Publications

• CBSGI policy is to accelerate research by making pre-prints of all manuscripts publicly available.

• CBSGI authors denoted in bold

Pre-prints on BioRxiv:

Genome-Wide Screening for Identification of Novel Toxin-Antitoxin Systems in Staphylococcus aureus.
Kato F, Yoshizumi S, Yamaguchi Y, Inouye M.
Appl Environ Microbiol. 2019 Oct 1;85(20):e00915-19. doi: 10.1128/AEM.00915-19. Pre-print 2019 Oct 15.

Bacterial modification of the host glycosaminoglycan heparan sulfate modulates SARS-CoV-2 infectivity.
Martino C, Kellman BP, Sandoval DR, Clausen TM, Marotz CA, Song SJ, Wandro S, Zaramela LS, Salido Benítez RA, Zhu Q, Armingol E, Vázquez-Baeza Y, McDonald D, Sorrentino JT, Taylor B, Belda-Ferre P, Liang C, Zhang Y, Schifanella L, Klatt NR, Havulinna AS, Jousilahti P, Huang S, Haiminen N, Parida L, Kim HC, Swafford AD, Zengler K, Cheng S, Inouye M, Niiranen T, Jain M, Salomaa V, Esko JD, Lewis NE, Knight R.
bioRxiv. 2020 Aug 18:2020.08.17.238444. doi: 10.1101/2020.08.17.238444. Pre-print.

Identification of expression quantitative trait loci associated with schizophrenia and affective disorders in normal brain tissue
Bhalala OG, Nath AP, UK Brain Expression Consortium, Inouye M, Sibley CR
PLOS Genetics 2018. 14(8):e1007607.    pre-print

Published:

Validation of a Genome-Wide Polygenic Score for Coronary Artery Disease in South Asians.
Wang M, Menon R, Mishra S, Patel AP, Chaffin M, Tanneeru D, Deshmukh M, Mathew O, Apte S, Devanboo CS, Sundaram S, Lakshmipathy P, Murugan S, Sharma KK, Rajendran K, Santhosh S, Thachathodiyl R, Ahamed H, Balegadde AV, Alexander T, Swaminathan K, Gupta R, Mullasari AS, Sigamani A, Kanchi M, Peterson AS, Butterworth AS, Danesh J, Di Angelantonio E, Naheed A, Inouye M, Chowdhury R, Vedam RL, Kathiresan S, Gupta R, Khera AV.
J Am Coll Cardiol. 2020 Aug 11;76(6):703-714. doi: 10.1016/j.jacc.2020.06.024.

Neonatal genetics of gene expression reveal potential origins of autoimmune and allergic disease risk.
Huang QQ, Tang HHF, Teo SM, Mok D, Ritchie SC, Nath AP, Brozynska M, Salim A, Bakshi A, Holt BJ, Khor CC, Sly PD, Holt PG, Holt KE, Inouye M.
Nat Commun. 2020 Jul 28;11(1):3761. doi: 10.1038/s41467-020-17477-x.

Association Between the Gut Microbiota and Blood Pressure in a Population Cohort of 6953 Individuals.
Palmu J, Salosensaari A, Havulinna AS, Cheng S, Inouye M, Jain M, Salido RA, Sanders K, Brennan C, Humphrey GC, Sanders JG, Vartiainen E, Laatikainen T, Jousilahti P, Salomaa V, Knight R, Lahti L, Niiranen TJ.
J Am Heart Assoc. 2020 Aug 4;9(15):e016641. doi: 10.1161/JAHA.120.016641. Epub 2020 Jul 21.

Luminal microbiota related to Crohn’s disease recurrence after surgery.
Hamilton AL, Kamm MA, De Cruz P, Wright EK, Feng H, Wagner J, Sung JJY, Kirkwood CD, Inouye M, Teo SM.
Gut Microbes. 2020 Nov 1;11(6):1713-1728. doi: 10.1080/19490976.2020.1778262. Epub 2020 Jun 21.

Reference exome data for Australian Aboriginal populations to support health-based research.
Weeks AL, D’Antoine HA, McKinnon M, Syn G, Bessarab D, Brown N, Tong SYC, Reményi B, Steer A, Gray LA, Inouye M, Carapetis JR, Blackwell JM, Lassmann T.
Sci Data. 2020 Apr 29;7(1):129. doi: 10.1038/s41597-020-0463-1.

Genomic risk score offers predictive performance comparable to clinical risk factors for ischaemic stroke.
Abraham G, Malik R, Yonova-Doing E, Salim A, Wang T, Danesh J, Butterworth AS, Howson JMM, Inouye M, Dichgans M.
Nat Commun. 2019 Dec 20;10(1):5819. doi: 10.1038/s41467-019-13848-1.

Multivariate Genome-wide Association Analysis of a Cytokine Network Reveals Variants with Widespread Immune, Haematological, and Cardiometabolic Pleiotropy.
Nath AP, Ritchie SC, Grinberg NF, Tang HH, Huang QQ, Teo SM, Ahola-Olli AV, Würtz P, Havulinna AS, Santalahti K, Pitkänen N, Lehtimäki T, Kähönen M, Lyytikäinen LP, Raitoharju E, Seppälä I, Sarin AP, Ripatti S, Palotie A, Perola M, Viikari JS, Jalkanen S, Maksimow M, Salmi M, Wallace C, Raitakari OT, Salomaa V, Abraham G, Kettunen J, Inouye M.
Am J Hum Genet. 2019 Dec 5;105(6):1076-1090. doi: 10.1016/j.ajhg.2019.10.001. Epub 2019 Oct 31.

Elevated serum alpha-1 antitrypsin is a major component of GlycA-associated risk for future morbidity and mortality.
Ritchie SC, Kettunen J, Brozynska M, Nath AP, Havulinna AS, Männistö S, Perola M, Salomaa V, Ala-Korpela M, Abraham G, Würtz P, Inouye M.
PLoS One. 2019 Oct 23;14(10):e0223692. doi: 10.1371/journal.pone.0223692. eCollection 2019.

Systems biology and big data in asthma and allergy: recent discoveries and emerging challenges.
Tang HHF, Sly PD, Holt PG, Holt KE, Inouye M.
Eur Respir J. 2020 Jan 9;55(1):1900844. doi: 10.1183/13993003.00844-2019. Print 2020 Jan.

Towards clinical utility of polygenic risk scores.
Lambert SA, Abraham G, Inouye M.
Hum Mol Genet. 2019 Nov 21;28(R2):R133-R142. doi: 10.1093/hmg/ddz187.

Gene Regulatory Networks to Explain Coronary Artery Disease Heritability.
Inouye M, Lannelongue L.
J Am Coll Cardiol. 2019 Jun 18;73(23):2958-2960. doi: 10.1016/j.jacc.2019.03.511.

Acute effects of active breaks during prolonged sitting on subcutaneous adipose tissue gene expression: an ancillary analysis of a randomised controlled trial.
Grace MS, Formosa MF, Bozaoglu K, Bergouignan A, Brozynska M, Carey AL, Veiga CB, Sethi P, Dillon F, Bertovic DA, Inouye M, Owen N, Dunstan DW, Kingwell BA.
Sci Rep. 2019 Mar 7;9(1):3847. doi: 10.1038/s41598-019-40490-0.

Comparative analysis reveals a role for TGF-β in shaping the residency-related transcriptional signature in tissue-resident memory CD8+ T cells.
Nath AP, Braun A, Ritchie SC, Carbone FR, Mackay LK, Gebhardt T, Inouye M.
PLoS One. 2019 Feb 11;14(2):e0210495. doi: 10.1371/journal.pone.0210495. eCollection 2019.

Biomarker Glycoprotein Acetyls Is Associated With the Risk of a Wide Spectrum of Incident Diseases and Stratifies Mortality Risk in Angiography Patients.
Kettunen J, Ritchie SC, Anufrieva O, Lyytikäinen LP, Hernesniemi J, Karhunen PJ, Kuukasjärvi P, Laurikka J, Kähönen M, Lehtimäki T, Havulinna AS, Salomaa V, Männistö S, Ala-Korpela M, Perola M, Inouye M, Würtz P.
Circ Genom Precis Med. 2018 Nov;11(11):e002234. doi: 10.1161/CIRCGEN.118.002234.

Trajectories of childhood immune development and respiratory health relevant to asthma and allergy.
Tang HH, Teo SM, Belgrave DC, Evans MD, Jackson DJ, Brozynska M, Kusel MM, Johnston SL, Gern JE, Lemanske RF, Simpson A, Custovic A, Sly PD, Holt PG, Holt KE, Inouye M.
Elife. 2018 Oct 15;7:e35856. doi: 10.7554/eLife.35856.

Genomic Risk Prediction of Coronary Artery Disease in 480,000 Adults: Implications for Primary Prevention.
Inouye M, Abraham G, Nelson CP, Wood AM, Sweeting MJ, Dudbridge F, Lai FY, Kaptoge S, Brozynska M, Wang T, Ye S, Webb TR, Rutter MK, Tzoulaki I, Patel RS, Loos RJF, Keavney B, Hemingway H, Thompson J, Watkins H, Deloukas P, Di Angelantonio E, Butterworth AS, Danesh J, Samani NJ; UK Biobank CardioMetabolic Consortium CHD Working Group.
J Am Coll Cardiol. 2018 Oct 16;72(16):1883-1893. doi: 10.1016/j.jacc.2018.07.079.

Airway Microbiota Dynamics Uncover a Critical Window for Interplay of Pathogenic Bacteria and Allergy in Childhood Respiratory Disease.
Teo SM, Tang HHF, Mok D, Judd LM, Watts SC, Pham K, Holt BJ, Kusel M, Serralha M, Troy N, Bochkov YA, Grindle K, Lemanske RF Jr, Johnston SL, Gern JE, Sly PD, Holt PG, Holt KE, Inouye M.
Cell Host Microbe. 2018 Sep 12;24(3):341-352.e5. doi: 10.1016/j.chom.2018.08.005.

Power, false discovery rate and Winner’s Curse in eQTL studies.
Huang QQ, Ritchie SC, Brozynska M, Inouye M.
Nucleic Acids Res. 2018 Dec 14;46(22):e133. doi: 10.1093/nar/gky780.

FastSpar: rapid and scalable correlation estimation for compositional data.
Watts SC, Ritchie SC, Inouye M, Holt KE.
Bioinformatics. 2019 Mar 15;35(6):1064-1066. doi: 10.1093/bioinformatics/bty734.

Genome-Wide Association Studies and Risk Scores for Coronary Artery Disease: Sex Biases.
Byars SG, Inouye M.
Adv Exp Med Biol. 2018;1065:627-642. doi: 10.1007/978-3-319-77932-4_38.

Frequent transmission of the Mycobacterium tuberculosis Beijing lineage and positive selection for the EsxW Beijing variant in Vietnam.
Holt KE, McAdam P, Thai PVK, Thuong NTT, Ha DTM, Lan NN, Lan NH, Nhu NTQ, Hai HT, Ha VTN, Thwaites G, Edwards DJ, Nath AP, Pham K, Ascher DB, Farrar J, Khor CC, Teo YY, Inouye M, Caws M, Dunstan SJ.
Nat Genet. 2018 Jun;50(6):849-856. doi: 10.1038/s41588-018-0117-9. Epub 2018 May 21.

Cross-ancestry genome-wide association analysis of corneal thickness strengthens link between complex and Mendelian eye diseases.
Iglesias AI, Mishra A, Vitart V, Bykhovskaya Y, Höhn R, Springelkamp H, Cuellar-Partida G, Gharahkhani P, Bailey JNC, Willoughby CE, Li X, Yazar S, Nag A, Khawaja AP, Polašek O, Siscovick D, Mitchell P, Tham YC, Haines JL, Kearns LS, Hayward C, Shi Y, van Leeuwen EM, Taylor KD; Blue Mountains Eye Study—GWAS group, Bonnemaijer P, Rotter JI, Martin NG, Zeller T, Mills RA, Souzeau E, Staffieri SE, Jonas JB, Schmidtmann I, Boutin T, Kang JH, Lucas SEM, Wong TY, Beutel ME, Wilson JF; NEIGHBORHOOD Consortium; Wellcome Trust Case Control Consortium 2 (WTCCC2), Uitterlinden AG, Vithana EN, Foster PJ, Hysi PG, Hewitt AW, Khor CC, Pasquale LR, Montgomery GW, Klaver CCW, Aung T, Pfeiffer N, Mackey DA, Hammond CJ, Cheng CY, Craig JE, Rabinowitz YS, Wiggs JL, Burdon KP, van Duijn CM, MacGregor S.
Nat Commun. 2018 May 14;9(1):1864. doi: 10.1038/s41467-018-03646-6.

Comparative analysis reveals a role of TGF-β in shaping the residency-related transcriptional signature in tissue-resident memory CD8+ T cells
Nath AP*, Braun A*, Ritchie SC, Carbone FR, MacKay L, Gebhardt T*, Inouye M*.
PLoS ONE 2019. 14(2): e0210495.

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