Publications by authors named "Stephen J Bush"

36Publications

Analysis of homozygous and heterozygous Csf1r knockout in the rat as a model for understanding microglial function in brain development and the impacts of human CSF1R mutations.

Authors:
Omkar L Patkar Melanie Caruso Ngari Teakle Sahar Keshvari Stephen J Bush Clare Pridans Arnauld Belmer Kim M Summers Katharine M Irvine David A Hume

Neurobiol Dis 2021 Jan 12;151:105268. Epub 2021 Jan 12.

Mater Research Institute-University of Queensland, Translational Research Institute, Brisbane, Queensland, Australia. Electronic address:

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January 2021

Quantitative trait loci and transcriptome signatures associated with avian heritable resistance to Campylobacter.

Authors:
Androniki Psifidi Andreas Kranis Lisa M Rothwell Abi Bremner Kay Russell Diego Robledo Stephen J Bush Mark Fife Paul M Hocking Georgios Banos David A Hume Jim Kaufman Richard A Bailey Santiago Avendano Kellie A Watson Pete Kaiser Mark P Stevens

Sci Rep 2021 Jan 12;11(1):1623. Epub 2021 Jan 12.

The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK.

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January 2021

Read trimming has minimal effect on bacterial SNP-calling accuracy.

Authors:
Stephen J Bush

Microb Genom 2020 Dec 11;6(12). Epub 2020 Dec 11.

Nuffield Department of Medicine, University of Oxford, Oxford, UK.

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December 2020

Expression of Calcification and Extracellular Matrix Genes in the Cardiovascular System of the Healthy Domestic Sheep ().

Authors:
Hiu-Gwen Tsang Emily L Clark Greg R Markby Stephen J Bush David A Hume Brendan M Corcoran Vicky E MacRae Kim M Summers

Front Genet 2020 8;11:919. Epub 2020 Sep 8.

The Roslin Institute and R(D)SVS, The University of Edinburgh, Edinburgh, United Kingdom.

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September 2020

MeDAS: a Metazoan Developmental Alternative Splicing database.

Authors:
Zhidan Li Yiming Zhang Stephen J Bush Chao Tang Li Chen Dan Zhang Araxi O Urrutia Jing-Wen Lin Lu Chen

Nucleic Acids Res 2021 01;49(D1):D144-D150

Key Laboratory of Birth Defects and Related Diseases of Women and Children of MOE, Department of Laboratory Medicine, State Key Laboratory of Biotherapy, West China Second Hospital, Sichuan University, Chengdu 610041, China.

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January 2021

Network analysis of transcriptomic diversity amongst resident tissue macrophages and dendritic cells in the mouse mononuclear phagocyte system.

Authors:
Kim M Summers Stephen J Bush David A Hume

PLoS Biol 2020 10 8;18(10):e3000859. Epub 2020 Oct 8.

Mater Research Institute-University of Queensland, Translational Research Institute, Brisbane, Queensland, Australia.

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October 2020

Species-Specificity of Transcriptional Regulation and the Response to Lipopolysaccharide in Mammalian Macrophages.

Authors:
Stephen J Bush Mary E B McCulloch Zofia M Lisowski Charity Muriuki Emily L Clark Rachel Young Clare Pridans James G D Prendergast Kim M Summers David A Hume

Front Cell Dev Biol 2020 21;8:661. Epub 2020 Jul 21.

Mater Research Institute-University of Queensland, Translational Research Institute, Woolloongabba, QLD, Australia.

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July 2020

The Transcriptional Network That Controls Growth Arrest and Macrophage Differentiation in the Human Myeloid Leukemia Cell Line THP-1.

Authors:
Iveta Gažová Lucas Lefevre Stephen J Bush Sara Clohisey Erik Arner Michiel de Hoon Jessica Severin Lucas van Duin Robin Andersson Andreas Lengeling David A Hume Kim M Summers

Front Cell Dev Biol 2020 3;8:498. Epub 2020 Jul 3.

The Roslin Institute, The University of Edinburgh, Edinburgh, United Kingdom.

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July 2020

Evaluation of methods for detecting human reads in microbial sequencing datasets.

Authors:
Stephen J Bush Thomas R Connor Tim E A Peto Derrick W Crook A Sarah Walker

Microb Genom 2020 07;6(7)

National Institute for Health Research Oxford Biomedical Research Centre, Oxford, UK.

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July 2020

Functional Annotation of the Transcriptome of the Pig, , Based Upon Network Analysis of an RNAseq Transcriptional Atlas.

Authors:
Kim M Summers Stephen J Bush Chunlei Wu Andrew I Su Charity Muriuki Emily L Clark Heather A Finlayson Lel Eory Lindsey A Waddell Richard Talbot Alan L Archibald David A Hume

Front Genet 2019 14;10:1355. Epub 2020 Feb 14.

Mater Research Institute-University of Queensland, Translational Research Institute, Woolloongabba, QLD, Australia.

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February 2020

Genomic diversity affects the accuracy of bacterial single-nucleotide polymorphism-calling pipelines.

Authors:
Stephen J Bush Dona Foster David W Eyre Emily L Clark Nicola De Maio Liam P Shaw Nicole Stoesser Tim E A Peto Derrick W Crook A Sarah Walker

Gigascience 2020 02;9(2)

Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Headington, Oxford, OX3 9DU, UK.

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February 2020

Analysis of the Progeny of Sibling Matings Reveals Regulatory Variation Impacting the Transcriptome of Immune Cells in Commercial Chickens.

Authors:
Lucy Freem Kim M Summers Almas A Gheyas Androniki Psifidi Kay Boulton Amanda MacCallum Rakhi Harne Jenny O'Dell Stephen J Bush David A Hume

Front Genet 2019 14;10:1032. Epub 2019 Nov 14.

Mater Research Institute-University of Queensland, Translational Research Institute, Woolloongabba, QLD, Australia.

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November 2019

Genetic and genomic analyses underpin the feasibility of concomitant genetic improvement of milk yield and mastitis resistance in dairy sheep.

Authors:
Georgios Banos Emily L Clark Stephen J Bush Prasun Dutta Georgios Bramis Georgios Arsenos David A Hume Androniki Psifidi

PLoS One 2019 25;14(11):e0214346. Epub 2019 Nov 25.

The Roslin Institute, University of Edinburgh, Easter Bush, Midlothian, Scotland, United Kingdom.

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March 2020

A Mini-Atlas of Gene Expression for the Domestic Goat ().

Authors:
Charity Muriuki Stephen J Bush Mazdak Salavati Mary E B McCulloch Zofia M Lisowski Morris Agaba Appolinaire Djikeng David A Hume Emily L Clark

Front Genet 2019 4;10:1080. Epub 2019 Nov 4.

The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Edinburgh, United Kingdom.

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November 2019

Elimination of Reference Mapping Bias Reveals Robust Immune Related Allele-Specific Expression in Crossbred Sheep.

Authors:
Mazdak Salavati Stephen J Bush Sergio Palma-Vera Mary E B McCulloch David A Hume Emily L Clark

Front Genet 2019 19;10:863. Epub 2019 Sep 19.

The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Easter Bush, Edinburgh, United Kingdom.

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September 2019

A Gene Expression Atlas of the Domestic Water Buffalo ().

Authors:
Rachel Young Lucas Lefevre Stephen J Bush Akshay Joshi Salam Herojeet Singh Santosh Kumar Jadhav Velu Dhanikachalam Zofia M Lisowski Daniela Iamartino Kim M Summers John L Williams Alan L Archibald Suresh Gokhale Satish Kumar David A Hume

Front Genet 2019 24;10:668. Epub 2019 Jul 24.

Mater Research Institute-University of Queensland, Translational Research Institute, Brisbane, QLD, Australia.

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July 2019

Correction: Pleiotropic Impacts of Macrophage and Microglial Deficiency on Development in Rats with Targeted Mutation of the Locus.

Authors:
Clare Pridans Anna Raper Gemma M Davis Joana Alves Kristin A Sauter Lucas Lefevre Tim Regan Stephen Meek Linda Sutherland Alison J Thomson Sara Clohisey Stephen J Bush Rocío Rojo Zofia M Lisowski Robert Wallace Kathleen Grabert Kyle R Upton Yi Ting Tsai Deborah Brown Lee B Smith Kim M Summers Neil A Mabbott Pedro Piccardo Michael T Cheeseman Tom Burdon David A Hume

J Immunol 2019 Jun 26;202(11):3334-3335. Epub 2019 Apr 26.

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June 2019

Arginine to Glutamine Variant in Olfactomedin Like 3 () Is a Candidate for Severe Goniodysgenesis and Glaucoma in the Border Collie Dog Breed.

Authors:
Carys A Pugh Lindsay L Farrell Ailsa J Carlisle Stephen J Bush Adam Ewing Violeta Trejo-Reveles Oswald Matika Arne de Kloet Caitlin Walsh Stephen C Bishop James G D Prendergast Joe Rainger Jeffrey J Schoenebeck Kim M Summers

G3 (Bethesda) 2019 03 7;9(3):943-954. Epub 2019 Mar 7.

The Roslin Institute and Royal (Dick) School of Veterinary Studies, Easter Bush, EH25 9RG, United Kingdom

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March 2019

Spatial Network Mapping of Pulmonary Multidrug-Resistant Tuberculosis Cavities Using RNA Sequencing.

Authors:
Keertan Dheda Laura Lenders Shashikant Srivastava Gesham Magombedze Helen Wainwright Prithvi Raj Stephen J Bush Gabriele Pollara Rachelle Steyn Malika Davids Anil Pooran Timothy Pennel Anthony Linegar Ruth McNerney Loven Moodley Jotam G Pasipanodya Carolin T Turner Mahdad Noursadeghi Robin M Warren Edward Wakeland Tawanda Gumbo

Am J Respir Crit Care Med 2019 08;200(3):370-380

1Centre for Lung Infection and Immunity, Division of Pulmonology, Department of Medicine and UCT Lung Institute and South African MRC/UCT Centre for the Study of Antimicrobial Resistance, University of Cape Town, Cape Town, South Africa.

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August 2019

Characterization of Subpopulations of Chicken Mononuclear Phagocytes That Express TIM4 and CSF1R.

Authors:
Tuanjun Hu Zhiguang Wu Stephen J Bush Lucy Freem Lonneke Vervelde Kim M Summers David A Hume Adam Balic Pete Kaiser

J Immunol 2019 02 9;202(4):1186-1199. Epub 2019 Jan 9.

The Roslin Institute, University of Edinburgh, Easter Bush, Midlothian EH25 9RG, United Kingdom.

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February 2019