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Identification of pathways associated with chemosensitivity through network embedding.

Wang S, Huang E, Cairns J, Peng J, Wang L, Sinha S.

PLoS Comput Biol. 2019 Mar 20;15(3):e1006864. doi: 10.1371/journal.pcbi.1006864. [Epub ahead of print]


The Vancouver 3M (Multidisciplinary, Multimodality, But Minimalist) Clinical Pathway Facilitates Safe Next-Day Discharge Home at Low-, Medium-, and High-Volume Transfemoral Transcatheter Aortic Valve Replacement Centers: The 3M TAVR Study.

Wood DA, Lauck SB, Cairns JA, Humphries KH, Cook R, Welsh R, Leipsic J, Genereux P, Moss R, Jue J, Blanke P, Cheung A, Ye J, Dvir D, Umedaly H, Klein R, Rondi K, Poulter R, Stub D, Barbanti M, Fahmy P, Htun N, Murdoch D, Prakash R, Barker M, Nickel K, Thakkar J, Sathananthan J, Tyrell B, Al-Qoofi F, Velianou JL, Natarajan MK, Wijeysundera HC, Radhakrishnan S, Horlick E, Osten M, Buller C, Peterson M, Asgar A, Palisaitis D, Masson JB, Kodali S, Nazif T, Thourani V, Babaliaros VC, Cohen DJ, Park JE, Leon MB, Webb JG.

JACC Cardiovasc Interv. 2019 Mar 11;12(5):459-469. doi: 10.1016/j.jcin.2018.12.020.


Measuring patient trust: Comparing measures from a survey and an economic experiment.

Kovacs RJ, Lagarde M, Cairns J.

Health Econ. 2019 Feb 14. doi: 10.1002/hec.3870. [Epub ahead of print]


Genome-Wide Association Mapping and Genomic Prediction Analyses Reveal the Genetic Architecture of Grain Yield and Flowering Time Under Drought and Heat Stress Conditions in Maize.

Yuan Y, Cairns JE, Babu R, Gowda M, Makumbi D, Magorokosho C, Zhang A, Liu Y, Wang N, Hao Z, San Vicente F, Olsen MS, Prasanna BM, Lu Y, Zhang X.

Front Plant Sci. 2019 Jan 30;9:1919. doi: 10.3389/fpls.2018.01919. eCollection 2018.


Anastrozole Aromatase Inhibitor Plasma Drug Concentration Genome-Wide Association Study: Functional Epistatic Interaction Between SLC38A7 and ALPPL2.

Dudenkov TM, Liu D, Cairns J, Devarajan S, Zhuang Y, Ingle JN, Buzdar AU, Robson ME, Kubo M, Batzler A, Barman P, Jenkins GD, Carlson EE, Goetz MP, Northfelt DW, Moreno-Aspitia A, Desta Z, Reid JM, Kalari KR, Wang L, Weinshilboum RM.

Clin Pharmacol Ther. 2019 Jan 16. doi: 10.1002/cpt.1359. [Epub ahead of print]


Association of Anemia With Outcomes Among ST-Segment-Elevation Myocardial Infarction Patients Receiving Primary Percutaneous Coronary Intervention.

Moghaddam N, Wong GC, Cairns JA, Goodman SG, Perry-Arnesen M, Tocher W, Mackay M, Singer J, Lee T, Rao SV, Fordyce CB.

Circ Cardiovasc Interv. 2018 Dec;11(12):e007175. doi: 10.1161/CIRCINTERVENTIONS.118.007175.


Options for possible changes to the blood donation service: health economics modelling.

Grieve R, Willis S, De Corte K, Sadique MZ, Hawkins N, Perra S, Pennington M, Turner J, Moore C, Wickenden C, Koppitz C, Cho G, Roberts DJ, Miflin G, Cairns JA.

Southampton (UK): NIHR Journals Library; 2018 Dec.


What is driving HTA decision-making? Evidence from cancer drug reimbursement decisions from 6 European countries.

Maynou L, Cairns J.

Health Policy. 2019 Feb;123(2):130-139. doi: 10.1016/j.healthpol.2018.11.003. Epub 2018 Nov 20.


Dual-stressor selection alters eco-evolutionary dynamics in experimental communities.

Hiltunen T, Cairns J, Frickel J, Jalasvuori M, Laakso J, Kaitala V, Künzel S, Karakoc E, Becks L.

Nat Ecol Evol. 2018 Dec;2(12):1974-1981. doi: 10.1038/s41559-018-0701-5. Epub 2018 Nov 19.


2018 Focused Update of the Canadian Cardiovascular Society Guidelines for the Management of Atrial Fibrillation.

Andrade JG, Verma A, Mitchell LB, Parkash R, Leblanc K, Atzema C, Healey JS, Bell A, Cairns J, Connolly S, Cox J, Dorian P, Gladstone D, McMurtry MS, Nair GM, Pilote L, Sarrazin JF, Sharma M, Skanes A, Talajic M, Tsang T, Verma S, Wyse DG, Nattel S, Macle L; CCS Atrial Fibrillation Guidelines Committee.

Can J Cardiol. 2018 Nov;34(11):1371-1392. doi: 10.1016/j.cjca.2018.08.026.


Adjunctive rifampicin to reduce early mortality from Staphylococcus aureus bacteraemia: the ARREST RCT.

Thwaites GE, Scarborough M, Szubert A, Saramago Goncalves P, Soares M, Bostock J, Nsutebu E, Tilley R, Cunningham R, Greig J, Wyllie SA, Wilson P, Auckland C, Cairns J, Ward D, Lal P, Guleri A, Jenkins N, Sutton J, Wiselka M, Armando GR, Graham C, Chadwick PR, Barlow G, Gordon NC, Young B, Meisner S, McWhinney P, Price DA, Harvey D, Nayar D, Jeyaratnam D, Planche T, Minton J, Hudson F, Hopkins S, Williams J, Török ME, Llewelyn MJ, Edgeworth JD, Walker AS.

Health Technol Assess. 2018 Oct;22(59):1-148. doi: 10.3310/hta22590.


Black Queen Evolution and Trophic Interactions Determine Plasmid Survival after the Disruption of the Conjugation Network.

Cairns J, Koskinen K, Penttinen R, Patinen T, Hartikainen A, Jokela R, Ruusulehto L, Viitamäki S, Mattila S, Hiltunen T, Jalasvuori M.

mSystems. 2018 Oct 2;3(5). pii: e00104-18. doi: 10.1128/mSystems.00104-18. eCollection 2018 Sep-Oct.


Ecology determines how low antibiotic concentration impacts community composition and horizontal transfer of resistance genes.

Cairns J, Ruokolainen L, Hultman J, Tamminen M, Virta M, Hiltunen T.

Commun Biol. 2018 Apr 19;1:35. doi: 10.1038/s42003-018-0041-7. eCollection 2018.


Thrombus Aspiration in Patients With High Thrombus Burden in the TOTAL Trial.

Jolly SS, Cairns JA, Lavi S, Cantor WJ, Bernat I, Cheema AN, Moreno R, Kedev S, Stankovic G, Rao SV, Meeks B, Chowdhary S, Gao P, Sibbald M, Velianou JL, Mehta SR, Tsang M, Sheth T, Džavík V; TOTAL Investigators.

J Am Coll Cardiol. 2018 Oct 2;72(14):1589-1596. doi: 10.1016/j.jacc.2018.07.047.


Do cancer biomarkers make targeted therapies cost-effective? A systematic review in metastatic colorectal cancer.

Seo MK, Cairns J.

PLoS One. 2018 Sep 26;13(9):e0204496. doi: 10.1371/journal.pone.0204496. eCollection 2018. Review.


Optimizing the design of population-based patient-derived tumor xenograft studies to better predict clinical response.

Floc'h N, Guerriero ML, Ramos-Montoya A, Davies BR, Cairns J, Karp NA.

Dis Model Mech. 2018 Oct 31;11(11). pii: dmm036160. doi: 10.1242/dmm.036160.


The Pain Divide: a cross-sectional analysis of chronic pain prevalence, pain intensity and opioid utilisation in England.

Todd A, Akhter N, Cairns JM, Kasim A, Walton N, Ellison A, Chazot P, Eldabe S, Bambra C.

BMJ Open. 2018 Sep 11;8(7):e023391. doi: 10.1136/bmjopen-2018-023391.


Construction and Characterization of Synthetic Bacterial Community for Experimental Ecology and Evolution.

Cairns J, Jokela R, Hultman J, Tamminen M, Virta M, Hiltunen T.

Front Genet. 2018 Aug 14;9:312. doi: 10.3389/fgene.2018.00312. eCollection 2018.


Machine Learning Helps Identify New Drug Mechanisms in Triple-Negative Breast Cancer.

Athreya AP, Gaglio AJ, Cairns J, Kalari KR, Weinshilboum RM, Wang L, Kalbarczyk ZT, Iyer RK.

IEEE Trans Nanobioscience. 2018 Jul;17(3):251-259. doi: 10.1109/TNB.2018.2851997. Epub 2018 Jul 2.


High-throughput method for ear phenotyping and kernel weight estimation in maize using ear digital imaging.

Makanza R, Zaman-Allah M, Cairns JE, Eyre J, Burgueño J, Pacheco Á, Diepenbrock C, Magorokosho C, Tarekegne A, Olsen M, Prasanna BM.

Plant Methods. 2018 Jun 15;14:49. doi: 10.1186/s13007-018-0317-4. eCollection 2018.


Principled multi-omic analysis reveals gene regulatory mechanisms of phenotype variation.

Hanson C, Cairns J, Wang L, Sinha S.

Genome Res. 2018 Aug;28(8):1207-1216. doi: 10.1101/gr.227066.117. Epub 2018 Jun 13.


Developing and deploying climate-resilient maize varieties in the developing world.

Cairns JE, Prasanna BM.

Curr Opin Plant Biol. 2018 Oct;45(Pt B):226-230. doi: 10.1016/j.pbi.2018.05.004. Epub 2018 May 17. Review.


Germline genome-wide association studies in women receiving neoadjuvant chemotherapy with or without bevacizumab.

Ingle JN, Kalari KR, Wickerham DL, von Minckwitz G, Fasching PA, Furukawa Y, Mushiroda T, Goetz MP, Barman P, Carlson EE, Rastogi P, Costantino JP, Cairns J, Paik S, Bear HD, Kubo M, Wang L, Wolmark N, Weinshilboum RM.

Pharmacogenet Genomics. 2018 Jun;28(6):147-152. doi: 10.1097/FPC.0000000000000337.


Cost-effectiveness of alternative changes to a national blood collection service.

Willis S, De Corte K, Cairns JA, Zia Sadique M, Hawkins N, Pennington M, Cho G, Roberts DJ, Miflin G, Grieve R.

Transfus Med. 2018 May 16. doi: 10.1111/tme.12537. [Epub ahead of print]


Clinical impact of direct stenting and interaction with thrombus aspiration in patients with ST-segment elevation myocardial infarction undergoing percutaneous coronary intervention: Thrombectomy Trialists Collaboration.

Mahmoud KD, Jolly SS, James S, Džavík V, Cairns JA, Olivecrona GK, Renlund H, Gao P, Lagerqvist B, Alazzoni A, Kedev S, Stankovic G, Meeks B, Frøbert O, Zijlstra F.

Eur Heart J. 2018 Jul 7;39(26):2472-2479. doi: 10.1093/eurheartj/ehy219.


The Presence of a CTO in a Non-Infarct-Related Artery During a STEMI Treated With Contemporary Primary PCI Is Associated With Increased Rates of Early and Late Cardiovascular Morbidity and Mortality: The CTO-TOTAL Substudy.

Allahwala UK, Jolly SS, Džavík V, Cairns JA, Kedev S, Balasubramanian K, Stankovic G, Moreno R, Valettas N, Bertrand O, Lavi S, Velianou JL, Sheth T, Meeks B, Brilakis ES, Bhindi R.

JACC Cardiovasc Interv. 2018 Apr 9;11(7):709-711. doi: 10.1016/j.jcin.2017.12.005. No abstract available.


Translating High-Throughput Phenotyping into Genetic Gain.

Araus JL, Kefauver SC, Zaman-Allah M, Olsen MS, Cairns JE.

Trends Plant Sci. 2018 May;23(5):451-466. doi: 10.1016/j.tplants.2018.02.001. Epub 2018 Mar 16. Review.


Host range of antibiotic resistance genes in wastewater treatment plant influent and effluent.

Hultman J, Tamminen M, Pärnänen K, Cairns J, Karkman A, Virta M.

FEMS Microbiol Ecol. 2018 Apr 1;94(4). doi: 10.1093/femsec/fiy038.


Long-Range Enhancer Interactions Are Prevalent in Mouse Embryonic Stem Cells and Are Reorganized upon Pluripotent State Transition.

Novo CL, Javierre BM, Cairns J, Segonds-Pichon A, Wingett SW, Freire-Pritchett P, Furlan-Magaril M, Schoenfelder S, Fraser P, Rugg-Gunn PJ.

Cell Rep. 2018 Mar 6;22(10):2615-2627. doi: 10.1016/j.celrep.2018.02.040.


The use of intensive radiological assessments in routine surveillance after treatment for head and neck cancer: An economic evaluation.

Meregaglia M, Cairns J, Licitra L, Bossi P.

Eur J Cancer. 2018 Apr;93:89-98. doi: 10.1016/j.ejca.2018.01.082. Epub 2018 Mar 20.


2018 Canadian Cardiovascular Society/Canadian Association of Interventional Cardiology Focused Update of the Guidelines for the Use of Antiplatelet Therapy.

Mehta SR, Bainey KR, Cantor WJ, Lordkipanidzé M, Marquis-Gravel G, Robinson SD, Sibbald M, So DY, Wong GC, Abunassar JG, Ackman ML, Bell AD, Cartier R, Douketis JD, Lawler PR, McMurtry MS, Udell JA, van Diepen S, Verma S, Mancini GBJ, Cairns JA, Tanguay JF; members of the Secondary Panel.

Can J Cardiol. 2018 Mar;34(3):214-233. doi: 10.1016/j.cjca.2017.12.012. Epub 2017 Dec 19. Review.


Comparison of thermodilution and indirect Fick cardiac outputs in pulmonary hypertension.

Alkhodair A, Tsang MYC, Cairns JA, Swiston JR, Levy RD, Lee L, Huckell VF, Brunner NW.

Int J Cardiol. 2018 May 1;258:228-231. doi: 10.1016/j.ijcard.2018.01.076. Epub 2018 Feb 2.


Differential roles of ERRFI1 in EGFR and AKT pathway regulation affect cancer proliferation.

Cairns J, Fridley BL, Jenkins GD, Zhuang Y, Yu J, Wang L.

EMBO Rep. 2018 Mar;19(3). pii: e44767. doi: 10.15252/embr.201744767. Epub 2018 Jan 15.


Risks of Overinterpreting Interim Data: Lessons From the TOTAL Trial (Thrombectomy With PCI Versus PCI Alone in Patients With STEMI).

Jolly SS, Gao P, Cairns JA, Yusuf S, Bhatt DL, Wyse DG, Wells GA, Džavík V.

Circulation. 2018 Jan 9;137(2):206-209. doi: 10.1161/CIRCULATIONAHA.117.030656. No abstract available.


Virtual Screening and Prediction of Binding of Caprine CSN1S2 Protein Tryptic Peptides to Glucokinase.

Fatchiyah F, Rahasta AH, Cairns JRK.

Acta Inform Med. 2017 Dec;25(4):225-231. doi: 10.5455/aim.2017.25.225-231.


Adjunctive rifampicin for Staphylococcus aureus bacteraemia (ARREST): a multicentre, randomised, double-blind, placebo-controlled trial.

Thwaites GE, Scarborough M, Szubert A, Nsutebu E, Tilley R, Greig J, Wyllie SA, Wilson P, Auckland C, Cairns J, Ward D, Lal P, Guleri A, Jenkins N, Sutton J, Wiselka M, Armando GR, Graham C, Chadwick PR, Barlow G, Gordon NC, Young B, Meisner S, McWhinney P, Price DA, Harvey D, Nayar D, Jeyaratnam D, Planche T, Minton J, Hudson F, Hopkins S, Williams J, Török ME, Llewelyn MJ, Edgeworth JD, Walker AS; United Kingdom Clinical Infection Research Group (UKCIRG).

Lancet. 2018 Feb 17;391(10121):668-678. doi: 10.1016/S0140-6736(17)32456-X. Epub 2017 Dec 14.


Comparative Performance of Ground vs. Aerially Assessed RGB and Multispectral Indices for Early-Growth Evaluation of Maize Performance under Phosphorus Fertilization.

Gracia-Romero A, Kefauver SC, Vergara-Díaz O, Zaman-Allah MA, Prasanna BM, Cairns JE, Araus JL.

Front Plant Sci. 2017 Nov 27;8:2004. doi: 10.3389/fpls.2017.02004. eCollection 2017.


Considerations for automated machine learning in clinical metabolic profiling: Altered homocysteine plasma concentration associated with metformin exposure.

Orlenko A, Moore JH, Orzechowski P, Olson RS, Cairns J, Caraballo PJ, Weinshilboum RM, Wang L, Breitenstein MK.

Pac Symp Biocomput. 2018;23:460-471.


Variation in Practice Patterns for Listing Patients for Renal Transplantation in the United Kingdom: A National Survey.

Pruthi R, Tonkin-Crine S, Calestani M, Leydon G, Eyles C, Oniscu GC, Tomson C, Bradley A, Forsythe JL, Bradley C, Cairns J, Dudley C, Watson C, Draper H, Johnson R, Metcalfe W, Fogarty D, Ravanan R, Roderick PJ; ATTOM Investigators.

Transplantation. 2018 Jun;102(6):961-968. doi: 10.1097/TP.0000000000002046.


Therapy response testing of breast cancer in a 3D high-throughput perfused microfluidic platform.

Lanz HL, Saleh A, Kramer B, Cairns J, Ng CP, Yu J, Trietsch SJ, Hankemeier T, Joore J, Vulto P, Weinshilboum R, Wang L.

BMC Cancer. 2017 Nov 2;17(1):709. doi: 10.1186/s12885-017-3709-3.


In search of a common currency: A comparison of seven EQ-5D-5L value sets.

Olsen JA, Lamu AN, Cairns J.

Health Econ. 2018 Jan;27(1):39-49. doi: 10.1002/hec.3606. Epub 2017 Oct 24.


SNPs near the cysteine proteinase cathepsin O gene (CTSO) determine tamoxifen sensitivity in ERα-positive breast cancer through regulation of BRCA1.

Cairns J, Ingle JN, Wickerham LD, Weinshilboum R, Liu M, Wang L.

PLoS Genet. 2017 Oct 2;13(10):e1007031. doi: 10.1371/journal.pgen.1007031. eCollection 2017 Oct.


Area-level socioeconomic disadvantage and suicidal behaviour in Europe: A systematic review.

Cairns JM, Graham E, Bambra C.

Soc Sci Med. 2017 Nov;192:102-111. doi: 10.1016/j.socscimed.2017.09.034. Epub 2017 Sep 23. Review.


Mapping health-related quality of life scores from FACT-G, FAACT, and FACIT-F onto preference-based EQ-5D-5L utilities in non-small cell lung cancer cachexia.

Meregaglia M, Borsoi L, Cairns J, Tarricone R.

Eur J Health Econ. 2017 Sep 25. doi: 10.1007/s10198-017-0930-6. [Epub ahead of print]


Are children rational decision makers when they are asked to value their own health? A contingent valuation study conducted with children and their parents.

Guerriero C, Cairns J, Bianchi F, Cori L.

Health Econ. 2018 Feb;27(2):e55-e68. doi: 10.1002/hec.3562. Epub 2017 Sep 13.


Chromosome contacts in activated T cells identify autoimmune disease candidate genes.

Burren OS, Rubio García A, Javierre BM, Rainbow DB, Cairns J, Cooper NJ, Lambourne JJ, Schofield E, Castro Dopico X, Ferreira RC, Coulson R, Burden F, Rowlston SP, Downes K, Wingett SW, Frontini M, Ouwehand WH, Fraser P, Spivakov M, Todd JA, Wicker LS, Cutler AJ, Wallace C.

Genome Biol. 2017 Sep 4;18(1):165. doi: 10.1186/s13059-017-1285-0.


Bare metal versus drug eluting stents for ST-segment elevation myocardial infarction in the TOTAL trial.

Lavi S, Iqbal J, Cairns JA, Cantor WJ, Cheema AN, Moreno R, Meeks B, Welsh RC, Kedev S, Chowdhary S, Stankovic G, Schwalm JD, Liu Y, Jolly SS, Džavík V.

Int J Cardiol. 2017 Dec 1;248:120-123. doi: 10.1016/j.ijcard.2017.06.070. Epub 2017 Aug 30.


A systematic literature review of health state utility values in head and neck cancer.

Meregaglia M, Cairns J.

Health Qual Life Outcomes. 2017 Sep 2;15(1):174. doi: 10.1186/s12955-017-0748-z. Review.


Lineage-specific dynamic and pre-established enhancer-promoter contacts cooperate in terminal differentiation.

Rubin AJ, Barajas BC, Furlan-Magaril M, Lopez-Pajares V, Mumbach MR, Howard I, Kim DS, Boxer LD, Cairns J, Spivakov M, Wingett SW, Shi M, Zhao Z, Greenleaf WJ, Kundaje A, Snyder M, Chang HY, Fraser P, Khavari PA.

Nat Genet. 2017 Oct;49(10):1522-1528. doi: 10.1038/ng.3935. Epub 2017 Aug 14.


Knowledge-guided gene prioritization reveals new insights into the mechanisms of chemoresistance.

Emad A, Cairns J, Kalari KR, Wang L, Sinha S.

Genome Biol. 2017 Aug 11;18(1):153. doi: 10.1186/s13059-017-1282-3.

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