Olivia Choudhury  Olivia Choudhury photo       

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Postdoctoral Researcher, Center for Healthcare Effectiveness Research
Cambridge Research Center, Cambridge, MA USA

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2017

A Hybrid Error Correction Algorithm for Long Reads with Iterative Learning
O. Choudhury, A. Chakrabarty, S. Emrich
bioRxiv, 2017

High-quality genetic mapping with ddRADseq in the non-model tree Quercus rubra
A. Konar, O. Choudhury, T. McCleary, S. Schlarbaum, O. Gailing, M. Coggeshall, S. Emrich, M. Staton, M. Pfrender, J. Carlson, J. Romero-Severson
BMC Genomics, 2017

Combining Static and Dynamic Storage Management for Data Intensive Scientific Workflows
N. Hazekamp, N. Kremer-Herman, B. Tovar, H. Meng, O. Choudhury, S. Emrich, D. Thain
IEEE Transactions on Parallel and Distributed Systems, 2017

Highly accurate and efficient data-driven methods for genotype imputation
O. Choudhury, A. Chakrabarty, S. Emrich
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2017


2016

A Genetic Map for the Lobatae
A. Konar, O. Choudhury, O. Gailing, M. Coggeshall, M. Staton, S. Emrich, J. Carlson, J. Romero-Severson
International Oaks, 2016

HAPI-Gen: Highly Accurate Phasing and Imputation of Genotype Data
O. Choudhury, A. Chakrabarty, S. Emrich
ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB), 2016


2015

Scaling Up Bioinformatics Workflows with Dynamic Job Expansion: A Case Study Using Galaxy and Makeflow
N. Hazekamp, J. Sarro, O. Choudhury, S. Gesing, S. Emrich, D. Thain
IEEE International Conference on eScience (IEEE eScience), 2015

Balancing Thread-level and Task-level Parallelism for Data-Intensive Workloads on Clusters and Clouds
O. Choudhury, D. Rajan, N. Hazekamp, S. Gesing, D. Thain, S. Emrich
IEEE International Conference on Cluster Computing (IEEE Cluster), 2015

Accelerating Comparative Genomics Workflows in a Distributed Environment with Optimized Data Partitioning and Workflow Fusion
O. Choudhury, N. Hazekamp, D. Thain, S. Emrich
Scalable Computing: Practice and Experience 16(1), 2015


2014

Expanding Tasks of Logical Workflows Into Independent Workflows for Improved Scalability
N. Hazekamp, O. Choudhury, S. Gesing, S. Emrich, D. Thain
IEEE/ACM International Symposium on Cluster, Cloud, and Grid Computing (CCGrid), 2014

Accelerating Comparative Genomic Workflows in a Distributed Environment with Optimized Data Partitioning
O. Choudhury, N. Hazekamp, D. Thain, S. Emrich
IEEE/ACM International Symposium on Cluster, Cloud, and Grid Computing (CCGrid), 2014


2013

An Integrated Pathway System Modeling of Saccharomyces cerevisiae HOG Pathway: A Petri-net Based Approach
N. Tomar, O. Choudhury, A. Chakrabarty, R. K. De
Molecular Biology Reports 40(2), 2013


2012

Hyperspectral Image Classification Incorporating Bacterial Foraging-Optimized Spectral Weighting
A. Chakrabarty, O. Choudhury, P. Sarkar, A. Paul, D. Sarkar
Artificial Intelligence Research, 2012