List of works by James Galagan

A Förster Resonance Energy Transfer-Based Ratiometric Sensor with the Allosteric Transcription Factor TetR

scientific article published on 06 April 2020

A blind deconvolution approach to high-resolution mapping of transcription factor binding sites from ChIP-seq data

scientific article

A genome-wide map of diversity in Plasmodium falciparum

scientific article published on 10 December 2006

A high-density single nucleotide polymorphism map for Neurospora crassa

scientific article

A progesterone biosensor derived from microbial screening

scientific article published on 09 March 2020

A systems biology approach to infectious disease research: innovating the pathogen-host research paradigm

scientific article

Assembly of polymorphic genomes: algorithms and application to Ciona savignyi

scientific article published on August 2005

ChIP-Seq and the complexity of bacterial transcriptional regulation

scientific article published on January 2013

Combo: a whole genome comparative browser

scientific article (publication date: 15 July 2006)

Comparative analysis of Mycobacterium and related Actinomycetes yields insight into the evolution of Mycobacterium tuberculosis pathogenesis

scientific article

Comparative genomic characterization of Francisella tularensis strains belonging to low and high virulence subspecies

scientific article

Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium

scientific article

Comparative genomics yields insights into niche adaptation of plant vascular wilt pathogens

scientific article

Conrad: gene prediction using conditional random fields.

scientific article published on 9 August 2007

Conserved secondary structures in Aspergillus

scientific article

Cross-kingdom patterns of alternative splicing and splice recognition

scientific article (publication date: 2008)

Decoding ChIP-seq with a double-binding signal refines binding peaks to single-nucleotides and predicts cooperative interaction

scientific article

Dothideomycete plant interactions illuminated by genome sequencing and EST analysis of the wheat pathogen Stagonospora nodorum

scientific article

Dual modes of natural selection on upstream open reading frames.

scientific article published on 9 May 2007

Dynamics of Pseudomonas aeruginosa genome evolution

scientific article

Enabling a community to dissect an organism: overview of the Neurospora functional genomics project

scientific article

Epigenetic competition reveals density-dependent regulation and target site plasticity of phosphorothioate epigenetics in bacteria

scientific article published on 09 June 2020

Evolutionary roles of upstream open reading frames in mediating gene regulation in fungi

scientific article published on January 2009

Genome sequence of Aedes aegypti, a major arbovirus vector

scientific article

Genome sequencing and analysis of Aspergillus oryzae

scientific article

Genome variation in Cryptococcus gattii, an emerging pathogen of immunocompetent hosts.

scientific article

Genome-wide characterization of light-regulated genes in Neurospora crassa.

scientific article

GenomeView: a next-generation genome browser

scientific article

Genomic analysis of globally diverse Mycobacterium tuberculosis strains provides insights into the emergence and spread of multidrug resistance

scientific article

Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication

scientific article

Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus

scientific article

Genomics of the fungal kingdom: insights into eukaryotic biology

scientific article

How accurate can genetic predictions be?

scientific article

Human T cell epitopes of Mycobacterium tuberculosis are evolutionarily hyperconserved

scientific article

Improving genome annotations using phylogenetic profile anomaly detection

scientific article

Independent large scale duplications in multiple M. tuberculosis lineages overlapping the same genomic region

scientific article

Inferring carbon sources from gene expression profiles using metabolic flux models

scientific article

Initial sequencing and analysis of the human genome

scientific article published on 15 February 2001

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

scientific article

Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production

scientific article

Large-scale identification of genetic design strategies using local search

scientific article published on 18 August 2009

Lessons from the genome sequence of Neurospora crassa: tracing the path from genomic blueprint to multicellular organism

scientific article published on March 2004

Mechanisms of intron gain and loss in Cryptococcus

scientific article

Modulation and vectorial summation of the spinalized frog's hindlimb end-point force produced by intraspinal electrical stimulation of the cord

scientific article published on 01 March 2001

Mycobacterium tuberculosis Whole Genome Sequences From Southern India Suggest Novel Resistance Mechanisms and the Need for Region-Specific Diagnostics

scientific article

Naturally occurring dominant resistance mutations to hepatitis C virus protease and polymerase inhibitors in treatment-naïve patients

scientific article (publication date: December 2008)

Patterns of intron gain and loss in fungi

scientific article

Pneumococcal capsular polysaccharide structure predicts serotype prevalence

scientific article

Positive selection for unpreferred codon usage in eukaryotic genomes

scientific article

Psychoeducational testing: turn out the lights, the party's over

scientific article published in November 1985

RIP: the evolutionary cost of genome defense

scientific article published in September 2004

Reconstruction and validation of a genome-scale metabolic model for the filamentous fungus Neurospora crassa using FARM

scientific article (publication date: 2013)

Redefining fundamental concepts of transcription initiation in bacteria

scientific article published on 14 July 2020

Resource competition may lead to effective treatment of antibiotic resistant infections

scientific article (publication date: 2013)

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

scientific article

Short-term genome evolution of Listeria monocytogenes in a non-controlled environment

scientific article

Simulating Serial-Target Antibacterial Drug Synergies Using Flux Balance Analysis

scientific article

Surface Immobilized Nucleic Acid-Transcription Factor Quantum Dots for Biosensing

scientific article published on 21 July 2020

TB database 2010: overview and update

scientific article

TB database: an integrated platform for tuberculosis research

scientific article published on 03 October 2008

The DNA-binding network of Mycobacterium tuberculosis

scientific article

The Mycobacterium tuberculosis regulatory network and hypoxia

scientific article

The Neurospora Transcription Factor ADV-1 Transduces Light Signals and Temporal Information to Control Rhythmic Expression of Genes Involved in Cell Fusion

scientific article

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

scientific article

The genome sequence of the rice blast fungus Magnaporthe grisea

scientific article

The quantum dot <i>vs.</i> organic dye conundrum for ratiometric FRET-based biosensors: which one would you chose?

scientific article published in 2022

The role of selection in shaping diversity of natural M. tuberculosis populations

scientific article (publication date: August 2013)

Transcription Factor Based Small-Molecule Sensing with a Rapid Cell Phone Enabled Fluorescent Bead Assay

scientific article published on 18 September 2020

Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection

scientific article

Whole-genome sequencing of rifampicin-resistant Mycobacterium tuberculosis strains identifies compensatory mutations in RNA polymerase genes.

scientific article published on 18 December 2011

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