Olivia Choudhury  Olivia Choudhury photo         

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Postdoctoral Researcher, Learning Health Systems
Cambridge Research Center, Cambridge, MA USA
  

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2018

Auto-translation of Regulatory Documents into Smart Contracts
O. Choudhury, M. Dhuliawala, N. Fay, N. Rudolph, I. Sylla, N. Fairoza, D. Gruen, A. Das
IEEE Blockchain Newsletter, 2018

Blockchain for clinical trials - hype or hope?
Y. Park, A. Das, O. Choudhury
Under Review, 2018

HECIL: A Hybrid Error Correction Algorithm for Long Reads with Iterative Learning
O. Choudhury, A. Chakrabarty, S. Emrich
Nature Scientific Reports, 2018

Improving Data Management in Multi-site Clinical Research Studies using Blockchain, Smart Contracts, and Private Channels
O. Choudhury, N. Fairoza, N. Rudolph, I. Sylla, A. Das
Under Review, 2018

Auto-Generation of Smart Contracts from Domain-specific Ontologies and Semantic Rules
O. Choudhury, N. Rudolph, I. Sylla, N. Fairoza, A. Das
IEEE Blockchain, 2018

Enforcing Human Subject Regulations using Blockchain and Smart Contracts
O. Choudhury, H. Sarker, N. Rudolph, M. Foreman, N. Fay, M. Dhuliawala, I. Sylla, N. Fairoza, A. Das
Blockchain in Healthcare Today, 2018

A Blockchain Framework for Managing and Monitoring Data in Multi-Site Clinical Trials
O. Choudhury, N. Fairoza, I. Sylla, A. Das
Under Review, 2018


2017

A reinforcement learning-based approach for self-correction of long reads
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




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