C. Titus Brown

Publication Activity (10 Years)

Years Active: 1995-2022
Publications (10 Years): 15

Top Topics

Biological Sequence Analysis

Top Venues

Nucleic Acids Res.

J. Open Source Softw.

Publications

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
Ten simple rules and a template for creating workflows-as-applications. PLoS Comput. Biol. 18 (12) (2022)
Daniel M. Portik, C. Titus Brown, N. Tessa Pierce-Ward
Evaluation of taxonomic classification and profiling methods for long-read shotgun metagenomic sequencing datasets. BMC Bioinform. 23 (1) (2022)
Reza Mazloom, Leighton Pritchard, C. Titus Brown, Boris A. Vinatzer, Lenwood S. Heath
LINgroups as a principled approach to compare and integrate multiple bacterial taxonomies. BCB (2022)
Moustafa Shokrof, C. Titus Brown, Tamer A. Mansour
MQF and buffered MQF: quotient filters for efficient storage of k-mers with their counts and metadata. BMC Bioinform. 22 (1) (2021)
Faryad Sahneh, Meghan A. Balk, Marina Kisley, Chi-Kwan Chan, Mercury Fox, Brian Nord, Eric Lyons, Tyson 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
Ten simple rules to cultivate transdisciplinary collaboration in data science. PLoS Comput. Biol. 17 (5) (2021)
Xianying Liu, Qiang Zhu, Sakti Pramanik, C. Titus Brown, Gang Qian
VA-Store: A Virtual Approximate Store Approach to Supporting Repetitive Big Data in Genome Sequence Analyses. IEEE Trans. Knowl. Data Eng. 32 (3) (2020)
Adrienne Hoarfrost, Nick Brown, C. Titus Brown, Carol Arnosti
Sequencing data discovery with MetaSeek. Bioinform. 35 (22) (2019)
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
ANISEED 2017: extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets. Nucleic Acids Res. 46 (Database-Issue) (2018)
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
The principles of tomorrow's university. F1000Research 7 (2018)
Konrad J. Karczewski, Nicholas P. Tatonetti, Chirag J. Patel, Arjun K. Manrai, C. Titus Brown, John P. A. Ioannidis
Session Introduction. PSB (2017)
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, Joseph Stachelek, Marcel Stimberg, Frank Stollmeier, Federico Vaggi, Guillaume Viejo, Julien Vitay, Anya E. Vostinar, Roman Yurchak, Tiziano Zito
Sustainable computational science: the ReScience initiative. PeerJ Comput. Sci. 3 (2017)
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, Joseph Stachelek, Marcel Stimberg, Frank Stollmeier, Federico Vaggi, Guillaume Viejo, Julien Vitay, Anya E. Vostinar, Roman Yurchak, Tiziano Zito
Sustainable computational science: the ReScience initiative. CoRR (2017)
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
khmer release v2.1: software for biological sequence analysis. J. Open Source Softw. 2 (15) (2017)
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
ANISEED 2015: a digital framework for the comparative developmental biology of ascidians. Nucleic Acids Res. 44 (Database-Issue) (2016)
C. Titus Brown, Luiz Irber
sourmash: a library for MinHash sketching of DNA. J. Open Source Softw. 1 (5) (2016)
Yarong Gu, Xianying Liu, Qiang Zhu, Youchao Dong, C. Titus Brown, Sakti Pramanik
A new method for DNA sequencing error verification and correction via an on-disk index tree. BCB (2015)
Qingpeng Zhang, Sherine Awad, C. Titus Brown
Crossing the streams: a framework for streaming analysis of short DNA sequencing reads. PeerJ Prepr. 3 (2015)
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 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 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 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
The khmer software package: enabling efficient nucleotide sequence analysis. F1000Research 4 (2015)
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
Ribosomal Database Project: data and tools for high throughput rRNA analysis. Nucleic Acids Res. 42 (Database-Issue) (2014)
Eric McDonald, C. Titus Brown
khmer: Working with Big Data in Bioinformatics CoRR (2013)
Meznah Almutairy, Jordan A. Fish, C. Titus Brown
Space-efficient read indexing and retrieval based on compressed de Bruijn graphs. ICCABS (2013)
Jason Pell, Arend Hintze, Rosangela Canino-Koning, Adina Howe, James M. Tiedje, C. Titus Brown
Scaling metagenome sequence assembly with probabilistic de Bruijn graphs. Proc. Natl. Acad. Sci. USA 109 (33) (2012)
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
Changing computational research. The challenges ahead. Source Code Biol. Medicine 7 (2012)
Jason Pell, Arend Hintze, Rosangela Canino-Koning, Adina Howe, James M. Tiedje, C. Titus Brown
Workshop: Graph compression approaches in assembly. ICCABS (2012)
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
Best Practices for Scientific Computing CoRR (2012)
C. Titus Brown, Yuan Xie, Eric H. Davidson, R. Andrew Cameron
Paircomp, FamilyRelationsII and Cartwheel: tools for interspecific sequence comparison. BMC Bioinform. 6 (2005)
Mark A. Bedau, C. Titus Brown
Visualizing Evolutionary Activity of Genotypes. Artif. Life 5 (1) (1999)
Christoph Adami, C. Titus Brown, Michael R. Haggerty
Abundance-Distributions in Artificial Life and Stochastic Models: "Age and Area" Revisited. ECAL (1995)