Andrew D. Smith

Publication Activity (10 Years)

Years Active: 2003-2024
Publications (10 Years): 10

Top Topics

Thoracic Ct Images

Database Engine

Rna Secondary Structures

Top Venues

J. Comput. Biol.

Frontiers Digit. Health

Publications

Henry J. Paiste, Ryan Godwin, Andrew D. Smith, Dan E. Berkowitz, Ryan L. Melvin
Strengths-weaknesses-opportunities-threats analysis of artificial intelligence in anesthesiology and perioperative medicine. Frontiers Digit. Health 6 (2024)
Masaru Nakajima, Andrew D. Smith
Counting Distinguishable RNA Secondary Structures. J. Comput. Biol. 30 (10) (2023)
Asser M. Abou Elkassem, Rafah Mresh, Ahmed Farag, Steven Rothenberg, Seth T. Lirette, Andrew D. Smith, Tejaswini Kulkarni
Pulmonary Surface Irregularity Score as a New Quantitative CT Marker for Idiopathic Pulmonary Fibrosis - a Pilot Study. J. Digit. Imaging 36 (6) (2023)
Ryan L. Melvin, Matthew G. Broyles, Elizabeth W. Duggan, Sonia John, Andrew D. Smith, Dan E. Berkowitz
Artificial Intelligence in Perioperative Medicine: A Proposed Common Language With Applications to FDA-Approved Devices. Frontiers Digit. Health 4 (2022)
Alexander J. McNeil, Johanna Neslehová, Andrew D. Smith
On attainability of Kendall's tau matrices and concordance signatures. J. Multivar. Anal. 191 (2022)
Chao Deng, Timothy Daley, Peter Calabrese, Jie Ren, Andrew D. Smith
Predicting the Number of Bases to Attain Sufficient Coverage in High-Throughput Sequencing Experiments. J. Comput. Biol. 27 (7) (2020)
Saket Choudhary, Wenzheng Li, Andrew D. Smith
Accurate detection of short and long active ORFs using Ribo-seq data. Bioinform. 36 (7) (2020)
Seth T. Lirette, Andrew D. Smith, Inmaculada B. Aban
A tool to visualize and analyze perfusion data: Development and application of the R package "CTP". Comput. Methods Programs Biomed. 153 (2018)
Wenzheng Li, Weili Wang, Philip J. Uren, Luiz O. F. Penalva, Andrew D. Smith
Riborex: fast and flexible identification of differential translation from Ribo-seq data. Bioinform. 33 (11) (2017)
Haifeng Chen, Andrew D. Smith, Ting Chen
WALT: fast and accurate read mapping for bisulfite sequencing. Bioinform. 32 (22) (2016)
Chao Deng, Timothy Daley, Andrew D. Smith
Applications of species accumulation curves in large-scale biological data analysis. Quant. Biol. 3 (3) (2015)
Timothy Daley, Andrew D. Smith
Modeling genome coverage in single-cell sequencing. Bioinform. 30 (22) (2014)
Egor Dolzhenko, Andrew D. Smith
Using beta-binomial regression for high-precision differential methylation analysis in multifactor whole-genome bisulfite sequencing experiments. BMC Bioinform. 15 (2014)
Ehsan Behnam, Andrew D. Smith
The Amordad database engine for metagenomics. Bioinform. 30 (20) (2014)
Ehsan Behnam, Michael S. Waterman, Andrew D. Smith
A Geometric Interpretation for Local Alignment-Free Sequence Comparison. J. Comput. Biol. 20 (7) (2013)
Jianghan Qu, Meng Zhou, Qiang Song, Elizabeth E. Hong, Andrew D. Smith
MLML: consistent simultaneous estimates of DNA methylation and hydroxymethylation. Bioinform. 29 (20) (2013)
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
Site identification in high-throughput RNA-protein interaction data. Bioinform. 28 (23) (2012)
Qiang Song, Andrew D. Smith
Identifying dispersed epigenomic domains from ChIP-Seq data. Bioinform. 27 (6) (2011)
Qian Peng, Andrew D. Smith
Multiple Sequence Assembly from Reads Alignable to a Common Reference Genome. IEEE ACM Trans. Comput. Biol. Bioinform. 8 (5) (2011)
Atsushi Niida, Andrew D. Smith, Seiya Imoto, Hiroyuki Aburatani, Michael Q. Zhang, Tetsu Akiyama
Gene set-based module discovery in the breast cancer transcriptome. BMC Bioinform. 10 (2009)
Andrew D. Smith, Wen-Yu Chung, Emily Hodges, Jude Kendall, Gregory J. Hannon, James Hicks, Zhenyu Xuan, Michael Q. Zhang
Updates to the RMAP short-read mapping software. Bioinform. 25 (21) (2009)
Michael Q. Zhang, Andrew D. Smith
Challenges in Understanding Genome-Wide DNA Methylation. J. Comput. Sci. Technol. 25 (1) (2009)
Andrew D. Smith, Zhenyu Xuan, Michael Q. Zhang
Using quality scores and longer reads improves accuracy of Solexa read mapping. BMC Bioinform. 9 (2008)
Atsushi Niida, Andrew D. Smith, Seiya Imoto, Shuichi Tsutsumi, Hiroyuki Aburatani, Michael Q. Zhang, Tetsu Akiyama
Integrative bioinformatics analysis of transcriptional regulatory programs in breast cancer cells. BMC Bioinform. 9 (2008)
Dustin E. Schones, Andrew D. Smith, Michael Q. Zhang
Statistical significance of cis-regulatory modules. BMC Bioinform. 8 (2007)
M. Juanita Martinez, Andrew D. Smith, Bilan Li, Michael Q. Zhang, Kevin S. Harrod
Computational prediction of novel components of lung transcriptional networks. Bioinform. 23 (1) (2007)
Andy Pang, Andrew D. Smith, Paulo A. S. Nuin, Elisabeth R. M. Tillier
SIMPROT: Using an empirically determined indel distribution in simulations of protein evolution. BMC Bioinform. 6 (2005)
Andrew D. Smith, Pavel Sumazin, Debopriya Das, Michael Q. Zhang
Mining ChIP-chip data for transcription factor and cofactor binding sites. ISMB (Supplement of Bioinformatics) (2005)
Pavel Sumazin, Gengxin Chen, Naoya Hata, Andrew D. Smith, Theresa Zhang, Michael Q. Zhang
DWE: Discriminating Word Enumerator. Bioinform. 21 (1) (2005)
Patricia A. Evans, Andrew D. Smith, Harold T. Wareham
On the complexity of finding common approximate substrings. Theor. Comput. Sci. 306 (1-3) (2003)
Patricia A. Evans, Andrew D. Smith
Toward Optimal Motif Enumeration. WADS (2003)
Shalini Veerassamy, Andrew D. Smith, Elisabeth R. M. Tillier
A Transition Probability Model for Amino Acid Substitutions from Blocks. J. Comput. Biol. 10 (6) (2003)
Patricia A. Evans, Andrew D. Smith
Complexity of Approximating Closest Substring Problems. FCT (2003)