Andrew D. Smith

According to our database, Andrew D. Smith authored at least 32 papers between 2003 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2023

Pulmonary Surface Irregularity Score as a New Quantitative CT Marker for Idiopathic Pulmonary Fibrosis - a Pilot Study.

Asser M. Abou Elkassem, Rafah Mresh, Ahmed Farag, Steven Rothenberg, Seth T. Lirette, Andrew D. Smith, Tejaswini Kulkarni

J. Digit. Imaging, December, 2023

Counting Distinguishable RNA Secondary Structures.

Masaru Nakajima, Andrew D. Smith

J. Comput. Biol., October, 2023

2022

On attainability of Kendall's tau matrices and concordance signatures.

Alexander J. McNeil, Johanna Neslehová, Andrew D. Smith

J. Multivar. Anal., 2022

Artificial Intelligence in Perioperative Medicine: A Proposed Common Language With Applications to FDA-Approved Devices.

Ryan L. Melvin, Matthew G. Broyles, Elizabeth W. Duggan, Sonia John, Andrew D. Smith, Dan E. Berkowitz

Frontiers Digit. Health, 2022

2020

Predicting the Number of Bases to Attain Sufficient Coverage in High-Throughput Sequencing Experiments.

Chao Deng, Timothy Daley, Peter Calabrese, Jie Ren, Andrew D. Smith

J. Comput. Biol., 2020

Accurate detection of short and long active ORFs using Ribo-seq data.

Saket Choudhary, Wenzheng Li, Andrew D. Smith

Bioinform., 2020

2018

A tool to visualize and analyze perfusion data: Development and application of the R package "CTP".

Seth T. Lirette, Andrew D. Smith, Inmaculada B. Aban

Comput. Methods Programs Biomed., 2018

2017

Riborex: fast and flexible identification of differential translation from Ribo-seq data.

Wenzheng Li, Weili Wang, Philip J. Uren, Luiz O. F. Penalva, Andrew D. Smith

Bioinform., 2017

2016

WALT: fast and accurate read mapping for bisulfite sequencing.

Haifeng Chen, Andrew D. Smith, Ting Chen

Bioinform., 2016

2015

Applications of species accumulation curves in large-scale biological data analysis.

Chao Deng, Timothy Daley, Andrew D. Smith

Quant. Biol., 2015

2014

Using beta-binomial regression for high-precision differential methylation analysis in multifactor whole-genome bisulfite sequencing experiments.

Egor Dolzhenko, Andrew D. Smith

BMC Bioinform., 2014

Modeling genome coverage in single-cell sequencing.

Timothy Daley, Andrew D. Smith

Bioinform., 2014

The Amordad database engine for metagenomics.

Ehsan Behnam, Andrew D. Smith

Bioinform., 2014

2013

A Geometric Interpretation for Local Alignment-Free Sequence Comparison.

Ehsan Behnam, Michael S. Waterman, Andrew D. Smith

J. Comput. Biol., 2013

MLML: consistent simultaneous estimates of DNA methylation and hydroxymethylation.

Jianghan Qu, Meng Zhou, Qiang Song, Elizabeth E. Hong, Andrew D. Smith

Bioinform., 2013

2012

Site identification in high-throughput RNA-protein interaction data.

Philip J. Uren, Emad Bahrami Samani, Suzanne C. Burns, Mei Qiao, Fedor V. Karginov, Emily Hodges, Gregory J. Hannon, Jeremy R. Sanford, Luiz O. F. Penalva, Andrew D. Smith

Bioinform., 2012

2011

Multiple Sequence Assembly from Reads Alignable to a Common Reference Genome.

Qian Peng, Andrew D. Smith

IEEE ACM Trans. Comput. Biol. Bioinform., 2011

Identifying dispersed epigenomic domains from ChIP-Seq data.

Qiang Song, Andrew D. Smith

Bioinform., 2011

2009

Challenges in Understanding Genome-Wide DNA Methylation.

Michael Q. Zhang, Andrew D. Smith

J. Comput. Sci. Technol., 2009

Gene set-based module discovery in the breast cancer transcriptome.

Atsushi Niida, Andrew D. Smith, Seiya Imoto, Hiroyuki Aburatani, Michael Q. Zhang, Tetsu Akiyama

BMC Bioinform., 2009

Updates to the RMAP short-read mapping software.

Andrew D. Smith, Wen-Yu Chung, Emily Hodges, Jude Kendall, Gregory J. Hannon, James Hicks, Zhenyu Xuan, Michael Q. Zhang

Bioinform., 2009

2008

Using quality scores and longer reads improves accuracy of Solexa read mapping.

Andrew D. Smith, Zhenyu Xuan, Michael Q. Zhang

BMC Bioinform., 2008

Integrative bioinformatics analysis of transcriptional regulatory programs in breast cancer cells.

Atsushi Niida, Andrew D. Smith, Seiya Imoto, Shuichi Tsutsumi, Hiroyuki Aburatani, Michael Q. Zhang, Tetsu Akiyama

BMC Bioinform., 2008

2007

Statistical significance of cis-regulatory modules.

Dustin E. Schones, Andrew D. Smith, Michael Q. Zhang

BMC Bioinform., 2007

Computational prediction of novel components of lung transcriptional networks.

M. Juanita Martinez, Andrew D. Smith, Bilan Li, Michael Q. Zhang, Kevin S. Harrod

Bioinform., 2007

2005

SIMPROT: Using an empirically determined indel distribution in simulations of protein evolution.

Andy Pang, Andrew D. Smith, Paulo A. S. Nuin, Elisabeth R. M. Tillier

BMC Bioinform., 2005

DWE: Discriminating Word Enumerator.

Pavel Sumazin, Gengxin Chen, Naoya Hata, Andrew D. Smith, Theresa Zhang, Michael Q. Zhang

Bioinform., 2005

Mining ChIP-chip data for transcription factor and cofactor binding sites.

Andrew D. Smith, Pavel Sumazin, Debopriya Das, Michael Q. Zhang

Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005

2003

On the complexity of finding common approximate substrings.

Patricia A. Evans, Andrew D. Smith, Harold T. Wareham

Theor. Comput. Sci., 2003

A Transition Probability Model for Amino Acid Substitutions from Blocks.

Shalini Veerassamy, Andrew D. Smith, Elisabeth R. M. Tillier

J. Comput. Biol., 2003

Toward Optimal Motif Enumeration.

Patricia A. Evans, Andrew D. Smith

Proceedings of the Algorithms and Data Structures, 8th International Workshop, 2003

Complexity of Approximating Closest Substring Problems.

Patricia A. Evans, Andrew D. Smith

Proceedings of the Fundamentals of Computation Theory, 14th International Symposium, 2003