Selective mapping: a discrete optimization approach to selecting a population subset for use in a high-density genetic mapping project. - Daniel G. Brown 001; Todd J. Vision; Steven D. Tanksley (SODA, 2000)

Algorithmic Methods in Genetic Mapping. - Daniel G. Brown 001 (2000)

A probabilistic analysis of a greedy algorithm arising from computational biology. - Daniel G. Brown 001 (SODA, 2001)

Optimal Spaced Seeds for Hidden Markov Models, with Application to Homologous Coding Regions. - Brona Brejová; Daniel G. Brown 001; Tomás Vinar (CPM, 2003)

Vector Seeds: An Extension to Spaced Seeds Allows Substantial Improvements in Sensitivity and Specifity. - Brona Brejová; Daniel G. Brown 001; Tomás Vinar (WABI, 2003)

Optimal DNA Signal Recognition Models with a Fixed Amount of Intrasignal Dependency. - Brona Brejová; Daniel G. Brown 001; Tomás Vinar (WABI, 2003)

The Most Probable Labeling Problem in HMMs and Its Application to Bioinformatics. - Brona Brejová; Daniel G. Brown 001; Tomás Vinar (WABI, 2004)

Multiple Vector Seeds for Protein Alignment. - Daniel G. Brown 001 (WABI, 2004)

A New Integer Programming Formulation for the Pure Parsimony Problem in Haplotype Analysis. - Daniel G. Brown 001; Ian M. Harrower (WABI, 2004)

New Algorithms for Multiple DNA Sequence Alignment. - Daniel G. Brown 001; Alexander K. Hudek (WABI, 2004)

Optimal Spaced Seeds for Homologous Coding Regions. - Brona Brejová; Daniel G. Brown 001; Tomás Vinar (J. Bioinform. Comput. Biol., 2004)

A Tutorial of Recent Developments in the Seeding of Local Alignment. - Daniel G. Brown 001; Ming Li 001; Bin Ma 002 (J. Bioinform. Comput. Biol., 2004)

Sharper Upper and Lower Bounds for an Approximation Scheme for Consensus-Pattern. - Brona Brejová; Daniel G. Brown 001; Ian M. Harrower; Alejandro López-Ortiz; Tomás Vinar (CPM, 2005)

ExonHunter: a comprehensive approach to gene finding. - Brona Brejová; Daniel G. Brown 001; Ming Li 001; Tomás Vinar (ISMB (Supplement of Bioinformatics), 2005)

Ancestral sequence alignment under optimal conditions. - Alexander K. Hudek; Daniel G. Brown 001 (BMC Bioinform., 2005)

Vector seeds: An extension to spaced seeds. - Brona Brejová; Daniel G. Brown 001; Tomás Vinar (J. Comput. Syst. Sci., 2005)

Optimizing Multiple Seeds for Protein Homology Search. - Daniel G. Brown 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2005)

New Bounds for Motif Finding in Strong Instances. - Brona Brejová; Daniel G. Brown 001; Ian M. Harrower; Tomás Vinar (CPM, 2006)

The Use of Functional Domains to Improve Transmembrane Protein Topology Prediction. - Emily W. Xu; Paul Kearney; Daniel G. Brown 001 (J. Bioinform. Comput. Biol., 2006)

Optimizing Multiple Spaced Seeds for Homology Search. - Jinbo Xu; Daniel G. Brown 001; Ming Li 001; Bin Ma 002 (J. Comput. Biol., 2006)

Integer Programming Approaches to Haplotype Inference by Pure Parsimony. - Daniel G. Brown 001; Ian M. Harrower (IEEE ACM Trans. Comput. Biol. Bioinform., 2006)

Integer Programming Formulations and Computations Solving Phylogenetic and Population Genetic Problems with Missing or Genotypic Data. - Dan Gusfield; Yelena Frid; Daniel G. Brown 001 (COCOON, 2007)

A Graph Clustering Approach to Weak Motif Recognition. - Christina Boucher 001; Daniel G. Brown 001; Paul Church (WABI, 2007)

The most probable annotation problem in HMMs and its application to bioinformatics. - Brona Brejová; Daniel G. Brown 001; Tomás Vinar (J. Comput. Syst. Sci., 2007)

On the Structure of Small Motif Recognition Instances. - Christina Boucher 001; Daniel G. Brown 001; Stephane Durocher (SPIRE, 2008)

Detecting Motifs in a Large Data Set: Applying Probabilistic Insights to Motif Finding. - Christina Boucher 001; Daniel G. Brown 001 (BICoB, 2009)

Automatic Detection of Internal and Imperfect Rhymes in Rap Lyrics. - Hussein Hirjee; Daniel G. Brown 001 (ISMIR, 2009)

A Tutorial of Techniques for Improving Standard Hidden Markov Model Algorithms. - Daniil Golod; Daniel G. Brown 001 (J. Bioinform. Comput. Biol., 2009)

Solving Misheard Lyric Search Queries Using a Probabilistic Model of Speech Sounds. - Hussein Hirjee; Daniel G. Brown 001 (ISMIR, 2010)

Discovering Kinship through Small Subsets. - Daniel G. Brown 001; Tanya Y. Berger-Wolf (WABI, 2010)

Decoding HMMs using the k best paths: algorithms and applications. - Daniel G. Brown 001; Daniil Golod (BMC Bioinform., 2010)

New decoding algorithms for Hidden Markov Models using distance measures on labellings. - Daniel G. Brown 001; Jakub Truszkowski (BMC Bioinform., 2010)

Invited: Fast and theoretically strong algorithms for kinship discovery. - Daniel G. Brown 001 (ICCABS, 2011)

Towards a Practical O(n logn) Phylogeny Algorithm. - Daniel G. Brown 001; Jakub Truszkowski (WABI, 2011)

More accurate recombination prediction in HIV-1 using a robust decoding algorithm for HMMs. - Jakub Truszkowski; Daniel Gregory Brown (BMC Bioinform., 2011)

Fast reconstruction of phylogenetic trees using locally-sensitive hashing - Daniel G. Brown 001; Jakub Truszkowski (CoRR, 2011)

FEAST: Sensitive Local Alignment with Multiple Rates of Evolution. - Alexander K. Hudek; Daniel Gregory Brown (IEEE ACM Trans. Comput. Biol. Bioinform., 2011)

Effects of rooting via outgroups on ingroup topology in phylogeny. - Margareta Ackerman; Dan Brown 001; David Loker (ICCABS, 2012)

BLAST for Audio Sequences Alignment: A Fast Scalable Cover Identification Tool. - Benjamin Martin 001; Daniel G. Brown 001; Pierre Hanna; Pascal Ferraro (ISMIR, 2012)

SibJoin: A Fast Heuristic for Half-Sibling Reconstruction. - Daniel Gregory Brown; Daniel Dexter (WABI, 2012)

Fast Phylogenetic Tree Reconstruction Using Locality-Sensitive Hashing. - Daniel Gregory Brown; Jakub Truszkowski (WABI, 2012)

Towards a practical O(n log n) phylogeny algorithm. - Jakub Truszkowski; Yanqi Hao; Daniel G. Brown 001 (Algorithms Mol. Biol., 2012)

PANDAseq: paired-end assembler for illumina sequences. - Andre P. Masella; Andrea K. Bartram; Jakub Truszkowski; Daniel Gregory Brown; Josh D. Neufeld (BMC Bioinform., 2012)

LSHPlace: Fast Phylogenetic Placement Using Locality-Sensitive Hashing. - Daniel G. Brown 001; Jakub Truszkowski (Pacific Symposium on Biocomputing, 2013)

Fast half-sibling population reconstruction: theory and algorithms. - Daniel Dexter; Daniel G. Brown 001 (Algorithms Mol. Biol., 2013)

Fast error-tolerant quartet phylogeny algorithms. - Daniel G. Brown 001; Jakub Truszkowski (Theor. Comput. Sci., 2013)

On Cultural, Textual and Experiential Aspects of Music Mood. - Abhishek Singhi; Daniel G. Brown 001 (ISMIR, 2014)

Are Poetry and Lyrics All That Different? - Abhishek Singhi; Daniel G. Brown 001 (ISMIR, 2014)

Effects of rooting via out-groups on in-group topology in phylogeny. - Margareta Ackerman; Daniel G. Brown 001; David Loker (Int. J. Bioinform. Res. Appl., 2014)

Human Competence in Creativity Evaluation. - Carolyn Lamb; Daniel G. Brown 001; Charles L. A. Clarke (ICCC, 2015)

Pollux: platform independent error correction of single and mixed genomes. - Eric Marinier; Daniel G. Brown 001; Brendan J. McConkey (BMC Bioinform., 2015)

Evaluating digital poetry: Insights from the CAT. - Carolyn Lamb; Daniel G. Brown 001; Charles L. A. Clarke (ICCC, 2016)

Melody Retrieval and Classification Using Biologically-Inspired Techniques. - Dimitrios Bountouridis; Dan Brown 001; Hendrik Vincent Koops; Frans Wiering; Remco C. Veltkamp (EvoMUSART, 2017)

Towards Polyphony Reconstruction Using Multidimensional Multiple Sequence Alignment. - Dimitrios Bountouridis; Frans Wiering; Dan Brown 001; Remco C. Veltkamp (EvoMUSART, 2017)

Incorporating novelty, meaning, reaction and craft into computational poetry: a negative experimental result. - Carolyn Lamb; Daniel G. Brown 001; Charles L. A. Clarke (ICCC, 2017)

Evaluating Computational Creativity: An Interdisciplinary Tutorial. - Carolyn Lamb; Daniel G. Brown 001; Charles L. A. Clarke (ACM Comput. Surv., 2018)

TwitSong 3.0: Towards Semantic Revisions in Computational Poetry. - Carolyn Lamb; Daniel G. Brown 001 (ICCC, 2019)

Shallow Art: Art Extension Through Simple Machine Learning. - Kyle Robinson; Dan Brown 001 (ICCC, 2019)

User Insights on Diversity in Music Recommendation Lists. - Kyle Robinson; Dan Brown 001; Markus Schedl (ISMIR, 2020)

Are Machine Learning Corpora "Fair Dealing" under Canadian Law? - Dan Brown 001; Lauren Byl; Maura R. Grossman (ICCC, 2021)

Incorporating Algorithmic Information Theory into Fundamental Concepts of Computational Creativity. - Tiasa Mondol; Daniel G. Brown 001 (ICCC, 2021)

Quantitative User Perceptions of Music Recommendation List Diversity. - Kyle Robinson; Dan Brown 001 (ISMIR, 2021)

On the Problem of Small Objects. - Daniel G. Brown 001; Tiasa Mondol (Entropy, 2021)

Computational Creativity and Aesthetics with Algorithmic Information Theory. - Tiasa Mondol; Daniel G. Brown 001 (Entropy, 2021)

Is style reproduction a computational creativity task? - Daniel G. Brown 001; Anna Jordanous (ICCC, 2022)

Ethics, Aesthetics and Computational Creativity. - Daniel G. Brown 001; Dan Ventura (ICCC, 2022)

Training GPT-2 to represent two Romantic-era authors: challenges, evaluations and pitfalls. - Piotr Sawicki; Marek Grzes; Anna Jordanous; Dan Brown 001; Max Peeperkorn (ICCC, 2022)

Crowd Score: A Method for the Evaluation of Jokes using Large Language Model AI Voters as Judges. - Fabrício Góes; Zisen Zhou; Piotr Sawicki; Marek Grzes; Daniel G. Brown 001 (CoRR, 2022)

Reviewing, Creativity, and Algorithmic Information Theory. - Dan Brown 001; Max Peeperkorn (ICCC, 2023)

Is GPT-4 Good Enough to Evaluate Jokes? - Fabrício Góes; Piotr Sawicki; Marek Grzes; Marco Volpe 001; Dan Brown 001 (ICCC, 2023)

Should we have seen the coming storm? Transformers, society, and CC. - Carolyn Lamb; Dan Brown 001 (ICCC, 2023)

On Characterizations of Large Language Models and Creativity Evaluation. - Max Peeperkorn; Dan Brown 001; Anna Jordanous (ICCC, 2023)

Bits of Grass: Does GPT already know how to write like Whitman? - Piotr Sawicki; Marek Grzes; Fabrício Góes; Dan Brown 001; Max Peeperkorn; Aisha Khatun (ICCC, 2023)

On the power of special-purpose GPT models to create and evaluate new poetry in old styles. - Piotr Sawicki; Marek Grzes; Fabrício Góes; Anna Jordanous; Dan Brown 001; Simona Paraskevopoulou; Max Peeperkorn; Aisha Khatun (ICCC, 2023)

What Makes Gameplay Creative? - Brad Spendlove; Dan Brown 001 (ICCC, 2023)

Automated Time-frequency Domain Audio Crossfades using Graph Cuts. - Kyle Robinson; Dan Brown 001 (CoRR, 2023)

Large Music Recommendation Studies for Small Teams. - Kyle Robinson; Dan Brown 001 (CoRR, 2023)

Reliability Check: An Analysis of GPT-3's Response to Sensitive Topics and Prompt Wording. - Aisha Khatun; Daniel G. Brown 001 (CoRR, 2023)

Depictions of Jews in Large Generative Models. - Margareta Ackerman; Daniel G. Brown 001 (ICCC, 2024)

Is Temperature the Creativity Parameter of Large Language Models? - Max Peeperkorn; Tom Kouwenhoven; Dan Brown 001; Anna Jordanous (ICCC, 2024)

Creativity as Search for Small and Interesting Programs. - Dan Ventura; Dan Brown 001 (ICCC, 2024)

A Study on Large Language Models' Limitations in Multiple-Choice Question Answering. - Aisha Khatun; Daniel G. Brown 001 (CoRR, 2024)

TruthEval: A Dataset to Evaluate LLM Truthfulness and Reliability. - Aisha Khatun; Daniel G. Brown 001 (CoRR, 2024)

Watching Popular Musicians Learn by Ear: A Hypothesis-Generating Study of Human-Recording Interactions in YouTube Videos. - Christopher Liscio; Daniel G. Brown 001 (CoRR, 2024)

Assessing Language Models' Worldview for Fiction Generation. - Aisha Khatun; Daniel G. Brown 001 (CoRR, 2024)

Precarity and Solidarity: Preliminary results on a study of queer and disabled fiction writers' experiences with generative AI. - C. E. Lamb; Dan Brown 001; Maura R. Grossman (CoRR, 2024)

Opportunities and Limits of Online Video Studies. - Christopher Liscio; Daniel G. Brown 001 (Conference on Designing Interactive Systems, 2025)

Self-Disclosure and Beyond: Takeaways from an Online and In-Person Computing Ethics Course. - Helen Weixu Chen; Maura R. Grossman; Daniel G. Brown 001 (SIGCSE (2), 2025)

Helping Popular Musicians Learn by Ear: Analyzing Video Lessons to Inform the Design of Memory-Oriented Human-Recording Interactions. - Christopher Liscio; Daniel G. Brown 001 (TEI, 2025)

Can Large Language Models Outperform Non-Experts in Poetry Evaluation? A Comparative Study Using the Consensual Assessment Technique. - Piotr Sawicki; Marek Grzes; Dan Brown 001; Fabrício Góes (CoRR, 2025)

Assessment of AI-Generated Pediatric Rehabilitation SOAP-Note Quality. - Solomon Amenyo; Maura R. Grossman; Daniel G. Brown 001; Brendan Wylie-Toal (CoRR, 2025)

Mind the Gap: Conformative Decoding to Improve Output Diversity of Instruction-Tuned Large Language Models. - Max Peeperkorn; Tom Kouwenhoven; Dan Brown 001; Anna Jordanous (CoRR, 2025)