Shibu Yooseph

Orcid: 0000-0001-5581-5002

According to our database1, Shibu Yooseph authored at least 29 papers between 1994 and 2022.

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Bibliography

2022
Variational Approximation-Based Model Selection for Microbial Network Inference.
J. Comput. Biol., 2022

2019
GRASP2: fast and memory-efficient gene-centric assembly and homolog search for metagenomic sequencing data.
BMC Bioinform., 2019

Learning a mixture of microbial networks using minorization-maximization.
Bioinform., 2019

Algorithms for inferring multiple microbial networks.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

SOF: An Efficient String Graph Construction Algorithm.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

2017
GRASP2: Fast and memory-efficient gene-centric assembly and homolog search.
Proceedings of the 7th IEEE International Conference on Computational Advances in Bio and Medical Sciences, 2017

2016
Metagenome and Metatranscriptome Analyses Using Protein Family Profiles.
PLoS Comput. Biol., 2016

GRASPx: efficient homolog-search of short peptide metagenome database through simultaneous alignment and assembly.
BMC Bioinform., 2016

2015
SFA-SPA: a suffix array based short peptide assembler for metagenomic data.
Bioinform., 2015

2013
Large memory high performance computing enables comparison across human gut microbiome of patients with autoimmune diseases and healthy subjects.
Proceedings of the Extreme Science and Engineering Discovery Environment: Gateway to Discovery, 2013

2010
METAREP: JCVI metagenomics reports - an open source tool for high-performance comparative metagenomics.
Bioinform., 2010

2008
Gene identification and protein classification in microbial metagenomic sequence data via incremental clustering.
BMC Bioinform., 2008

Toward Computer-Assisted Text Curation: Classification Is Easy (Choosing Training Data Can Be Hard...).
Proceedings of the Linking Literature, Information, and Knowledge for Biology, 2008

2004
ThurGood: Evaluating Assembly-to-Assembly Mapping.
J. Comput. Biol., 2004

A Note on Efficient Computation of Haplotypes via Perfect Phylogeny.
J. Comput. Biol., 2004

2003
Haplotyping as Perfect Phylogeny: A Direct Approach.
J. Comput. Biol., 2003

Combinatorial Problems Arising in SNP and Haplotype Analysis.
Proceedings of the Discrete Mathematics and Theoretical Computer Science, 2003

2002
Zinc Finger Gene Clusters and Tandem Gene Duplication.
J. Comput. Biol., 2002

Fast, Fair and Frugal Bandwidth Allocation in ATM Networks.
Algorithmica, 2002

A Survey of Computational Methods for Determining Haplotypes.
Proceedings of the Computational Methods for SNPs and Haplotype Inference, 2002

2001
Visualization challenges for a new cyberpharmaceutical computing paradigm.
Proceedings of the IEEE 2001 Symposium on Parallel and Large-Data Visualization and Graphics, 2001

1999
Constructing Evolutionary Trees in the Presence of Polymorphic Characters.
SIAM J. Comput., 1999

Hybrid Tree Reconstruction Methods.
ACM J. Exp. Algorithmics, 1999

1998
TAL Recognition in O(M(n»)) Time.
J. Comput. Syst. Sci., 1998

Better Methods for Solving Parsimony and Compatibility.
J. Comput. Biol., 1998

1997
Unifying Themes for Selection on Any Network.
J. Parallel Distributed Comput., 1997

1996
Inferring evolutionary trees from polymorphic characters, and an analysis of the Indo-European family of languages.
Proceedings of the Mathematical Hierarchies and Biology, 1996

1995
Computing the Local Consensus of Trees.
Proceedings of the Sixth Annual ACM-SIAM Symposium on Discrete Algorithms, 1995

1994
Unifying Themes for Network Selection.
Proceedings of the Algorithms and Computation, 5th International Symposium, 1994


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