C. Titus Brown

According to our database, C. Titus Brown authored at least 28 papers between 1995 and 2024.

Collaborative distances:

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

2024

sourmash v4: A multitool to quickly search, compare, and analyze genomic and metagenomic data sets.

Luiz Irber, N. Tessa Pierce-Ward, Mohamed Abuelanin, Harriet Alexander, Abhishek Anant, Keya Barve, Colton Baumler, Olga B. Botvinnik, Phillip Brooks, Daniel Dsouza, Gautier Laurent, Mahmudur Rahman Hera, Hannah Eve Houts, Lisa K. Johnson, Fabian Klötzl, David Koslicki, Marisa Lim, Ricky Lim, Bradley Nelson, Ivan Ogasawara, Taylor Reiter, Camille Scott, Andreas Sjödin, Daniel S. Standage, S. Joshua Swamidass, Connor Tiffany, Pranathi Vemuri, Erik Young, C. Titus Brown

J. Open Source Softw., 2024

2022

Ten simple rules and a template for creating workflows-as-applications.

Michael J. Roach, N. Tessa Pierce-Ward, Radoslaw Suchecki, Vijini Mallawaarachchi, Bhavya Nalagampalli Papudeshi, Scott A. Handley, C. Titus Brown, Nathan S. Watson-Haigh, Robert A. Edwards

PLoS Comput. Biol., December, 2022

Evaluation of taxonomic classification and profiling methods for long-read shotgun metagenomic sequencing datasets.

Daniel M. Portik, C. Titus Brown, N. Tessa Pierce-Ward

BMC Bioinform., 2022

LINgroups as a principled approach to compare and integrate multiple bacterial taxonomies.

Reza Mazloom, Leighton Pritchard, C. Titus Brown, Boris A. Vinatzer, Lenwood S. Heath

Proceedings of the BCB '22: 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, Northbrook, Illinois, USA, August 7, 2022

2021

Ten simple rules to cultivate transdisciplinary collaboration in data science.

Faryad Sahneh, Meghan A. Balk, Marina Kisley, Chi-Kwan Chan, Mercury Fox, Brian Nord, Eric Lyons, Tyson Lee Swetnam, Daniela Huppenkothen, Will Sutherland, Ramona L. Walls, Daven P. Quinn, Tonantzin Tarin, David S. LeBauer, David Ribes, Dunbar P. Birnie III, Carol Lushbough, Eric Carr, Grey Nearing, Jeremy Fischer, Kevin Tyle, Luis Carrasco, Meagan Lang, Peter W. Rose, Richard R. Rushforth, Samapriya Roy, Thomas Matheson, Tina Lee, C. Titus Brown, Tracy K. Teal, Monica Papes, Stephen G. Kobourov, Nirav C. Merchant

PLoS Comput. Biol., 2021

MQF and buffered MQF: quotient filters for efficient storage of k-mers with their counts and metadata.

Moustafa Shokrof, C. Titus Brown, Tamer A. Mansour

BMC Bioinform., 2021

2020

VA-Store: A Virtual Approximate Store Approach to Supporting Repetitive Big Data in Genome Sequence Analyses.

Xianying Liu, Qiang Zhu, Sakti Pramanik, C. Titus Brown, Gang Qian

IEEE Trans. Knowl. Data Eng., 2020

2019

Sequencing data discovery with MetaSeek.

Adrienne Hoarfrost, Nick Brown, C. Titus Brown, Carol Arnosti

Bioinform., 2019

2018

ANISEED 2017: extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets.

Matija Brozovic, Christelle Dantec, Justine Dardaillon, Delphine Dauga, Emmanuel Faure, Mathieu Gineste, Alexandra Louis, Magali Naville, Kazuhiro R. Nitta, Jacques Piette, Wendy Reeves, Céline Scornavacca, Paul Simion, Renaud Vincentelli, Maelle Bellec, Sameh Ben Aicha, Marie Fagotto, Marion Guéroult-Bellone, Maximilian Haeussler, Edwin Jacox, Elijah K. Lowe, Mickaël Mendez, Alexis Roberge, Alberto Stolfi, Rui Yokomori, C. Titus Brown, Christian Cambillau, Lionel A. Christiaen, Frédéric Delsuc, Emmanuel J. P. Douzery, Rémi Dumollard, Takehiro Kusakabe, Kenta Nakai, Hiroki Nishida, Yutaka Satou, Billie J. Swalla, Michael Veeman, Jean-Nicolas Volff, Patrick Lemaire

Nucleic Acids Res., 2018

The principles of tomorrow's university.

Daniel S. Katz, Gabrielle Allen, Lorena A. Barba, Devin R. Berg, Holly Bik, Carl Boettiger, Christine L. Borgman, C. Titus Brown, Stuart Buck, Randy Burd, Anita de Waard, Martin Paul Eve, Brian E. Granger, Josh Greenberg, Adina Howe, Bill Howe, May Khanna, Timothy L. Killeen, Matthew S. Mayernik, Erin C. McKiernan, Chris Mentzel, Nirav C. Merchant, Kyle E. Niemeyer, Laura Norén, Sarah M. Nusser, Daniel A. Reed, Edward Seidel, MacKenzie Smith, Jeffrey R. Spies, Matthew J. Turk, John D. Van Horn, Jay Walsh

F1000Research, 2018

2017

Sustainable computational science: the ReScience initiative.

Nicolas P. Rougier, Konrad Hinsen, Frédéric Alexandre, Thomas Arildsen, Lorena A. Barba, Fabien C. Y. Benureau, C. Titus Brown, Pierre de Buyl, Ozan Caglayan, Andrew P. Davison, Marc-André Delsuc, Georgios Detorakis, Alexandra K. Diem, Damien Drix, Pierre Enel, Benoît Girard, Olivia Guest, Matt G. Hall, Rafael Neto Henriques, Xavier Hinaut, Kamil S. Jaron, Mehdi Khamassi, Almar Klein, Tiina Manninen, Pietro Marchesi, Dan McGlinn, Christoph Metzner, Owen L. Petchey, Hans Ekkehard Plesser, Timothée Poisot, Karthik Ram, Yoav Ram, Etienne B. Roesch, Cyrille Rossant, Vahid Rostami, Aaron Shifman, Jemma Stachelek, Marcel Stimberg, Frank Stollmeier, Federico Vaggi, Guillaume Viejo, Julien Vitay, Anya E. Vostinar, Roman Yurchak, Tiziano Zito

PeerJ Comput. Sci., 2017

khmer release v2.1: software for biological sequence analysis.

Daniel S. Standage, Ali yari, Lisa J. Cohen, Michael R. Crusoe, Tim Head, Luiz Irber, Shannon E. K. Joslin, N. B. Kingsley, Kevin D. Murray, Russell Y. Neches, Camille Scott, Ryan Shean, Sascha Steinbiss, Cait Sydney, C. Titus Brown

J. Open Source Softw., 2017

Session Introduction.

Konrad J. Karczewski, Nicholas P. Tatonetti, Chirag J. Patel, Arjun K. Manrai, C. Titus Brown, John P. A. Ioannidis

Proceedings of the Biocomputing 2017: Proceedings of the Pacific Symposium, 2017

2016

ANISEED 2015: a digital framework for the comparative developmental biology of ascidians.

Matija Brozovic, Cyril Martin, Christelle Dantec, Delphine Dauga, Mickaël Mendez, Paul Simion, Madeline Percher, Baptiste Laporte, Céline Scornavacca, Anna Di Gregorio, Shigeki Fujiwara, Mathieu Gineste, Elijah K. Lowe, Jacques Piette, Claudia Racioppi, Filomena Ristoratore, Yasunori Sasakura, Naohito Takatori, C. Titus Brown, Frédéric Delsuc, Emmanuel J. P. Douzery, Carmela Gissi, Alex McDougall, Hiroki Nishida, Hitoshi Sawada, Billie J. Swalla, Hitoyoshi Yasuo, Patrick Lemaire

Nucleic Acids Res., 2016

sourmash: a library for MinHash sketching of DNA.

C. Titus Brown, Luiz Irber

J. Open Source Softw., 2016

2015

Crossing the streams: a framework for streaming analysis of short DNA sequencing reads.

Qingpeng Zhang, Sherine Awad, C. Titus Brown

PeerJ Prepr., 2015

The khmer software package: enabling efficient nucleotide sequence analysis.

Michael R. Crusoe, Hussien F. Alameldin, Sherine Awad, Elmar Boucher, Adam Caldwell, Reed Cartwright, Amanda Charbonneau, Bede Constantinides, Greg Edvenson, Scott Fay, Jacob Fenton, Thomas Fenzl, Jordan A. Fish, Leonor Garcia-Gutierrez, Phillip Garland, Jonathan Gluck, Iván González, Sarah Guermond, Jiarong Guo, Aditi Gupta, Joshua R. Herr, Adina Howe, Alex Hyer, Andreas Härpfer, Luiz Irber, Rhys Kidd, David Lin, Justin Lippi, Tamer A. Mansour, Pamela McA'Nulty, Eric McDonald, Jessica Mizzi, Kevin D. Murray, Joshua R. Nahum, Kaben Nanlohy, Alexander Johan Nederbragt, Humberto Ortiz-Zuazaga, Jeramia Ory, Jason Pell, Charles Pepe-Ranney, Zachary N. Russ, Erich M. Schwarz, Camille Scott, Josiah D. Seaman, Scott Sievert, Jared Simpson, Connor Skennerton, James Spencer, Ramakrishnan Srinivasan, Daniel S. Standage, James A. Stapleton, Susan R. Steinman, Joe Stein, Benjamin Taylor, Will Trimble, Heather Wiencko, Michael Wright, Brian Wyss, Qingpeng Zhang, en zyme, C. Titus Brown

F1000Research, 2015

A new method for DNA sequencing error verification and correction via an on-disk index tree.

Yarong Gu, Xianying Liu, Qiang Zhu, Youchao Dong, C. Titus Brown, Sakti Pramanik

Proceedings of the 6th ACM Conference on Bioinformatics, 2015

2014

Ribosomal Database Project: data and tools for high throughput rRNA analysis.

James R. Cole, Qiong Wang, Jordan A. Fish, Benli Chai, Donna M. McGarrell, Yanni Sun, C. Titus Brown, Andrea Porras-Alfaro, Cheryl R. Kuske, James M. Tiedje

Nucleic Acids Res., 2014

2013

khmer: Working with Big Data in Bioinformatics

Eric McDonald, C. Titus Brown

CoRR, 2013

Space-efficient read indexing and retrieval based on compressed de Bruijn graphs.

Meznah Almutairy, Jordan A. Fish, C. Titus Brown

Proceedings of the IEEE 3rd International Conference on Computational Advances in Bio and Medical Sciences, 2013

2012

Changing computational research. The challenges ahead.

Cameron Neylon, Jan Aerts, C. Titus Brown, Simon J. Coles, Les Hatton, Daniel Lemire, K. Jarrod Millman, Peter Murray-Rust, Fernando Pérez, Neil F. W. Saunders, Nigam Shah, Arfon M. Smith, Gaël Varoquaux, Egon L. Willighagen

Source Code Biol. Medicine, 2012

Scaling metagenome sequence assembly with probabilistic de Bruijn graphs.

Jason Pell, Arend Hintze, Rosangela Canino-Koning, Adina Howe, James M. Tiedje, C. Titus Brown

Proc. Natl. Acad. Sci. USA, 2012

Best Practices for Scientific Computing

Dhavide A. Aruliah, C. Titus Brown, Neil P. Chue Hong, Matt Davis, Richard T. Guy, Steven H. D. Haddock, Katy Huff, Ian Mitchell, Mark D. Plumbley, Ben Waugh, Ethan P. White, Greg Wilson, Paul Wilson

CoRR, 2012

Workshop: Graph compression approaches in assembly.

Jason Pell, Arend Hintze, Rosangela Canino-Koning, Adina Howe, James M. Tiedje, C. Titus Brown

Proceedings of the IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, 2012

2005

Paircomp, FamilyRelationsII and Cartwheel: tools for interspecific sequence comparison.

C. Titus Brown, Yuan Xie, Eric H. Davidson, R. Andrew Cameron

BMC Bioinform., 2005

1999

Visualizing Evolutionary Activity of Genotypes.

Mark A. Bedau, C. Titus Brown

Artif. Life, 1999

1995

Abundance-Distributions in Artificial Life and Stochastic Models: "Age and Area" Revisited.

Christoph Adami, C. Titus Brown, Michael R. Haggerty

Proceedings of the Advances in Artificial Life, 1995