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List of works by Bruce Birren

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Initial sequencing and analysis of the human genome

scientific article published on 15 February 2001
Full-length transcriptome assembly from RNA-Seq data without a reference genome

scientific article
Initial sequencing and comparative analysis of the mouse genome

scientific article
A second generation human haplotype map of over 3.1 million SNPs

scientific article
Genome-wide detection and characterization of positive selection in human populations

scientific article
Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

scientific article (publication date: March 2011)
Sequencing and comparison of yeast species to identify genes and regulatory elements

scientific article published on May 15, 2003
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype

scientific article
The genome sequence of the filamentous fungus Neurospora crassa

scientific article
Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae

scientific article (publication date: 8 April 2004)
Genomic analysis identifies association of Fusobacterium with colorectal carcinoma

scientific article
Genome sequence of Aedes aegypti, a major arbovirus vector

scientific article
The genome sequence of the rice blast fungus Magnaporthe grisea

scientific article
Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak

scientific article
Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae

scientific article
Evolution of pathogenicity and sexual reproduction in eight Candida genomes

scientific article
Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis

scientific article
A catalog of reference genomes from the human microbiome

scientific article
The Fusarium graminearum genome reveals a link between localized polymorphism and pathogen specialization

scientific article
Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters

scientific article published in July 2014
Comparative functional genomics of the fission yeasts

scientific article
The genome of M. acetivorans reveals extensive metabolic and physiological diversity

scientific article
Lifestyle transitions in plant pathogenic Colletotrichum fungi deciphered by genome and transcriptome analyses

scientific article
A genome-wide map of diversity in Plasmodium falciparum

scientific article published on 10 December 2006
Sequencing of Culex quinquefasciatus establishes a platform for mosquito comparative genomics

scientific article
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

scientific article
Dynamics of Pseudomonas aeruginosa genome evolution

scientific article
Whole genome deep sequencing of HIV-1 reveals the impact of early minor variants upon immune recognition during acute infection

scientific article published on 8 March 2012
Mosquito genomics. Highly evolvable malaria vectors: the genomes of 16 Anopheles mosquitoes

scientific article published on 27 November 2014
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

scientific article
Ebola Virus Epidemiology, Transmission, and Evolution during Seven Months in Sierra Leone

scientific article
Genomic analysis identifies targets of convergent positive selection in drug-resistant Mycobacterium tuberculosis

scientific article published on September 2013
Naturally occurring dominant resistance mutations to hepatitis C virus protease and polymerase inhibitors in treatment-naïve patients

scientific article (publication date: December 2008)
Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea (Coprinus cinereus)

scientific article
Genomic insights into the Ixodes scapularis tick vector of Lyme disease

scientific article published on 9 February 2016
Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication

scientific article
Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011.

scientific article published on 6 February 2012
The malaria parasite Plasmodium vivax exhibits greater genetic diversity than Plasmodium falciparum

scientific article
Dynamics of dengue disease severity determined by the interplay between viral genetics and serotype-specific immunity

scientific article published in December 2011
Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives

scientific article
The complete genome and proteome of Mycoplasma mobile

scientific article
Whole genome amplification and de novo assembly of single bacterial cells

scientific article
Comparative genomics of enterococci: variation in Enterococcus faecalis, clade structure in E. faecium, and defining characteristics of E. gallinarum and E. casseliflavus

scientific article
Clinical Sequencing Uncovers Origins and Evolution of Lassa Virus

scientific article
Emergence of epidemic multidrug-resistant Enterococcus faecium from animal and commensal strains

scientific article published on 20 August 2013
The Human Microbiome Project: a community resource for the healthy human microbiome

scientific article
Lymphopenia in the BB rat model of type 1 diabetes is due to a mutation in a novel immune-associated nucleotide (Ian)-related gene

scientific article published on July 2002
Genomics of the fungal kingdom: insights into eukaryotic biology

scientific article
Evolution of Extensively Drug-Resistant Tuberculosis over Four Decades: Whole Genome Sequencing and Dating Analysis of Mycobacterium tuberculosis Isolates from KwaZulu-Natal

scientific article (publication date: September 2015)
Dothideomycete plant interactions illuminated by genome sequencing and EST analysis of the wheat pathogen Stagonospora nodorum

scientific article

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