Edinburgh Research Explorer

Dr Kenneth Baillie

Snr. Clinical Research Fellow in Anaesthesia & Critical Care

  1. A gene expression atlas of the domestic pig

    Freeman, T. C., Ivens, A., Baillie, J. K., Beraldi, D., Barnett, M. W., Dorward, D., Downing, A., Fairbairn, L., Kapetanovic, R., Raza, S., Tomoiu, A., Alberio, R., Wu, C., Su, A. I., Summers, K. M., Tuggle, C. K., Archibald, A. L. & Hume, D. A., 15 Nov 2012, In : BMC Biology. 10, n/a, 21 p., 90.

    Research output: Contribution to journalArticle

  2. A promoter-level mammalian expression atlas

    Forrest, A. R. R., Kawaji, H., Rehli, M., Baillie, J. K., de Hoon, M. J. L., Haberle, V., Lassmann, T., Kulakovskiy, I. V., Lizio, M., Itoh, M., Andersson, R., Mungall, C. J., Meehan, T. F., Schmeier, S., Bertin, N., Jorgensen, M., Dimont, E., Arner, E., Schmidl, C., Schaefer, U. & 32 others, Medvedeva, Y. A., Plessy, C., Vitezic, M., Severin, J., Semple, C. A., Ishizu, Y., Young, R. S., Francescatto, M., Alam, I., Albanese, D., Altschuler, G. M., Arakawa, T., Archer, J. A. C., Arner, P., Babina, M., Rennie, S., Balwierz, P. J., Beckhouse, A. G., Pradhan-Bhatt, S., Blake, J. A., Blumenthal, A., Fisher, M. E., Ha, T. J., Joshi, A., Meynert, A., Prendergast, J. G. D., Summers, K. M., Freeman, T. C., Taylor, M. S., Hume, D. A., FANTOM Consortium & RIKEN PMI CLST DGT, 27 Mar 2014, In : Nature. 507, 7493, p. 462-+ 22 p.

    Research output: Contribution to journalArticle

  3. An atlas of active enhancers across human cell types and tissues

    Andersson, R., Gebhard, C., Miguel-Escalada, I., Hoof, I., Bornholdt, J., Boyd, M., Chen, Y., Zhao, X., Schmidl, C., Suzuki, T., Ntini, E., Arner, E., Valen, E., Li, K., Schwarzfischer, L., Glatz, D., Raithel, J., Lilje, B., Rapin, N., Bagger, F. O. & 31 others, Jørgensen, M., Andersen, P. R., Bertin, N., Rackham, O., Burroughs, A. M., Baillie, J. K., Ishizu, Y., Shimizu, Y., Furuhata, E., Maeda, S., Negishi, Y., Mungall, C. J., Meehan, T. F., Lassmann, T., Itoh, M., Kawaji, H., Kondo, N., Kawai, J., Lennartsson, A., Daub, C. O., Heutink, P., Hume, D. A., Jensen, T. H., Suzuki, H., Hayashizaki, Y., FANTOM Consortium, Young, R. S., Fisher, M. E., Meynert, A., Prendergast, J. G. D. & Taylor, M. S., 27 Mar 2014, In : Nature. 507, 7493, p. 455-61 7 p.

    Research output: Contribution to journalArticle

  4. An expression atlas of human primary cells: inference of gene function from coexpression networks

    Mabbott, N. A., Baillie, J. K., Brown, H., Freeman, T. C. & Hume, D. A., 20 Sep 2013, In : BMC Genomics. 14, 1, 13 p., 632.

    Research output: Contribution to journalArticle

  5. An updated systematic review of the role of host genetics in susceptibility to influenza

    Horby, P., Nguyen, N. Y., Dunstan, S. J. & Baillie, J. K., Sep 2013, In : Influenza and other respiratory viruses. 7 Suppl 2, p. 37-41 5 p.

    Research output: Contribution to journalLiterature review

  6. Analysis of the human monocyte-derived macrophage transcriptome and response to lipopolysaccharide provides new insights into genetic aetiology of inflammatory bowel disease

    Baillie, J., Arner, E., Daub, C., De Hoon, M., Itoh, M., Kawaji, H., Lassmann, T., Carninci, P., Forrest, A. R. R., Hayashizaki, Y., The FANTOM Consortium, Faulkner, G., Wells, C. A., Rehli, M., Pavli, P., Summers, K. & Hume, D., 6 Mar 2017, In : PLoS Genetics. 13, 3, e1006641.

    Research output: Contribution to journalArticle

  7. Antiviral combinations for severe influenza

    Dunning, J., Baillie, J. K., Cao, B., Hayden, F. G. & International Severe Acute Respiratory and Emerging Infection Consortium (ISARIC), Dec 2014, In : The Lancet Infectious Diseases. 14, 12, p. 1259-70 12 p.

    Research output: Contribution to journalArticle

  8. Change in plasma vascular endothelial growth factor during onset and recovery from acute mountain sickness

    Dorward, D., Roger Thompson, A. A., Kenneth Baillie, J., MacDougall, M. & Hirani, N., 1 Mar 2007, In : Respiratory Medicine. 101, 3, p. 587-594

    Research output: Contribution to journalArticle

  9. Complete genome sequence of methicillin-sensitive Staphylococcus aureus containing a heterogeneic staphylococcal cassette chromosome element

    Li, D., Chu, Y., Ren, L., Li, X., Yuan, L., Kang, Y., Zhang, W., Yang, Y., Wang, X., Baillie, J. K., Yu, J. & Gao, Z., Mar 2013, In : Science China. Life sciences. 56, 3, p. 268-274 7 p.

    Research output: Contribution to journalArticle

  10. Conservation and divergence in Toll-like receptor 4-regulated gene expression in primary human versus mouse macrophages

    Schroder, K., Irvine, K. M., Taylor, M. S., Bokil, N. J., Le Cao, K-A., Masterman, K-A., Labzin, L. I., Semple, C. A., Kapetanovic, R., Fairbairn, L., Akalin, A., Faulkner, G. J., Baillie, J. K., Gongora, M., Daub, C. O., Kawaji, H., McLachlan, G. J., Goldman, N., Grimmond, S. M., Carninci, P. & 5 others, Suzuki, H., Hayashizaki, Y., Lenhard, B., Hume, D. A. & Sweet, M. J., 17 Apr 2012, In : Proceedings of the National Academy of Sciences. 109, 16, p. E944-E953

    Research output: Contribution to journalArticle

  11. Deciding authorship order

    Brennan, P. M., Jubb, A., Baillie, J. K. & Partridge, R. W., 16 Dec 2013, In : BMJ. 347, 3 p., 7182.

    Research output: Contribution to journalEditorial

  12. Endogenous Retrotransposition Activates Oncogenic Pathways in Hepatocellular Carcinoma

    Shukla, R., Upton, K. R., Munoz-Lopez, M., Gerhardt, D. J., Fisher, M. E., Thu Nguyen, N. V., Brennan, P. M., Baillie, J. K., Collino, A., Ghisletti, S., Sinha, S., Iannelli, F., Radaelli, E., Dos Santos, A., Rapoud, D., Guettier, C., Samuel, D., Natoli, G., Carninci, P., Ciccarelli, F. D. & 3 others, Garcia-Perez, J., Faivre, J. & Faulkner, G. J., 28 Mar 2013, In : Cell. 153, 1, p. 101-111 11 p.

    Research output: Contribution to journalArticle

  13. FANTOM5 CAGE profiles of human and mouse samples

    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-I., Murata, M., Nagao-Sato, S., Nakazato, K., Ninomiya, N., Nishiyori-Sueki, H., Noma, S. & 158 others, Saijyo, E., Saka, A., Sakai, M., Simon, C., Suzuki, N., Tagami, M., Watanabe, S., Yoshida, S., Arner, P., Axton, R. A., Babina, M., Baillie, J. K., Barnett, T. C., Beckhouse, A. G., Blumenthal, A., Bodega, B., Bonetti, A., Briggs, J., Brombacher, F., Carlisle, A. J., Clevers, H. C., Davis, C. A., Detmar, M., Dohi, T., Edge, A. S. B., Edinger, M., Ehrlund, A., Ekwall, K., Endoh, M., Enomoto, H., Eslami, A., Fagiolini, M., Fairbairn, L., Farach-Carson, M. C., Faulkner, G. J., Ferrai, C., Fisher, M. E., Forrester, L. M., Fujita, R., Furusawa, J-I., Geijtenbeek, T. B., Gingeras, T., Goldowitz, D., Guhl, S., Guler, R., Gustincich, S., Ha, T. J., Hamaguchi, M., Hara, M., Hasegawa, Y., Herlyn, M., Heutink, P., Hitchens, K. J., Hume, D. A., Ikawa, T., Ishizu, Y., Kai, C., Kawamoto, H., Kawamura, Y. I., Kempfle, J. S., Kenna, T. J., Kere, J., Khachigian, L. M., Kitamura, T., Klein, S., Klinken, S. P., Knox, A. J., Kojima, S., Koseki, H., Koyasu, S., Lee, W., Lennartsson, A., Mackay-Sim, A., Mejhert, N., Mizuno, Y., Morikawa, H., Morimoto, M., Moro, K., Morris, K. J., Motohashi, H., Mummery, C. L., Nakachi, Y., Nakahara, F., Nakamura, T., Nakamura, Y., Nozaki, T., Ogishima, S., Ohkura, N., Ohno, H., Ohshima, M., Okada-Hatakeyama, M., Okazaki, Y., Orlando, V., Ovchinnikov, D. A., Passier, R., Patrikakis, M., Pombo, A., Pradhan-Bhatt, S., Qin, X-Y., Rehli, M., Rizzu, P., Roy, S., Sajantila, A., Sakaguchi, S., Sato, H., Satoh, H., Savvi, S., Saxena, A., Schmidl, C., Schneider, C., Schulze-Tanzil, G. G., Schwegmann, A., Sheng, G., Shin, J. W., Sugiyama, D., Sugiyama, T., Summers, K. M., Takahashi, N., Takai, J., Tanaka, H., Tatsukawa, H., Tomoiu, A., Toyoda, H., van de Wetering, M., van den Berg, L. M., Verardo, R., Vijayan, D., Wells, C. A., Winteringham, L. N., Wolvetang, E., Yamaguchi, Y., Yamamoto, M., Yanagi-Mizuochi, C., Yoneda, M., Yonekura, Y., Zhang, P. G., Zucchelli, S., Abugessaisa, I., Arner, E., Harshbarger, J., Kondo, A., Lassmann, T., Lizio, M., Sahin, S., Sengstag, T., Severin, J., Shimoji, H., Suzuki, M., Suzuki, H., Kawai, J., Kondo, N., Itoh, M., Daub, C. O., Kasukawa, T., Kawaji, H., Carninci, P., Forrest, A. R. R. & Hayashizaki, Y., 29 Aug 2017, In : Scientific Data. 4, 170112.

    Research output: Contribution to journalArticle

  14. FANTOM5 web resource for the large-scale genome-wide transcription start site activity profiles of wide-range of mammalian cells

    Kasukawa, T., Lizio, M., Harshbarger, J., Hisashi, S., Severin, J., Imad, A., Sahin, S., Freeman, T. C., Baillie, K., Sandelin, A., Carninci, P., Forrest, A. R. R., Kawaji, H. & FANTOM Consortium, 26 May 2016, In : Human genomics. 10, Suppt. 1, p. 34 2 p., P42.

    Research output: Contribution to journalMeeting abstract

  15. Gateways to the FANTOM5 promoter level mammalian expression atlas

    Lizio, M., Harshbarger, J., Shimoji, H., Severin, J., Kasukawa, T., Sahin, S., Abugessaisa, I., Fukuda, S., Hori, F., Ishikawa-Kato, S., Mungall, C. J., Arner, E., Baillie, J. K., Bertin, N., Bono, H., de Hoon, M., Diehl, A. D., Dimont, E., Freeman, T. C., Fujieda, K. & 22 others, Hide, W., Kaliyaperumal, R., Katayama, T., Lassmann, T., Meehan, T. F., Nishikata, K., Ono, H., Rehli, M., Sandelin, A., Schultes, E. A., Hoen, P. A. C., Tatum, Z., Thompson, M., Toyoda, T., Wright, D. W., Daub, C. O., Itoh, M., Carninci, P., Hayashizaki, Y., Forrest, A. R. R., Kawaji, H. & FANTOM Consortium, 5 Jan 2015, In : Genome Biology. 16, 14 p., 22.

    Research output: Contribution to journalArticle

  16. Gene regulation. Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells

    Arner, E., Daub, C. O., Vitting-Seerup, K., Andersson, R., Lilje, B., Drabløs, F., Lennartsson, A., Rönnerblad, M., Hrydziuszko, O., Vitezic, M., Freeman, T. C., Alhendi, A. M. N., Arner, P., Axton, R., Baillie, J. K., Beckhouse, A., Bodega, B., Briggs, J., Brombacher, F., Davis, M. & 31 others, Detmar, M., Ehrlund, A., Endoh, M., Eslami, A., Fagiolini, M., Fairbairn, L., Faulkner, G. J., Ferrai, C., Fisher, M. E., Forrester, L., Goldowitz, D., Guler, R., Ha, T., Hara, M., Herlyn, M., Ikawa, T., Kai, C., Kawamoto, H., Khachigian, L. M., Klinken, S. P., Kojima, S., Koseki, H., Klein, S., Mejhert, N., Miyaguchi, K., Mizuno, Y., Morimoto, M., Tomoiu, A., Summers, K. M., Hume, D. A. & FANTOM Consortium, 27 Feb 2015, In : Science. 347, 6225, p. 1010-4 5 p.

    Research output: Contribution to journalArticle

  17. Heteroresistance at the single-cell level: adapting to antibiotic stress through a population-based strategy and growth-controlled interphenotypic coordination

    Wang, X., Kang, Y., Luo, C., Zhao, T., Liu, L., Jiang, X., Fu, R., An, S., Chen, J., Jiang, N., Ren, L., Wang, Q., Baillie, J. K., Gao, Z. & Yu, J., 2014, In : mBio. 5, 1, p. e00942-13

    Research output: Contribution to journalArticle

  18. High altitude adaptation in Daghestani populations from the Caucasus

    Pagani, L., Ayub, Q., MacArthur, D. G., Xue, Y., Baillie, J. K., Chen, Y., Kozarewa, I., Turner, D. J., Tofanelli, S., Bulayeva, K., Kidd, K., Paoli, G. & Tyler-Smith, C., Mar 2012, In : Human Genetics. 131, 3, p. 423-33 11 p.

    Research output: Contribution to journalArticle

  19. Host Susceptibility to Severe Influenza A Virus Infection

    Clohisey, S. & Baillie, J., 5 Sep 2019, In : Critical Care.

    Research output: Contribution to journalArticle

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