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ORCIDVinhthuy T. Phan
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Journal Articles
- 2022
[j28]Diem-Trang Pham, Vinhthuy Phan:
Representing bacteria with unique genomic signatures. Frontiers Big Data 5 (2022)- 2019
- [j27]Vinhthuy Phan, Diem-Trang Pham, Caroline Melton, Adam J. Ramsey, Bernie J. Daigle Jr., Jennifer R. Mandel
:
icHET: interactive visualization of cytoplasmic heteroplasmy. Bioinform. 35(21): 4411-4412 (2019) - 2018
- [j26]Nam S. Vo, Vinhthuy Phan:
Leveraging known genomic variants to improve detection of variants, especially close-by Indels. Bioinform. 34(17): 2918-2926 (2018) - 2017
- [j25]Quang Tran, Diem-Trang Pham, Vinhthuy Phan:
Using 16S rRNA gene as marker to detect unknown bacteria in microbial communities. BMC Bioinform. 18(14): 155-161 (2017) - [j24]Diem-Trang Pham, Shanshan Gao, Vinhthuy Phan:
An accurate and fast alignment-free method for profiling microbial communities. J. Bioinform. Comput. Biol. 15(3): 1740001:1-1740001:12 (2017) - 2016
- [j23]Quang Tran, Shanshan Gao, Vinhthuy Phan:
Analysis of optimal alignments unfolds aligners' bias in existing variant profiles. BMC Bioinform. 17(S-13): 349 (2016) - 2015
- [j22]Quang Tran, Shanshan Gao, Nam S. Vo, Vinhthuy Phan:
A linear model for predicting performance of short-read aligners using genome complexity. BMC Bioinform. 16(S15): P17 (2015) - [j21]Nam S. Vo, Vinhthuy Phan:
Improving variant calling by incorporating known genetic variants into read alignment. BMC Bioinform. 16(S15): P18 (2015) - [j20]Shanshan Gao, Diem-Trang Pham, Vinhthuy Phan:
Alignment-free methods for metagenomic profiling. BMC Bioinform. 16(S15): P4 (2015) - [j19]Vinhthuy Phan, Shanshan Gao, Quang Tran, Nam S. Vo:
How genome complexity can explain the difficulty of aligning reads to genomes. BMC Bioinform. 16(S17): S3 (2015) - 2014
- [j18]Nam S. Vo, Vinhthuy Phan:
Exploiting the bootstrap method to analyze patterns of gene expression. BMC Bioinform. 15(S-10): P19 (2014) - [j17]Quang Tran, Vinhthuy Phan:
Alignment of short reads to multiple genomes using hashing. BMC Bioinform. 15(S-10): P23 (2014) - [j16]Kevin L. O'kello, Vinhthuy Phan:
Determining gene response patterns of time series gene expression data using R. BMC Bioinform. 15(S-10): P24 (2014) - [j15]Nam S. Vo, Quang Tran, Vinhthuy Phan:
An integrated approach for SNP calling based on population of genomes. BMC Bioinform. 15(S-10): P30 (2014) - [j14]Nam S. Vo, Vinhthuy Phan:
Exploiting dependencies of pairwise comparison outcomes to predict patterns of gene response. BMC Bioinform. 15(S-11): S2 (2014) - 2013
- [j13]Nam S. Vo, Vinhthuy Phan:
Using partially ordered sets to represent and predict true patterns of gene response to treatments. BMC Bioinform. 14(S-17): A20 (2013) - 2011
- [j12]Sujoy Roy, Kevin Heinrich, Vinhthuy Phan, Michael W. Berry, Ramin Homayouni:
Latent Semantic Indexing of PubMed abstracts for identification of transcription factor candidates from microarray derived gene sets. BMC Bioinform. 12(S-10): S19 (2011) - [j11]Vinhthuy T. Phan, Nam S. Vo, Thomas R. Sutter:
mDAG: a web-based tool for analyzing microarray data with multiple treatments. BMC Bioinform. 12(S-7): A7 (2011) - 2010
- [j10]Vinhthuy Phan, Allen Thomas, Kriangsiri Malasri, Carrie Hayes Sutter:
Stability of RNA structural motifs and its influence on editing efficiency by adenosine deaminases. Int. J. Bioinform. Res. Appl. 6(1): 21-36 (2010) - [j9]Vinhthuy Phan, Sudip Saha, Ashutosh Pandey, Tit-Yee Wong:
Synthetic gene design with a large number of hidden stops. Int. J. Data Min. Bioinform. 4(4): 377-394 (2010) - [j8]Max H. Garzon, Kiran C. Bobba, Andrew Neel, Vinhthuy Phan:
DNA-Based Indexing. Int. J. Nanotechnol. Mol. Comput. 2(3): 25-45 (2010) - 2009
- [j7]Vinhthuy Phan:
Motif Tool Manager: a web-based platform for motif discovery. BMC Bioinform. 10(S-7) (2009) - [j6]Max H. Garzon, Vinhthuy Phan, Andrew Neel:
Optimal DNA Codes for Computing and Self-Assembly. Int. J. Nanotechnol. Mol. Comput. 1(1): 1-17 (2009) - [j5]Vinhthuy Phan, E. Olusegun George, Quynh T. Tran, Shirlean Goodwin, Sridevi Bodreddigari, Thomas R. Sutter:
Analyzing microarray Data with Transitive Directed Acyclic Graphs. J. Bioinform. Comput. Biol. 7(1): 135-156 (2009) - [j4]Vinhthuy T. Phan, Max H. Garzon:
On codeword design in metric DNA spaces. Nat. Comput. 8(3): 571-588 (2009) - 2008
- [j3]Vinhthuy Phan, Nicholas A. Furlotte:
Motif Tool Manager: a web-based framework for motif discovery. Bioinform. 24(24): 2930-2931 (2008) - [j2]Vinhthuy Phan, Kriangsiri Malasri:
BioTDMS: a general-purpose system for integrative management of bioinformatics tools and data. Int. J. Comput. Biol. Drug Des. 1(2): 174-184 (2008) - 2001
- [j1]Vinhthuy T. Phan, Steven Skiena:
Dealing with errors in interactive sequencing by hybridization. Bioinform. 17(10): 862-870 (2001)
Conference and Workshop Papers
- 2023
- [c26]Alina Zaman, Amy Cook, Vinhthuy Phan, Alistair Windsor:
A Practical Strategy for Training Graduate CS Teaching Assistants to Provide Effective Feedback. ITiCSE (1) 2023: 285-291 - [c25]Kritish Pahi, Vinhthuy Phan:
A Cloud-Based Technology for Conducting In-class Exercises in Data Science and Machine Learning Courses. SIGCSE (1) 2023: 868-874 - 2022
- [c24]Amy Cook, Vinhthuy Phan, Alistair Windsor:
Improving TA Feedback on In-Class Coding Assignments for Introductory Computer Science. ITiCSE (1) 2022: 421-427 - [c23]Eric Hicks, Amy Cook, Kriangsiri Malasri, Alina Zaman, Vinhthuy Phan:
Keep It Relevant! Using In-class Exercises to Predict Weekly Performance in CS1. SIGCSE (1) 2022: 154-160 - [c22]Amy Cook, Alina Zaman, Eric Hicks, Kriangsiri Malasri, Vinhthuy Phan:
Try That Again! How a Second Attempt on In-Class Coding Problems Benefits Students in CS1. SIGCSE (1) 2022: 509-515 - [c21]Alina Zaman, Vinhthuy Phan, Amy Cook:
Enabling In-Class Peer Feedback on Introductory Computer Science Coding Exercises. SIGCSE (2) 2022: 1163 - 2020
- [c20]Eric Hicks, Quang Tran, Kriangsiri Malasri, Nam Sy Vo, Vinhthuy Phan:
Active Learning: The Almost Silver Bullet. KSE 2020: 131-135 - [c19]Quang Tran, Nam Sy Vo, Eric Hicks, Tin Chi Nguyen, Vinhthuy Phan:
Analysis of Short-read Aligners using Genome Sequence Complexity. KSE 2020: 312-317 - 2018
- [c18]Vinhthuy Phan, Eric Hicks:
Code4Brownies: an active learning solution for teaching programming and problem solving in the classroom. ITiCSE 2018: 153-158 - 2014
- [c17]Vinhthuy T. Phan, Shanshan Gao, Quang Tran, Nam S. Vo:
How genome complexity can explain the hardness of aligning reads to genomes. ICCABS 2014: 1-2 - 2013
- [c16]Nam S. Vo, Quang Tran, Nobal B. Niraula, Vinhthuy Phan:
A randomized algorithm for aligning DNA sequences to reference genomes. ICCABS 2013: 1-6 - [c15]Nam S. Vo, Vinhthuy Phan:
Exploiting Dependencies of Patterns in Gene Expression Analysis Using Pairwise Comparisons. ISBRA 2013: 173-184 - 2012
- [c14]Nam S. Vo, Vinhthuy Phan:
Pattern analysis: a web-based tool for analyzing response patterns in low-replication, many-treatment gene expression data. BCB 2012: 539-541 - [c13]Nam S. Vo, Vinhthuy Phan, Thomas R. Sutter:
Predicting possible directed-graph patterns of gene expressions in studies involving multiple treatments. BCB 2012: 579-581 - 2009
- [c12]Max H. Garzon, Tit-Yee Wong, Vinhthuy T. Phan:
DNA Chips for Species Identification and Biological Phylogenies. DNA 2009: 55-66 - 2008
- [c11]Vinhthuy Phan, Sudip Saha, Ashutosh Pandey, Tit-Yee Wong:
Synthetic Gene Design with a Large Number of Hidden Stop Codons. BIBM 2008: 141-146 - [c10]Vinhthuy Phan, E. Olusegun George, Quynh T. Tran, Thomas R. Sutter:
Toward a Combinatorial Approach to the Sample Size Problem in Multiple-treatment Microarray Studies. BIOCOMP 2008: 175-181 - 2007
- [c9]Vinhthuy T. Phan, Allen Thomas, Carrie Hayes Sutter:
Stability of RNA Structural Motifs and its Influence on Editing Efficiency by ADARS. BIOCOMP 2007: 679-685 - [c8]Vinhthuy T. Phan, Allen Thomas:
How to Build a System that Manages Bioinformatics Content. Enterprise Information Systems and Web Technologies 2007: 266-272 - 2006
- [c7]Max H. Garzon, Vinhthuy T. Phan, Sujoy Roy, Andrew Neel:
In Search of Optimal Codes for DNA Computing. DNA 2006: 143-156 - [c6]Kiranchand V. Bobba, Andrew Neel, Vinhthuy T. Phan, Max H. Garzon:
"Reasoning" and "Talking" DNA: Can DNA Understand English? DNA 2006: 337-349 - 2005
- [c5]Max H. Garzon, Vinhthuy T. Phan, Kiran C. Bobba, Raghuver Kontham:
Sensitivity and Capacity of Microarray Encodings. DNA 2005: 81-95 - 2004
- [c4]Vinhthuy T. Phan, Max H. Garzon:
The Capacity of DNA for Information Encoding. DNA 2004: 281-292 - [c3]Vinhthuy T. Phan, Steven Skiena:
An Improved Time-Sensitive Metaheuristic Framework for Combinatorial Optimization. WEA 2004: 432-445 - 2003
- [c2]Vinhthuy T. Phan, Steven Skiena, Pavel Sumazin:
A Model for Analyzing Black-Box Optimization. WADS 2003: 424-438 - 2002
- [c1]Vinhthuy T. Phan, Pavel Sumazin, Steven Skiena:
A Time-Sensitive System for Black-Box Combinatorial Optimization. ALENEX 2002: 16-18
Coauthor Index
aka: Nam S. Vo
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