Baillie lab, Roslin Institute, University of Edinburgh


Russell CD , Parajuli A, Gale HJ, Bulteel NS, Schuetz P, de Jager CPC, Loonen AJM, Merekoulias GI, Baillie JK. The utility of peripheral blood leucocyte ratios as biomarkers in infectious diseases: A systematic review and meta-analysis. The Journal of Infection: 2019; doi:10.1016/j.jinf.2019.02.006

Scicluna BP , Baillie JK. The Search for Efficacious New Therapies in Sepsis Needs to Embrace Heterogeneity. American Journal of Respiratory and Critical Care Medicine: 2018; doi:10.1164/rccm.201811-2148ED

Rocke AS , Paterson GG, Barber MT, Jackson AIR, Main S, Stannett C, Schnopp MF, Baillie JK, Horne EH, Moores C, Harrison P, Nimmo AF, Thompson AAR. Thromboelastometry and Platelet Function during Acclimatization to High Altitude. Thrombosis and Haemostasis: 2018; 118: 63-71. doi:10.1160/TH17-02-0138

Roach RC , Hackett PH, Oelz O, Bärtsch P, Luks AM, MacInnis MJ, Baillie JK. The 2018 Lake Louise Acute Mountain Sickness Score. High Altitude Medicine and Biology: 2018; 19: 4-6. PMC6191821

Baillie JK , ..., Hume DA. Shared activity patterns arising at genetic susceptibility loci reveal underlying genomic and cellular architecture of human disease. PLoS Computational Biology: 2018; 14: e1005934. PMC5849332

Noguchi S , Arakawa T, Fukuda S, Furuno M, Hasegawa A, Hori F, Ishikawa-Kato S, Kaida K, Kaiho A, Kanamori-Katayama M, Kawashima T, Kojima M, Kubosaki A, Manabe R, Murata M, Nagao-Sato S, Nakazato K, Ninomiya N, Nishiyori-Sueki H, Noma S, Saijyo E, Saka A, Sakai M, Simon C, Suzuki N, Tagami M, Watanabe S, Yoshida S, Arner P, Axton RA, Babina M, Baillie JK, ..., Hayashizaki Y. FANTOM5 CAGE profiles of human and mouse samples. Scientific Data: 2017; 4: 170112. PMC5574368

Baillie JK , ..., Hume DA. Analysis of the human monocyte-derived macrophage transcriptome and response to lipopolysaccharide provides new insights into genetic aetiology of inflammatory bowel disease. PLoS Genetics: 2017; 13: e1006641. PMC5358891

Arabi YM , Balkhy HH, Hayden FG, Bouchama A, Luke T, Baillie JK, ..., Fowler RA. Middle East Respiratory Syndrome. The New England Journal of Medicine: 2017; 376: 584-594. PMC5362064

Grabert K , Michoel T, Karavolos MH, Clohisey S, Baillie JK, ..., McColl BW. Microglial brain region-dependent diversity and selective regional sensitivities to aging. Nature Neuroscience: 2016; 19: 504-16. PMC4768346

Patarčić I , Gelemanović A, Kirin M, Kolčić I, Theodoratou E, Baillie JK, de Jong MD, Rudan I, Campbell H, Polašek O. The role of host genetic factors in respiratory tract infectious diseases: systematic review, meta-analyses and field synopsis. Scientific Reports: 2015; 5: 16119. PMC4630784

Mair-Jenkins J , Saavedra-Campos M, Baillie JK, ..., Beck CR. 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: 2015; 211: 80-90. PMC4264590

Lizio M , Harshbarger J, Shimoji H, Severin J, Kasukawa T, Sahin S, Abugessaisa I, Fukuda S, Hori F, Ishikawa-Kato S, Mungall CJ, Arner E, Baillie JK, ..., Kawaji H. Gateways to the FANTOM5 promoter level mammalian expression atlas. Genome Biology: 2015; 16: 22. PMC4310165

Arner E , Daub CO, Vitting-Seerup K, Andersson R, Lilje B, Drabløs F, Lennartsson A, Rönnerblad M, Hrydziuszko O, Vitezic M, Freeman TC, Alhendi AMN, Arner P, Axton R, Baillie JK, ..., Hayashizaki Y. Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells. Science (New York, N.Y.): 2015; 347: 1010-4. PMC4681433

Wang X , Kang Y, Luo C, Zhao T, Liu L, Jiang X, Fu R, An S, ..., Baillie JK, Gao Z, Yu J. Heteroresistance at the single-cell level: adapting to antibiotic stress through a population-based strategy and growth-controlled interphenotypic coordination. mBio: 2014; 5: e00942-13. PMC3950525

Russell CD , Griffiths SJ, Baillie JK, Haas J. Stratified infection medicine: a call to arms. The Lancet. Infectious Diseases: 2014; 14: 451. doi:10.1016/S1473-3099(14)70774-1

Hall DP , MacCormick IJC, Phythian-Adams AT, Rzechorzek NM, Hope-Jones D, Cosens S, Jackson S, Bates MGD, ..., Baillie JK. Network analysis reveals distinct clinical syndromes underlying acute mountain sickness. PloS One: 2014; 9: e81229. PMC3898916

Forrest ARR*, Kawaji H*, Rehli M*, Baillie JK* , ..., Hayashizaki Y. A promoter-level mammalian expression atlas. Nature: 2014; 507: 462-70. PMC4529748

Dunning JW , Merson L, Rohde GGU, Gao Z, Semple MG, Tran D, Gordon A, Olliaro PL, ..., Baillie JK. Open source clinical science for emerging infections. The Lancet. Infectious Diseases: 2014; 14: 8-9. doi:10.1016/S1473-3099(13)70327-X

Dunning J , Baillie JK, Cao B, Hayden FG. Antiviral combinations for severe influenza. The Lancet. Infectious Diseases: 2014; 14: 1259-70. doi:10.1016/S1473-3099(14)70821-7

Davis MR , Andersson R, Severin J, de Hoon M, Bertin N, Baillie JK, Kawaji H, Sandelin A, Forrest ARR, Summers KM. Transcriptional profiling of the human fibrillin/LTBP gene family, key regulators of mesenchymal cell functions. Molecular Genetics and Metabolism: 2014; 112: 73-83. PMC4019825

Baillie JK . Translational genomics. Targeting the host immune response to fight infection. Science (New York, N.Y.): 2014; 344: 807-8. doi:10.1126/science.1255074

Andersson R , Gebhard C, Miguel-Escalada I, Hoof I, Bornholdt J, Boyd M, Chen Y, Zhao X, ..., Baillie JK, Ishizu Y, Shimizu Y, Furuhata E, Maeda S, Negishi Y, Mungall CJ, Meehan TF, Lassmann T, Itoh M, Kawaji H, Kondo N, Kawai J, Lennartsson A, Daub CO, Heutink P, Hume DA, Jensen TH, Suzuki H, Hayashizaki Y, Müller F, Forrest ARR, Carninci P, Rehli M, Sandelin A. An atlas of active enhancers across human cell types and tissues. Nature: 2014; 507: 455-461. PMC5215096

WHO consensus review committee . State of Knowledge and Data Gaps of Middle East Respiratory Syndrome Coronavirus (MERS-CoV) in Humans. PLoS Currents: 2013; 5: PMC3828229

Simmonds P , Xia W, Baillie JK, McKinnon K. 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: 2013; 14: 610. PMC3829696

Shukla R , Upton KR, Muñoz-Lopez M, Gerhardt DJ, Fisher ME, Nguyen T, Brennan PM, Baillie JK, ..., Faulkner GJ. Endogenous retrotransposition activates oncogenic pathways in hepatocellular carcinoma. Cell: 2013; 153: 101-11. PMC3898742

Moore NA , Brennan PM, Baillie JK. Wide variation and systematic bias in expert clinicians’ perceptions of prognosis following brain injury. British Journal of Neurosurgery: 2013; 27: 340-3. doi:10.3109/02688697.2012.754402

Mabbott NA , Baillie JK, Brown H, Freeman TC, Hume DA. An expression atlas of human primary cells: inference of gene function from coexpression networks. BMC Genomics: 2013; 14: 632. PMC3849585

Li D , Chu Y, Ren L, Li X, Yuan L, Kang Y, Zhang W, Yang Y, ..., Baillie JK, Yu J, Gao Z. Complete genome sequence of methicillin-sensitive Staphylococcus aureus containing a heterogeneic staphylococcal cassette chromosome element. Science China. Life Sciences: 2013; 56: 268-74. doi:10.1007/s11427-013-4453-9

Horby P , Nguyen NY, Dunstan SJ, Baillie JK. An updated systematic review of the role of host genetics in susceptibility to influenza. Influenza and Other Respiratory Viruses: 2013; 7 Suppl 2: 37-41. PMC5909389

Brennan PM , Jubb A, Baillie JK, Partridge RW. Deciding authorship order. BMJ (Clinical Research Ed.): 2013; 347: f7182. PMID:24342630

Baillie JK , Digard P. Influenza–time to target the host? The New England Journal of Medicine: 2013; 369: 191-3. doi:10.1056/NEJMcibr1304414

Schroder K , Irvine KM, Taylor MS, Bokil NJ, Le Cao K, Masterman K, Labzin LI, Semple CA, Kapetanovic R, Fairbairn L, Akalin A, Faulkner GJ, Baillie JK, ..., Sweet MJ. 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: 2012; 109: E944-53. PMC3341041

Pagani L , Ayub Q, MacArthur DG, Xue Y, Baillie JK, ..., Tyler-Smith C. High altitude adaptation in Daghestani populations from the Caucasus. Human Genetics: 2012; 131: 423-33. PMC3312735

MacCormick IJC , Somner J, Morris DS, MacGillivray TJ, Bourne RRA, Huang SS, MacCormick A, Aspinall PA, Baillie JK, Thompson AAR, Dhillon B. Retinal vessel tortuosity in response to hypobaric hypoxia. High Altitude Medicine and Biology: 2012; 13: 263-8. doi:10.1089/ham.2011.1097

Kobayashi A , Donaldson DS, Kanaya T, Fukuda S, Baillie JK, ..., Mabbott NA. 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: 2012; 19: 407-22. PMC3473373

Horby P , Nguyen NY, Dunstan SJ, Baillie JK. The role of host genetics in susceptibility to influenza: a systematic review. PloS One: 2012; 7: e33180. PMC3305291

Freeman TC , Ivens A, Baillie JK, ..., Hume DA. A gene expression atlas of the domestic pig. BMC Biology: 2012; 10: 90. PMC3814290

Everitt AR , Clare S, Pertel T, John SP, Wash RS, Smith SE, Chin CR, Feeley EM, ..., Baillie JK, Walsh TS, Hume DA, Palotie A, Xue Y, Colonna V, Tyler-Smith C, Dunning J, Gordon SB, Smyth RL, Openshaw PJ, Dougan G, Brass AL, Kellam P. IFITM3 restricts the morbidity and mortality associated with influenza. Nature: 2012; 484: 519-23. PMC3648786

Upton KR , Baillie JK, Faulkner GJ. Is somatic retrotransposition a parasitic or symbiotic phenomenon? Mobile Genetic Elements: 2011; 1: 279-282. PMC3337137

Mabbott NA , Baillie JK, ..., Summers KM. Expression of mesenchyme-specific gene signatures by follicular dendritic cells: insights from the meta-analysis of microarray data from multiple mouse cell populations. Immunology: 2011; 133: 482-98. PMC3143359

Hall DP , Duncan K, Baillie JK. High altitude pulmonary oedema. Journal of the Royal Army Medical Corps: 2011; 157: 68-72. PMID:21465914

Bates MGD , Thompson AAR, Baillie JK, Sutherland AI, Irving JB, Hirani N, Webb DJ. Sildenafil citrate for the prevention of high altitude hypoxic pulmonary hypertension: double blind, randomized, placebo-controlled trial. High Altitude Medicine and Biology: 2011; 12: 207-14. doi:10.1089/ham.2011.0007

Baillie JK , ..., Faulkner GJ. Somatic retrotransposition alters the genetic landscape of the human brain. Nature: 2011; 479: 534-7. PMC3224101

Scott DHT , Fraser S, Willson P, Drummond GB, Baillie JK. Passage of pathogenic microorganisms through breathing system filters used in anaesthesia and intensive care. Anaesthesia: 2010; 65: 670-3. doi:10.1111/j.1365-2044.2010.06327.x

Mabbott NA , Baillie JK, Hume DA, Freeman TC. Meta-analysis of lineage-specific gene expression signatures in mouse leukocyte populations. Immunobiology: 2010; 215: 724-36. doi:10.1016/j.imbio.2010.05.012

Jackson SJ , Varley J, Sellers C, Josephs K, Codrington L, Duke G, Njelekela MA, Drummond G, ..., Baillie JK. Incidence and predictors of acute mountain sickness among trekkers on Mount Kilimanjaro. High Altitude Medicine and Biology: 2010; 11: 217-22. doi:10.1089/ham.2010.1003

Hume DA , Summers KM, Raza S, Baillie JK, Freeman TC. Functional clustering and lineage markers: insights into cellular differentiation and gene function from large-scale microarray studies of purified primary cell populations. Genomics: 2010; 95: 328-38. doi:10.1016/j.ygeno.2010.03.002

Thompson AAR , Baillie JK, Bates MGD, Schnopp MF, Simpson A, Partridge RW, Drummond GB, Mason NP. The citric acid cough threshold and the ventilatory response to carbon dioxide on ascent to high altitude. Respiratory Medicine: 2009; 103: 1182-8. doi:10.1016/j.rmed.2009.02.007

Paul A , Baillie JK, Drummond GB. Measurement errors caused by incompatibility of apparatus. European Journal of Anaesthesiology: 2009; 26: 977-80. doi:10.1097/EJA.0b013e3283313ff3

Baillie JK , Thompson AAR, Irving JB, Bates MGD, Sutherland AI, Macnee W, Maxwell SRJ, Webb DJ. Oral antioxidant supplementation does not prevent acute mountain sickness: double blind, randomized placebo-controlled trial. QJM : Monthly Journal of the Association of Physicians: 2009; 102: 341-8. doi:10.1093/qjmed/hcp026

Toshner MR , Thompson AAR, Irving JB, Baillie JK, Morton JJ, Peacock AJ. NT-proBNP does not rise on acute ascent to high altitude. High Altitude Medicine and Biology: 2008; 9: 307-10. doi:10.1089/ham.2008.1054

Baillie JK . Simple, easily memorised "rules of thumb" for the rapid assessment of physiological compensation for respiratory acid-base disorders. Thorax: 2008; 63: 289-90. doi:10.1136/thx.2007.091223

Dorward DA , Thompson AAR, Baillie JK, MacDougall M, Hirani N. Change in plasma vascular endothelial growth factor during onset and recovery from acute mountain sickness. Respiratory Medicine: 2007; 101: 587-94. doi:10.1016/j.rmed.2006.06.014

Bates MGD , Thompson AAR, Baillie JK. Phosphodiesterase type 5 inhibitors in the treatment and prevention of high altitude pulmonary edema. Current Opinion in Investigational Drugs (London, England : 2000): 2007; 8: 226-31. PMID:17408118

Baillie JK , ..., Webb DJ. Endogenous urate production augments plasma antioxidant capacity in healthy lowland subjects exposed to high altitude. Chest: 2007; 131: 1473-8. doi:10.1378/chest.06-2235

Baillie JK , Sultan P, Graveling E, Forrest C, Lafong C. Contamination of anaesthetic machines with pathogenic organisms. Anaesthesia: 2007; 62: 1257-61. doi:10.1111/j.1365-2044.2007.05261.x

Baillie JK . Activated protein C: controversy and hope in the treatment of sepsis. Current Opinion in Investigational Drugs (London, England : 2000): 2007; 8: 933-8. PMID:17979027

Thompson AAR , Baillie JK, Toshner M, Maxwell SRJ, Webb DJ, Irving JB. Pericardial effusions in healthy lowlanders after acute ascent to high altitude. Heart (British Cardiac Society): 2006; 92: 539-40. PMC1860857

Smith EMD , Baillie JK, Thompson AAR, Irving JB, Porteous D, Webb DJ. Endothelial nitric oxide synthase polymorphisms do not influence pulmonary artery systolic pressure at altitude. High Altitude Medicine and Biology: 2006; 7: 221-7. doi:10.1089/ham.2006.7.221

Baillie JK , Power I. The mechanism of action of gabapentin in neuropathic pain. Current Opinion in Investigational Drugs (London, England : 2000): 2006; 7: 33-9. PMID:16425669

Baillie JK , Murray G. Drotrecogin alfa (activated) in severe sepsis. The New England Journal of Medicine: 2006; 354: 94-6; author reply 94-6. PMID:16395834

Baillie JK , Power I. Morphine, gabapentin, or their combination for neuropathic pain. The New England Journal of Medicine: 2005; 352: 2650-1; author reply 2650-1. doi:10.1056/NEJM200506233522520

Funding

We are very grateful to recieve funding from the following sources: Wellcome Trust, BBSRC, Sepsis Research (FEAT), Intensive Care Society, MRC.


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