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Photo: C. Titus Brown

C. Titus Brown
Associate Professor and Researcher
Population Health & Reproduction


ctbrown@ucdavis.edu

   

Research Focus

Data Intensive Biology

Education

1997 B. A. Mathematics, Reed College, Portland, OR
2007 Ph.D. Developmental Biology, California Institute of Technology, Pasadena, CA

Active Research Grants

Principal Investigator, The Ribosomal Database Project: Sequences and Tools for Microbial Analysis, (Principal Investigator), US DOE

Principal Investigator, Easily accessible Web-based tools for next-generation sequencing analysis, (Principal Investigator), USDA NIFA

Principal Investigator, Analyzing Next-Generation Sequencing Data, (Principal Investigator), NIH

Principal Investigator, Materials and Workshops for Cyberinfrastructure Education in Biology, (Principal Investigator), NSF OCI Supplement

Principal Investigator, The Genetics of Johne’s Disease, (Principal Investigator), USDA NIFA

Principal Investigator, BIGDATA: Low-Memory Streaming Prefilters for Biological Sequencing Data, (Principal Investigator), NIH

Co-Principal Investigator, III:Small:Collaborative Research: Supporting Efficient Discrete Box Queries for Sequence Analysis on Large Scale Genome Databases , (Principal Investigator), NSF

Principal Investigator, Improvement of the Chicken Reference Genome, (Principal Investigator), USDA

Most Recent 10 Publications

  • C. Titus Brown: Divergent mechanisms regulate conserved cardiopharyngeal development and gene expression in distantly related ascidians. 2014 Stolfi A, Lowe EK, Racioppi C, Ristoratore F, Brown CT, Swalla BJ, Christiaen L Divergent mechanisms regulate conserved cardiopharyngeal development and gene expression in distantly related ascidians. eLife,
  • C. Titus Brown: These are not the k-mers you are looking for: efficient online k-mer counting using a probabilistic data structure 2014 Zhang Q, Pell J, Canino-Koning R, Howe AC, Brown CT These are not the k-mers you are looking for: efficient online k-mer counting using a probabilistic data structure PloS one,
  • C. Titus Brown: Tackling soil diversity with the assembly of large, complex metagenomes 2014 Howe AC, Jansson JK, Malfatti SA, Tringe SG, Tiedje JM, Brown CT Tackling soil diversity with the assembly of large, complex metagenomes Proceedings of the National Academy of Sciences of the United States of America,
  • C. Titus Brown: Ribosomal Database Project: data and tools for high throughput rRNA analysis 2014 Cole JR, Wang Q, Fish JA, Chai B, McGarrell DM, Sun Y, Brown CT, Porras-Alfaro A, Kuske CR, Tiedje JM Ribosomal Database Project: data and tools for high throughput rRNA analysis Nucleic acids research,
  • C. Titus Brown: Genomic versatility and functional variation between two dominant heterotrophic symbionts of deep-sea Osedax worms 2014 Goffredi SK, Yi H, Zhang Q, Klann JE, Struve IA, Vrijenhoek RC, Brown CT Genomic versatility and functional variation between two dominant heterotrophic symbionts of deep-sea Osedax worms The ISME journal,
  • C. Titus Brown: Best practices for scientific computing 2014 Wilson G, Aruliah DA, Brown CT, Chue Hong NP, Davis M, Guy RT, Haddock SH, Huff KD, Mitchell IM, Plumbley MD, Waugh B, White EP, Wilson P Best practices for scientific computing PLoS biology,
  • C. Titus Brown: FunGene: the functional gene pipeline and repository 2013 Fish JA, Chai B, Wang Q, Sun Y, Brown CT, Tiedje JM, Cole JR FunGene: the functional gene pipeline and repository Frontiers in microbiology,
  • C. Titus Brown: The genome and developmental transcriptome of the strongylid nematode Haemonchus contortus 2013 Schwarz EM, Korhonen PK, Campbell BE, Young ND, Jex AR, Jabbar A, Hall RS, Mondal A, Howe AC, Pell J, Hofmann A, Boag PR, Zhu XQ, Gregory TR, Loukas A, Williams BA, Antoshechkin I, Brown CT, Sternberg PW, Gasser RB The genome and developmental transcriptome of the strongylid nematode Haemonchus contortus Genome Biology,
  • C. Titus Brown: Integrated analyses of genome-wide DNA occupancy and expression profiling identify key genes and pathways involved in cellular transformation by a Marek's disease virus oncoprotein, Meq 2013 Subramaniam S, Johnston J, Preeyanon L, Brown CT, Kung HJ, Cheng HH Integrated analyses of genome-wide DNA occupancy and expression profiling identify key genes and pathways involved in cellular transformation by a Marek's disease virus oncoprotein, Meq Journal of virology,
  • C. Titus Brown: The sea lamprey has a primordial accessory olfactory system 2013 Chang S, Chung-Davidson YW, Libants SV, Nanlohy KG, Kiupel M, Brown CT, Li W The sea lamprey has a primordial accessory olfactory system BMC evolutionary biology,

Most Recent 5 Book Chapters

2014 Preevanon L, Pyrkosz AB, Brown CT: Reproducible Bioinformatics Research for Biologists, , Implementing Reproducible Research. .

External Links

Data Intensive Biology Lab