Sridhar Hannenhalli

According to our database1, Sridhar Hannenhalli authored at least 43 papers between 1991 and 2021.

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Bibliography

2021
Prioritizing and characterizing functionally relevant genes across human tissues.
PLoS Comput. Biol., 2021

PathExt: a general framework for path-based mining of omics-integrated biological networks.
Bioinform., 2021

2019
ChIPulate: A comprehensive ChIP-seq simulation pipeline.
PLoS Comput. Biol., 2019

2017
A network diffusion approach to inferring sample-specific function reveals functional changes associated with breast cancer.
PLoS Comput. Biol., 2017

2015
Phenotype-Dependent Coexpression Gene Clusters: Application to Normal and Premature Ageing.
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.
PLoS Comput. Biol., 2015

Chromatin and genomic determinants of alternative splicing.
Proceedings of the 6th ACM Conference on Bioinformatics, 2015

2013
Inferring evolution of gene duplicates using probabilistic models and nonparametric belief propagation.
BMC Genom., 2013

Widespread evidence of viral miRNAs targeting host pathways.
BMC Bioinform., 2013

Epigenomic Model of Cardiac Enhancers with Application to Genome Wide Association Studies.
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.
Proceedings of the ACM Conference on Bioinformatics, 2013

Topological properties of chromosome conformation graphs reflect spatial proximities within chromatin.
Proceedings of the ACM Conference on Bioinformatics, 2013

2010
Mimosa: Mixture model of co-expression to detect modulators of regulatory interaction.
Algorithms Mol. Biol., 2010

2009
PTM-Switchboard - a database of posttranslational modifications of transcription factors, the mediating enzymes and target genes.
Nucleic Acids Res., 2009

2008
Guest Editors' Introduction to the Special Section on Algorithms in Bioinformatics.
IEEE ACM Trans. Comput. Biol. Bioinform., 2008

Eukaryotic transcription factor binding sites - modeling and integrative search methods.
Bioinform., 2008

A Tutorial of the Poisson Random Field Model in Population Genetics.
Adv. Bioinformatics, 2008

2006
Selection of Target Sites for Mobile DNA Integration in the Human Genome.
PLoS Comput. Biol., 2006

Conservation Patterns in <i>cis</i>-Elements Reveal Compensatory Mutations.
Proceedings of the Comparative Genomics, 2006

Dense subgraph computation via stochastic search: application to detect transcriptional modules.
Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006

2005
Generalizations of Markov model to characterize biological sequences.
BMC Bioinform., 2005

An Interaction-Dependent Model for Transcription Factor Binding.
Proceedings of the Systems Biology and Regulatory Genomics, 2005

Enhanced position weight matrices using mixture models.
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.
J. Comput. Biol., 2004

2001
1.375-Approximation Algorithm for Sorting by Reversals
Electron. Colloquium Comput. Complex., 2001

Enrichment of regulatory signals in conserved non-coding genomic sequence.
Bioinform., 2001

Promoter prediction in the human genome.
Proceedings of the Ninth International Conference on Intelligent Systems for Molecular Biology, 2001

2000
Ligand-Receptor Pairing Via Tree Comparison.
J. Comput. Biol., 2000

1999
Transforming Cabbage into Turnip: Polynomial Algorithm for Sorting Signed Permutations by Reversals.
J. ACM, 1999

1997
Hardness of Flip-Cut Problems from Optical Mapping.
J. Comput. Biol., 1997

Local Rules for Protein Folding on a Triangular Lattice and Generalized Hydrophobicity in the HP Model.
J. Comput. Biol., 1997

Local Rules for Protein Folding on a Triangular Lattice and Generalized Hydrophobicity in the HP Model.
Proceedings of the Eighth Annual ACM-SIAM Symposium on Discrete Algorithms, 1997

Hardness of flip-cut problems from optical mapping [DNA molecules application].
Proceedings of the Compression and Complexity of SEQUENCES 1997, 1997

1996
Polynomial-time Algorithm for Computing Translocation Distance Between Genomes.
Discret. Appl. Math., 1996

Positional sequencing by hybridization.
Comput. Appl. Biosci., 1996

To Cut... or Not to Cut (Applications of Comparative Physical Maps in Molecular Evolution).
Proceedings of the Seventh Annual ACM-SIAM Symposium on Discrete Algorithms, 1996

Fast Sorting by Reversal.
Proceedings of the Combinatorial Pattern Matching, 7th Annual Symposium, 1996

1995
Transforming Men into Mice (Polynomial Algorithm for Genomic Distance Problem).
Proceedings of the 36th Annual Symposium on Foundations of Computer Science, 1995

Towards a Computational Theory of Genome Rearrangements.
Proceedings of the Computer Science Today: Recent Trends and Developments, 1995

1994
A SIMD solution to the sequence comparison problem on the MGAP.
Proceedings of the International Conference on Application Specific Array Processors, 1994

1993
A Distributed Algorithm for Ear Decomposition.
Proceedings of the Computing and Information, 1993

1992
Efficient Algorithms for Computing Matching and Chromatic Polynominals on Series-Parallel Graphs.
Proceedings of the Computing and Information, 1992

1991
Parallel Transitive Closure Computations Using Topological Sort.
Proceedings of the First International Conference on Parallel and Distributed Information Systems (PDIS 1991), 1991


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