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List of works by Lachlan Coin

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Inference of haplotypic phase and missing genotypes in polyploid organisms and variable copy number genomic regions

scientific article
Enhanced protein domain discovery using taxonomy

scientific article
Demographic and motor features associated with the occurrence of neuropsychiatric and sleep complications of Parkinson's disease

scientific article
invertFREGENE: software for simulating inversions in population genetic data.

scientific article
Erratum: New genetic loci implicated in fasting glucose homeostasis and their impact on type 2 diabetes risk

scientific article published in May 2010
Multi-clonal evolution of multi-drug-resistant/extensively drug-resistant Mycobacterium tuberculosis in a high-prevalence setting of Papua New Guinea for over three decades

scientific article published on 4 January 2018
The effect of genomic inversions on estimation of population genetic parameters from SNP data

scientific article
Realtime analysis and visualization of MinION sequencing data with npReader.

scientific article
A complete high-quality MinION nanopore assembly of an extensively drug-resistant Mycobacterium tuberculosis Beijing lineage strain identifies novel variation in repetitive PE/PPE gene regions.

scientific article
npInv: accurate detection and genotyping of inversions using long read sub-alignment

scientific article published on 13 July 2018
Diagnosis of Bacterial Infection Using a 2-Transcript Host RNA Signature in Febrile Infants 60 Days or Younger

scientific article published on April 2017
A population model for genotyping indels from next-generation sequence data.

scientific article
famCNV: copy number variant association for quantitative traits in families.

scientific article
Metabolic profiling of polycystic ovary syndrome reveals interactions with abdominal obesity

scientific article published on 26 May 2017
Complete Genome Sequence of Klebsiella quasipneumoniae subsp. similipneumoniae Strain ATCC 700603

scientific article (publication date: 26 May 2016)
Multifactorial chromosomal variants regulate polymyxin resistance in extensively drug-resistant Klebsiella pneumoniae

scientific article published on 12 February 2018
cnvOffSeq: detecting intergenic copy number variation using off-target exome sequencing data

scientific article published on September 1, 2014
cnvCapSeq: detecting copy number variation in long-range targeted resequencing data.

scientific article
Triclosan at environmentally relevant concentrations promotes horizontal transfer of multidrug resistance genes within and across bacterial genera

article
Gene-targeted analysis of copy number variants identifies 3 novel associations with coronary heart disease traits.

scientific article
Investigation of the HIN200 locus in UK SLE families identifies novel copy number variants

scientific article published on 14 March 2011
YHap: a population model for probabilistic assignment of Y haplogroups from re-sequencing data.

scientific article
Genotype-free demultiplexing of pooled single-cell RNA-seq

scientific article published on 19 December 2019
Transcriptomic Studies of Malaria: a Paradigm for Investigation of Systemic Host-Pathogen Interactions

scholarly article by Hyun Jae Lee et al published 1 June 2018 in Microbiology and Molecular Biology Reviews
Streaming algorithms for identification of pathogens and antibiotic resistance potential from real-time MinION sequencing

scholarly article published 15 May 2015
GWAS on longitudinal growth traits reveals different genetic factors influencing infant, child, and adult BMI

scientific article published on 04 September 2019
Childhood tuberculosis is associated with decreased abundance of T cell gene transcripts and impaired T cell function.

scientific article
Erratum: Meta-analysis identifies 13 new loci associated with waist-hip ratio and reveals sexual dimorphism in the genetic basis of fat distribution

scientific article published in November 2011
Cross-Border Movement of Highly Drug-Resistant Mycobacterium tuberculosis from Papua New Guinea to Australia through Torres Strait Protected Zone, 2010-2015

article
Phase I Trial of Inducible Caspase 9 T Cells in Adult Stem Cell Transplant Demonstrates Massive Clonotypic Proliferative Potential and Long-term Persistence of Transgenic T Cells

scientific article published on 14 February 2019
Real-time demultiplexing Nanopore barcoded sequencing data with npBarcode

scientific article published on 24 August 2017
Modelling pathogen load dynamics to elucidate mechanistic determinants of host-Plasmodium falciparum interactions

scientific article published on 17 June 2019
Simulating the Dynamics of Targeted Capture Sequencing with CapSim

scientific article published on 28 October 2017
Correction: Genome-Wide Association Scan Meta-Analysis Identifies Three Loci Influencing Adiposity and Fat Distribution.

scientific article published on 27 July 2009
sCNAphase: using haplotype resolved read depth to genotype somatic copy number alterations from low cellularity aneuploid tumors

scientific article
Identification of regulatory variants associated with genetic susceptibility to meningococcal disease

scientific article published on 06 May 2019
Octapeptin C4 and polymyxin resistance occur via distinct pathways in an epidemic XDR Klebsiella pneumoniae ST258 isolate

scientific article published on 01 March 2019
Correction: Genome-Wide Association Studies of Asthma in Population-Based Cohorts Confirm Known and Suggested Loci and Identify an Additional Association near HLA

scientific article published in PLoS ONE
Transcriptional and epi-transcriptional dynamics of SARS-CoV-2 during cellular infection

scientific article published on 23 April 2021
Retooling phage display with electrohydrodynamic nanomixing and nanopore sequencing

scientific article published on 12 November 2019
Characterisation ofin vitroresistance selection against second-/last-line antibiotics in methicillin-resistantStaphylococcus aureus

Estimating parasite load dynamics to reveal novel resistance mechanisms to human malaria

article
Nanoq: ultra-fast quality control for nanopore reads

scientific article published on 08 January 2022
Octapeptin C4 Induces Less Resistance and Novel Mutations in an Epidemic Carbapenemase-producing Klebsiella pneumoniae ST258 Clinical Isolate Compared to Polymyxins

article by Miranda Pitt et al published 28 April 2018 in bioRxiv
Assembly of whole-chromosome pseudomolecules for polyploid plant genomes using outbred mapping populations

scientific article published on 30 October 2020
npInv: accurate detection and genotyping of inversions mediated by non-allelic homologous recombination using long read sub-alignment

Rapid diagnosis of Capnocytophaga canimorsus septic shock in an immunocompetent individual using real-time Nanopore sequencing: a case report

scientific article published on 24 July 2019
Ongoing human chromosome end extension revealed by analysis of BioNano and nanopore data

scientific article published in Scientific Reports
A flexible framework for minimal biomarker signature discovery from clinical omics studies without library size normalisation

scientific article published on 26 March 2025
Whole genome deep sequencing analysis of cell-free DNA in samples with low tumour content

scientific article published on 20 January 2022

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