin

Proceedings of the International Conference on Application Specific Array Processors, 1994

1993

A Distributed Algorithm for Ear Decomposition.

Sridhar Hannenhalli, Kalyan S. Perumalla, N. Chandrasekharan, R. Sridhar

Proceedings of the Computing and Information, 1993

1992

Efficient Algorithms for Computing Matching and Chromatic Polynominals on Series-Parallel Graphs.

N. Chandrasekharan, Sridhar Hannenhalli

Proceedings of the Computing and Information, 1992

1991

Parallel Transitive Closure Computations Using Topological Sort.

Kien A. Hua, Sridhar Hannenhalli

Proceedings of the First International Conference on Parallel and Distributed Information Systems (PDIS 1991), 1991