Sridhar Hannenhalli

Publication Activity (10 Years)

Years Active: 1991-2021
Publications (10 Years): 4

Top Topics

Small World And Scale Free

Nonparametric Belief Propagation

Top Venues

PLoS Comput. Biol.

Publications

Gowthami Somepalli, Sarthak Sahoo, Arashdeep Singh, Sridhar Hannenhalli
Prioritizing and characterizing functionally relevant genes across human tissues. PLoS Comput. Biol. 17 (7) (2021)
Narmada Sambaturu, Vaidehi Pusadkar, Sridhar Hannenhalli, Nagasuma Chandra
PathExt: a general framework for path-based mining of omics-integrated biological networks. Bioinform. 37 (9) (2021)
Vishaka Datta, Sridhar Hannenhalli, Rahul Siddharthan
ChIPulate: A comprehensive ChIP-seq simulation pipeline. PLoS Comput. Biol. 15 (3) (2019)
Sushant Patkar, Assaf Magen, Roded Sharan, Sridhar Hannenhalli
A network diffusion approach to inferring sample-specific function reveals functional changes associated with breast cancer. PLoS Comput. Biol. 13 (11) (2017)
Kun Wang, Kan Cao, Sridhar Hannenhalli
Chromatin and genomic determinants of alternative splicing. BCB (2015)
M. Senthil Kumar, Joshua B. Plotkin, Sridhar Hannenhalli
Regulated CRISPR Modules Exploit a Dual Defense Strategy of Restriction and Abortive Infection in a Model of Prokaryote-Phage Coevolution. PLoS Comput. Biol. 11 (11) (2015)
Kun Wang, Avinash Das Sahu, Zheng-Mei Xiong, Kan Cao, Sridhar Hannenhalli
Phenotype-Dependent Coexpression Gene Clusters: Application to Normal and Premature Ageing. IEEE ACM Trans. Comput. Biol. Bioinform. 12 (1) (2015)
Joseph W. Carl, Joanne Trgovcich, Sridhar Hannenhalli
Widespread evidence of viral miRNAs targeting host pathways. BMC Bioinform. 14 (S-2) (2013)
Avinash Das Sahu, Radhouane Aniba, Yen-Pei Christy Chang, Sridhar Hannenhalli
Epigenomic Model of Cardiac Enhancers with Application to Genome Wide Association Studies. Pacific Symposium on Biocomputing (2013)
Hao Wang, Geet Duggal, Rob Patro, Michelle Girvan, Sridhar Hannenhalli, Carl Kingsford
Topological properties of chromosome conformation graphs reflect spatial proximities within chromatin. BCB (2013)
Jia Zeng, Sridhar Hannenhalli
Inferring evolution of gene duplicates using probabilistic models and nonparametric belief propagation. BMC Genom. 14 (S-1) (2013)
Kun Wang, Avinash Das Sahu, Zheng-Mei Xiong, Kan Cao, Sridhar Hannenhalli
Identification of gene clusters with phenotype-dependent expression with application to normal and premature ageing. BCB (2013)
Matthew Hansen, Logan Everett, Larry N. Singh, Sridhar Hannenhalli
Mimosa: Mixture model of co-expression to detect modulators of regulatory interaction. Algorithms Mol. Biol. 5 (2010)
Matthew Hansen, Logan Everett, Larry N. Singh, Sridhar Hannenhalli
Mimosa: Mixture Model of Co-expression to Detect Modulators of Regulatory Interaction. WABI (2009)
Logan Everett, Antony Vo, Sridhar Hannenhalli
PTM-Switchboard - a database of posttranslational modifications of transcription factors, the mediating enzymes and target genes. Nucleic Acids Res. 37 (Database-Issue) (2009)
Sridhar Hannenhalli
Eukaryotic transcription factor binding sites - modeling and integrative search methods. Bioinform. 24 (11) (2008)
Raffaele Giancarlo, Sridhar Hannenhalli
Guest Editors' Introduction to the Special Section on Algorithms in Bioinformatics. IEEE ACM Trans. Comput. Biol. Bioinform. 5 (4) (2008)
Praveen Sethupathy, Sridhar Hannenhalli
A Tutorial of the Poisson Random Field Model in Population Genetics. Adv. Bioinformatics 2008 (2008)
Logan Everett, Li-San Wang, Sridhar Hannenhalli
Dense subgraph computation via stochastic search: application to detect transcriptional modules. ISMB (Supplement of Bioinformatics) (2006)
Perry Evans, Greg Donahue, Sridhar Hannenhalli
-Elements Reveal Compensatory Mutations. Comparative Genomics (2006)
Charles C. Berry, Sridhar Hannenhalli, Jeremy Leipzig, Frederic D. Bushman
Selection of Target Sites for Mobile DNA Integration in the Human Genome. PLoS Comput. Biol. 2 (11) (2006)
Junwen Wang, Sridhar Hannenhalli
Generalizations of Markov model to characterize biological sequences. BMC Bioinform. 6 (2005)
Li-San Wang, Shane T. Jensen, Sridhar Hannenhalli
An Interaction-Dependent Model for Transcription Factor Binding. Systems Biology and Regulatory Genomics (2005)
Sridhar Hannenhalli, Li-San Wang
Enhanced position weight matrices using mixture models. ISMB (Supplement of Bioinformatics) (2005)
Vineet Bafna, Dan Gusfield, Sridhar Hannenhalli, Shibu Yooseph
A Note on Efficient Computation of Haplotypes via Perfect Phylogeny. J. Comput. Biol. 11 (5) (2004)
Piotr Berman, Sridhar Hannenhalli, Marek Karpinski
1.375-Approximation Algorithm for Sorting by Reversals. ESA (2002)
Piotr Berman, Sridhar Hannenhalli, Marek Karpinski
1.375-Approximation Algorithm for Sorting by Reversals Electron. Colloquium Comput. Complex. 8 (47) (2001)
Sridhar Hannenhalli, Samuel Levy
Promoter prediction in the human genome. ISMB (Supplement of Bioinformatics) (2001)
Samuel Levy, Sridhar Hannenhalli, Christopher T. Workman
Enrichment of regulatory signals in conserved non-coding genomic sequence. Bioinform. 17 (10) (2001)
Vineet Bafna, Sridhar Hannenhalli, Ken Rice, Lisa Vawter
Ligand-Receptor Pairing Via Tree Comparison. J. Comput. Biol. 7 (1-2) (2000)
Sridhar Hannenhalli, Pavel A. Pevzner
Transforming Cabbage into Turnip: Polynomial Algorithm for Sorting Signed Permutations by Reversals. J. ACM 46 (1) (1999)
Richa Agarwala, Serafim Batzoglou, Vlado Dancík, Scott E. Decatur, Martin Farach, Sridhar Hannenhalli, S. Muthukrishnan, Steven Skiena
Local rules for protein folding on a triangular lattice and generalized hydrophobicity in the HP model. RECOMB (1997)
Vlado Dancík, Sridhar Hannenhalli, S. Muthukrishnan
Hardness of Flip-Cut Problems from Optical Mapping. J. Comput. Biol. 4 (2) (1997)
Richa Agarwala, Serafim Batzoglou, Vlado Dancík, Scott E. Decatur, Martin Farach, Sridhar Hannenhalli, Steven Skiena
Local Rules for Protein Folding on a Triangular Lattice and Generalized Hydrophobicity in the HP Model. SODA (1997)
Richa Agarwala, Serafim Batzoglou, Vlado Dancík, Scott E. Decatur, Sridhar Hannenhalli, Martin Farach, S. Muthukrishnan, Steven Skiena
Local Rules for Protein Folding on a Triangular Lattice and Generalized Hydrophobicity in the HP Model. J. Comput. Biol. 4 (3) (1997)
Vlado Dancík, Sridhar Hannenhalli, S. Muthukrishnan
Hardness of flip-cut problems from optical mapping [DNA molecules application]. SEQUENCES (1997)
Piotr Berman, Sridhar Hannenhalli
Fast Sorting by Reversal. CPM (1996)
Sridhar Hannenhalli
Polynomial-time Algorithm for Computing Translocation Distance Between Genomes. Discret. Appl. Math. 71 (1-3) (1996)
Sridhar Hannenhalli, William Feldman, Herbert F. Lewis, Steven Skiena, Pavel A. Pevzner
Positional sequencing by hybridization. Comput. Appl. Biosci. 12 (1) (1996)
Sridhar Hannenhalli, Pavel A. Pevzner
To Cut... or Not to Cut (Applications of Comparative Physical Maps in Molecular Evolution). SODA (1996)
Sridhar Hannenhalli
Polynomial-time Algorithm for Computing Translocation Distance between Genomes. CPM (1995)
Sridhar Hannenhalli, Pavel A. Pevzner
Transforming cabbage into turnip: polynomial algorithm for sorting signed permutations by reversals. STOC (1995)
Sridhar Hannenhalli, Pavel A. Pevzner
Transforming Men into Mice (Polynomial Algorithm for Genomic Distance Problem). FOCS (1995)
Manjit Borah, Raminder Singh Bajwa, Sridhar Hannenhalli, Mary Jane Irwin
A SIMD solution to the sequence comparison problem on the MGAP. ASAP (1994)
Sridhar Hannenhalli, Kalyan S. Perumalla, N. Chandrasekharan, R. Sridhar
A Distributed Algorithm for Ear Decomposition. ICCI (1993)
N. Chandrasekharan, Sridhar Hannenhalli
Efficient Algorithms for Computing Matching and Chromatic Polynominals on Series-Parallel Graphs. ICCI (1992)
Kien A. Hua, Sridhar Hannenhalli
Parallel Transitive Closure Computations Using Topological Sort. PDIS (1991)