Baillie lab, Roslin Institute, University of Edinburgh

J.K. Baillie, A. Bretherick, C.S. Haley, S. Clohisey, A. Gray ... T.C. Freeman, Y. Hayashizaki, P. Carninci, A.R.R. Forrest, D.A. Hume. Shared activity patterns arising at genetic susceptibility loci reveal underlying genomic and cellular architecture of human disease. PLoS computational biology 14: e1005934: 2018

M. Shankar-Hari, C. Summers, J.K. Baillie. In Pursuit of Precision Medicine in the Critically Ill Annual Update in Intensive Careand Emergency Medicine 2018 649-658: 2018

R.C. Roach, P.H. Hackett, O. Oelz, P. Bärtsch, A.M. Luks, M.J. MacInnis, J.K. Baillie. The 2018 Lake Louise Acute Mountain Sickness Score. High altitude medicine & biology 19: 4-6: 2018

A.S. Rocke, G.G. Paterson, M.T. Barber, A.I.R. Jackson, S. Main ... E.H. Horne, C. Moores, P. Harrison, A.F. Nimmo, A.A.R. Thompson. Thromboelastometry and Platelet Function during Acclimatization to High Altitude. Thrombosis and haemostasis 118: 63-71: 2018

J.K. Baillie, E. Arner, C. Daub, M. De Hoon, M. Itoh ... C.A. Wells, M. Rehli, P. Pavli, K.M. Summers, D.A. Hume. Analysis of the human monocyte-derived macrophage transcriptome and response to lipopolysaccharide provides new insights into genetic aetiology of inflammatory bowel disease. PLoS genetics 13: e1006641: 2017

Y.M. Arabi, H.H. Balkhy, F.G. Hayden, A. Bouchama, T. Luke ... N. Shindo, A. Bermingham, J.D. Chappell, M.D. Van Kerkhove, R.A. Fowler. Middle East Respiratory Syndrome. The New England journal of medicine 376: 584-594: 2017

C.D. Russell, J.K. Baillie. Treatable Traits and Therapeutic Targets: Goals for Systems Biology in Infectious Disease Current Opinion in Systems Biology 2: 140-146: 2017

S. Noguchi, T. Arakawa, S. Fukuda, M. Furuno, A. Hasegawa ... T. Kasukawa, H. Kawaji, P. Carninci, A.R.R. Forrest, Y. Hayashizaki. FANTOM5 CAGE profiles of human and mouse samples. Scientific data 4: 170112: 2017

K. Grabert, T. Michoel, M.H. Karavolos, S. Clohisey, J.K. Baillie, M.P. Stevens, T.C. Freeman, K.M. Summers, B.W. McColl. Microglial brain region-dependent diversity and selective regional sensitivities to aging. Nature neuroscience 19: 504-16: 2016

I. Patarcic, A. Gelemanovic, M. Kirin, I. Kolcic, E. Theodoratou, J.K. Baillie, M.D. de Jong, I. Rudan, H. Campbell, O. Polašek. The role of host genetic factors in respiratory tract infectious diseases: systematic review, meta-analyses and field synopsis. Scientific reports 5: 16119: 2015

J. Mair-Jenkins, M. Saavedra-Campos, J.K. Baillie, P. Cleary, F. Khaw, W.S. Lim, S. Makki, K.D. Rooney, J.S. Nguyen-Van-Tam, C.R. Beck. The effectiveness of convalescent plasma and hyperimmune immunoglobulin for the treatment of severe acute respiratory infections of viral etiology: a systematic review and exploratory meta-analysis. The Journal of infectious diseases 211: 80-90: 2015

E. Arner, C.O. Daub, K. Vitting-Seerup, R. Andersson, B. Lilje ... D.A. Hume, A.R.R. Forrest, A. Sandelin, P. Carninci, Y. Hayashizaki. Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells. Science (New York, N.Y.) 347: 1010-4: 2015

M. Lizio, J. Harshbarger, H. Shimoji, J. Severin, T. Kasukawa ... M. Itoh, P. Carninci, Y. Hayashizaki, A.R.R. Forrest, H. Kawaji. Gateways to the FANTOM5 promoter level mammalian expression atlas. Genome biology 16: 22: 2015

C.D. Russell, S.J. Griffiths, J.K. Baillie, J. Haas. Stratified infection medicine: a call to arms. The Lancet. Infectious diseases 14: 451: 2014

A.R.R. Forrest*, H. Kawaji*, M. Rehli*, J.K. Baillie*, M.J.L. de Hoon ... V.J. Makeev, A. Sandelin, D.A. Hume, P. Carninci, Y. Hayashizaki. A promoter-level mammalian expression atlas. Nature 507: 462-70: 2014

R. Andersson, C. Gebhard, I. Miguel-Escalada, I. Hoof, J. Bornholdt ... F. Müller, A.R.R. Forrest, P. Carninci, M. Rehli, A. Sandelin. An atlas of active enhancers across human cell types and tissues. Nature 507: 455-461: 2014

J.W. Dunning, L. Merson, G.G.U. Rohde, Z. Gao, M.G. Semple ... S. van der Werf, P.J.M. Openshaw, J. Farrar, G. Carson, J.K. Baillie. Open source clinical science for emerging infections. The Lancet. Infectious diseases 14: 8-9: 2014

J. Dunning, J.K. Baillie, B. Cao, F.G. Hayden. Antiviral combinations for severe influenza. The Lancet. Infectious diseases 14: 1259-70: 2014

X. Wang, Y. Kang, C. Luo, T. Zhao, L. Liu ... L. Ren, Q. Wang, J.K. Baillie, Z. Gao, J. Yu. Heteroresistance at the single-cell level: adapting to antibiotic stress through a population-based strategy and growth-controlled interphenotypic coordination. mBio 5: e00942-13: 2014

M.R. Davis, R. Andersson, J. Severin, M. de Hoon, N. Bertin, J.K. Baillie, H. Kawaji, A. Sandelin, A.R.R. Forrest, K.M. Summers. Transcriptional profiling of the human fibrillin/LTBP gene family, key regulators of mesenchymal cell functions. Molecular genetics and metabolism 112: 73-83: 2014

J.K. Baillie. Translational genomics. Targeting the host immune response to fight infection. Science (New York, N.Y.) 344: 807-8: 2014

D.P. Hall, I.J.C. MacCormick, A.T. Phythian-Adams, N.M. Rzechorzek, D. Hope-Jones ... D.J. Collier, D.A. Hume, T. Freeman, A.A.R. Thompson, J.K. Baillie. Network analysis reveals distinct clinical syndromes underlying acute mountain sickness. PloS one 9: e81229: 2014

WHO expert panel. State of Knowledge and Data Gaps of Middle East Respiratory Syndrome Coronavirus (MERS-CoV) in Humans. PLoS currents 5: 2013

P. Simmonds, W. Xia, J.K. Baillie, K. McKinnon. Modelling mutational and selection pressures on dinucleotides in eukaryotic phyla--selection against CpG and UpA in cytoplasmically expressed RNA and in RNA viruses. BMC genomics 14: 610: 2013

R. Shukla, K.R. Upton, M. Muñoz-Lopez, D.J. Gerhardt, M.E. Fisher ... P. Carninci, F.D. Ciccarelli, J.L. Garcia-Perez, J. Faivre, G.J. Faulkner. Endogenous retrotransposition activates oncogenic pathways in hepatocellular carcinoma. Cell 153: 101-11: 2013

N.A. Moore, P.M. Brennan, J.K. Baillie. Wide variation and systematic bias in expert clinicians' perceptions of prognosis following brain injury. British journal of neurosurgery 27: 340-3: 2013

N.A. Mabbott, J.K. Baillie, H. Brown, T.C. Freeman, D.A. Hume. An expression atlas of human primary cells: inference of gene function from coexpression networks. BMC genomics 14: 632: 2013

D. Li, Y. Chu, L. Ren, X. Li, L. Yuan ... Y. Yang, X. Wang, J.K. Baillie, J. Yu, Z. Gao. Complete genome sequence of methicillin-sensitive Staphylococcus aureus containing a heterogeneic staphylococcal cassette chromosome element. Science China. Life sciences 56: 268-74: 2013

P. Horby, N.Y. Nguyen, S.J. Dunstan, J.K. Baillie. An updated systematic review of the role of host genetics in susceptibility to influenza. Influenza and other respiratory viruses 7 Suppl 2: 37-41: 2013

P.M. Brennan, A. Jubb, J.K. Baillie, R.W. Partridge. Deciding authorship order. BMJ (Clinical research ed.) 347: f7182: 2013

J.K. Baillie, P. Digard. Influenza--time to target the host? The New England journal of medicine 369: 191-3: 2013

K. Schroder, K.M. Irvine, M.S. Taylor, N.J. Bokil, K. Le Cao ... H. Suzuki, Y. Hayashizaki, B. Lenhard, D.A. Hume, M.J. Sweet. Conservation and divergence in Toll-like receptor 4-regulated gene expression in primary human versus mouse macrophages. Proceedings of the National Academy of Sciences of the United States of America 109: E944-53: 2012

L. Pagani, Q. Ayub, D.G. MacArthur, Y. Xue, J.K. Baillie ... S. Tofanelli, K. Bulayeva, K. Kidd, G. Paoli, C. Tyler-Smith. High altitude adaptation in Daghestani populations from the Caucasus. Human genetics 131: 423-33: 2012

I.J.C. MacCormick, J. Somner, D.S. Morris, T.J. MacGillivray, R.R.A. Bourne, S.S. Huang, A. MacCormick, P.A. Aspinall, J.K. Baillie, A.A.R. Thompson, B. Dhillon. Retinal vessel tortuosity in response to hypobaric hypoxia. High altitude medicine & biology 13: 263-8: 2012

A. Kobayashi, D.S. Donaldson, T. Kanaya, S. Fukuda, J.K. Baillie, T.C. Freeman, H. Ohno, I.R. Williams, N.A. Mabbott. Identification of novel genes selectively expressed in the follicle-associated epithelium from the meta-analysis of transcriptomics data from multiple mouse cell and tissue populations. DNA research : an international journal for rapid publication of reports on genes and genomes 19: 407-22: 2012

P. Horby, N.Y. Nguyen, S.J. Dunstan, J.K. Baillie. The role of host genetics in susceptibility to influenza: a systematic review. PloS one 7: e33180: 2012

T.C. Freeman, A. Ivens, J.K. Baillie, D. Beraldi, M.W. Barnett ... A.I. Su, K.M. Summers, C.K. Tuggle, A.L. Archibald, D.A. Hume. A gene expression atlas of the domestic pig. BMC biology 10: 90: 2012

A.R. Everitt, S. Clare, T. Pertel, S.P. John, R.S. Wash ... R.L. Smyth, P.J. Openshaw, G. Dougan, A.L. Brass, P. Kellam. IFITM3 restricts the morbidity and mortality associated with influenza. Nature 484: 519-23: 2012

K.R. Upton, J.K. Baillie, G.J. Faulkner. Is somatic retrotransposition a parasitic or symbiotic phenomenon? Mobile genetic elements 1: 279-282: 2011

N.A. Mabbott, J.K. Baillie, A. Kobayashi, D.S. Donaldson, H. Ohmori, S. Yoon, A.S. Freedman, T.C. Freeman, K.M. Summers. Expression of mesenchyme-specific gene signatures by follicular dendritic cells: insights from the meta-analysis of microarray data from multiple mouse cell populations. Immunology 133: 482-98: 2011

D.P. Hall, K. Duncan, J.K. Baillie. High altitude pulmonary oedema. Journal of the Royal Army Medical Corps 157: 68-72: 2011

M.G.D. Bates, A.A.R. Thompson, J.K. Baillie, A.I. Sutherland, J.B. Irving, N. Hirani, D.J. Webb. Sildenafil citrate for the prevention of high altitude hypoxic pulmonary hypertension: double blind, randomized, placebo-controlled trial. High altitude medicine & biology 12: 207-14: 2011

J.K. Baillie, M.W. Barnett, K.R. Upton, D.J. Gerhardt, T.A. Richmond ... D.A. Hume, P. Heutink, P. Carninci, J.A. Jeddeloh, G.J. Faulkner. Somatic retrotransposition alters the genetic landscape of the human brain. Nature 479: 534-7: 2011

D.H.T. Scott, S. Fraser, P. Willson, G.B. Drummond, J.K. Baillie. Passage of pathogenic microorganisms through breathing system filters used in anaesthesia and intensive care. Anaesthesia 65: 670-3: 2010

N.A. Mabbott, J.K. Baillie, D.A. Hume, T.C. Freeman. Meta-analysis of lineage-specific gene expression signatures in mouse leukocyte populations. Immunobiology 215: 724-36: 2010

S.J. Jackson, J. Varley, C. Sellers, K. Josephs, L. Codrington, G. Duke, M.A. Njelekela, G. Drummond, A.I. Sutherland, A.A.R. Thompson, J.K. Baillie. Incidence and predictors of acute mountain sickness among trekkers on Mount Kilimanjaro. High altitude medicine & biology 11: 217-22: 2010

D.A. Hume, K.M. Summers, S. Raza, J.K. Baillie, T.C. Freeman. Functional clustering and lineage markers: insights into cellular differentiation and gene function from large-scale microarray studies of purified primary cell populations. Genomics 95: 328-38: 2010

A.A.R. Thompson, J.K. Baillie, M.G.D. Bates, M.F. Schnopp, A. Simpson, R.W. Partridge, G.B. Drummond, N.P. Mason. The citric acid cough threshold and the ventilatory response to carbon dioxide on ascent to high altitude. Respiratory medicine 103: 1182-8: 2009

A. Paul, J.K. Baillie, G.B. Drummond. Measurement errors caused by incompatibility of apparatus. European journal of anaesthesiology 26: 977-80: 2009

J.K. Baillie, A.A.R. Thompson, J.B. Irving, M.G.D. Bates, A.I. Sutherland, W. Macnee, S.R.J. Maxwell, D.J. Webb. Oral antioxidant supplementation does not prevent acute mountain sickness: double blind, randomized placebo-controlled trial. QJM : monthly journal of the Association of Physicians 102: 341-8: 2009

M.R. Toshner, A.A.R. Thompson, J.B. Irving, J.K. Baillie, J.J. Morton, A.J. Peacock. NT-proBNP does not rise on acute ascent to high altitude. High altitude medicine & biology 9: 307-10: 2008

J.K. Baillie. Simple, easily memorised "rules of thumb" for the rapid assessment of physiological compensation for respiratory acid-base disorders. Thorax 63: 289-90: 2008

D.A. Dorward, A.A.R. Thompson, J.K. Baillie, M. MacDougall, N. Hirani. Change in plasma vascular endothelial growth factor during onset and recovery from acute mountain sickness. Respiratory medicine 101: 587-94: 2007

M.G.D. Bates, A.A.R. Thompson, J.K. Baillie. Phosphodiesterase type 5 inhibitors in the treatment and prevention of high altitude pulmonary edema. Current opinion in investigational drugs (London, England : 2000) 8: 226-31: 2007

J.K. Baillie, M.G.D. Bates, A.A.R. Thompson, W.S. Waring, R.W. Partridge, M.F. Schnopp, A. Simpson, F. Gulliver-Sloan, S.R.J. Maxwell, D.J. Webb. Endogenous urate production augments plasma antioxidant capacity in healthy lowland subjects exposed to high altitude. Chest 131: 1473-8: 2007

J.K. Baillie, P. Sultan, E. Graveling, C. Forrest, C. Lafong. Contamination of anaesthetic machines with pathogenic organisms. Anaesthesia 62: 1257-61: 2007

J.K. Baillie. Activated protein C: controversy and hope in the treatment of sepsis. Current opinion in investigational drugs (London, England : 2000) 8: 933-8: 2007

A.A.R. Thompson, J.K. Baillie, M. Toshner, S.R.J. Maxwell, D.J. Webb, J.B. Irving. Pericardial effusions in healthy lowlanders after acute ascent to high altitude. Heart (British Cardiac Society) 92: 539-40: 2006

E.M.D. Smith, J.K. Baillie, A.A.R. Thompson, J.B. Irving, D. Porteous, D.J. Webb. Endothelial nitric oxide synthase polymorphisms do not influence pulmonary artery systolic pressure at altitude. High altitude medicine & biology 7: 221-7: 2006

J.K. Baillie, I. Power. The mechanism of action of gabapentin in neuropathic pain. Current opinion in investigational drugs (London, England : 2000) 7: 33-9: 2006

J.K. Baillie, G. Murray. Drotrecogin alfa (activated) in severe sepsis. The New England journal of medicine 354: 94-6; author reply 94-6: 2006

J.K. Baillie, I. Power. Morphine, gabapentin, or their combination for neuropathic pain. The New England journal of medicine 352: 2650-1; author reply 2650-1: 2005


We are very grateful to recieve funding from the following sources: Wellcome Trust, BBSRC, Intensive Care Society, MRC, NIH.

Contact us