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Items: 49

1.

Single-cell transcriptomes from human kidneys reveal the cellular identity of renal tumors.

Young MD, Mitchell TJ, Vieira Braga FA, Tran MGB, Stewart BJ, Ferdinand JR, Collord G, Botting RA, Popescu DM, Loudon KW, Vento-Tormo R, Stephenson E, Cagan A, Farndon SJ, Del Castillo Velasco-Herrera M, Guzzo C, Richoz N, Mamanova L, Aho T, Armitage JN, Riddick ACP, Mushtaq I, Farrell S, Rampling D, Nicholson J, Filby A, Burge J, Lisgo S, Maxwell PH, Lindsay S, Warren AY, Stewart GD, Sebire N, Coleman N, Haniffa M, Teichmann SA, Clatworthy M, Behjati S.

Science. 2018 Aug 10;361(6402):594-599. doi: 10.1126/science.aat1699.

PMID:
30093597
2.

The Association Between Arthralgia and Vedolizumab Using Natural Language Processing.

Cai T, Lin TC, Bond A, Huang J, Kane-Wanger G, Cagan A, Murphy SN, Ananthakrishnan AN, Liao KP.

Inflamm Bowel Dis. 2018 May 26. doi: 10.1093/ibd/izy127. [Epub ahead of print]

PMID:
29846617
3.

Association Between Anti-Citrullinated Fibrinogen Antibodies and Coronary Artery Disease in Rheumatoid Arthritis.

Hejblum BP, Cui J, Lahey LJ, Cagan A, Sparks JA, Sokolove J, Cai T, Liao KP.

Arthritis Care Res (Hoboken). 2018 Jul;70(7):1113-1117. doi: 10.1002/acr.23444. Epub 2018 May 19.

PMID:
28992379
4.

The dental phenotype of hairless dogs with FOXI3 haploinsufficiency.

Kupczik K, Cagan A, Brauer S, Fischer MS.

Sci Rep. 2017 Jul 14;7(1):5459. doi: 10.1038/s41598-017-05764-5.

5.

Cytochrome P450 interactions are common and consequential in Massachusetts hospital discharges.

McCoy TH, Castro VM, Cagan A, Snapper L, Roberson A, Perlis RH.

Pharmacogenomics J. 2018 Apr;18(2):347-350. doi: 10.1038/tpj.2017.30. Epub 2017 Jul 11.

PMID:
28696416
6.

Validation of a risk stratification tool for fall-related injury in a state-wide cohort.

McCoy TH Jr, Castro VM, Cagan A, Roberson AM, Perlis RH.

BMJ Open. 2017 Feb 6;7(2):e012189. doi: 10.1136/bmjopen-2016-012189.

7.

Natural Selection in the Great Apes.

Cagan A, Theunert C, Laayouni H, Santpere G, Pybus M, Casals F, Prüfer K, Navarro A, Marques-Bonet T, Bertranpetit J, Andrés AM.

Mol Biol Evol. 2016 Dec;33(12):3268-3283. Epub 2016 Oct 30.

8.

Phenome-Wide Association Study of Autoantibodies to Citrullinated and Noncitrullinated Epitopes in Rheumatoid Arthritis.

Liao KP, Sparks JA, Hejblum BP, Kuo IH, Cui J, Lahey LJ, Cagan A, Gainer VS, Liu W, Cai TT, Sokolove J, Cai T.

Arthritis Rheumatol. 2017 Apr;69(4):742-749. doi: 10.1002/art.39974.

9.

Prevalence and implications of cytochrome P450 substrates in Massachusetts hospital discharges.

McCoy TH, Castro VM, Cagan A, Roberson AM, Perlis RH.

Pharmacogenomics J. 2017 Jul;17(4):382-385. doi: 10.1038/tpj.2016.24. Epub 2016 May 10.

PMID:
27168099
10.

Comparative Effectiveness of Infliximab and Adalimumab in Crohn's Disease and Ulcerative Colitis.

Ananthakrishnan AN, Cagan A, Cai T, Gainer VS, Shaw SY, Savova G, Churchill S, Karlson EW, Kohane I, Liao KP, Murphy SN.

Inflamm Bowel Dis. 2016 Apr;22(4):880-5. doi: 10.1097/MIB.0000000000000754.

11.

The Biobank Portal for Partners Personalized Medicine: A Query Tool for Working with Consented Biobank Samples, Genotypes, and Phenotypes Using i2b2.

Gainer VS, Cagan A, Castro VM, Duey S, Ghosh B, Goodson AP, Goryachev S, Metta R, Wang TD, Wattanasin N, Murphy SN.

J Pers Med. 2016 Feb 26;6(1). pii: E11. doi: 10.3390/jpm6010011.

12.

Statin Use Is Associated With Reduced Risk of Colorectal Cancer in Patients With Inflammatory Bowel Diseases.

Ananthakrishnan AN, Cagan A, Cai T, Gainer VS, Shaw SY, Churchill S, Karlson EW, Murphy SN, Liao KP, Kohane I.

Clin Gastroenterol Hepatol. 2016 Jul;14(7):973-9. doi: 10.1016/j.cgh.2016.02.017. Epub 2016 Feb 22.

13.

Food web effects of titanium dioxide nanoparticles in an outdoor freshwater mesocosm experiment.

Jovanović B, Bezirci G, Çağan AS, Coppens J, Levi EE, Oluz Z, Tuncel E, Duran H, Beklioğlu M.

Nanotoxicology. 2016 Sep;10(7):902-12. doi: 10.3109/17435390.2016.1140242. Epub 2016 Feb 22.

PMID:
26901391
14.

Identification of genomic variants putatively targeted by selection during dog domestication.

Cagan A, Blass T.

BMC Evol Biol. 2016 Jan 12;16:10. doi: 10.1186/s12862-015-0579-7.

15.

Antidepressant nonadherence in routine clinical settings determined from discarded blood samples.

Roberson AM, Castro VM, Cagan A, Perlis RH.

J Clin Psychiatry. 2016 Mar;77(3):359-62. doi: 10.4088/JCP.14m09612.

PMID:
26613178
16.

Identification of Nonresponse to Treatment Using Narrative Data in an Electronic Health Record Inflammatory Bowel Disease Cohort.

Ananthakrishnan AN, Cagan A, Cai T, Gainer VS, Shaw SY, Savova G, Churchill S, Karlson EW, Murphy SN, Liao KP, Kohane I.

Inflamm Bowel Dis. 2016 Jan;22(1):151-8. doi: 10.1097/MIB.0000000000000580.

17.

Evidence of long-term gene flow and selection during domestication from analyses of Eurasian wild and domestic pig genomes.

Frantz LA, Schraiber JG, Madsen O, Megens HJ, Cagan A, Bosse M, Paudel Y, Crooijmans RP, Larson G, Groenen MA.

Nat Genet. 2015 Oct;47(10):1141-8. doi: 10.1038/ng.3394. Epub 2015 Aug 31.

PMID:
26323058
18.

Sentiment Measured in Hospital Discharge Notes Is Associated with Readmission and Mortality Risk: An Electronic Health Record Study.

McCoy TH, Castro VM, Cagan A, Roberson AM, Kohane IS, Perlis RH.

PLoS One. 2015 Aug 24;10(8):e0136341. doi: 10.1371/journal.pone.0136341. eCollection 2015.

19.

Methods to Develop an Electronic Medical Record Phenotype Algorithm to Compare the Risk of Coronary Artery Disease across 3 Chronic Disease Cohorts.

Liao KP, Ananthakrishnan AN, Kumar V, Xia Z, Cagan A, Gainer VS, Goryachev S, Chen P, Savova GK, Agniel D, Churchill S, Lee J, Murphy SN, Plenge RM, Szolovits P, Kohane I, Shaw SY, Karlson EW, Cai T.

PLoS One. 2015 Aug 24;10(8):e0136651. doi: 10.1371/journal.pone.0136651. eCollection 2015.

20.

Stratifying Risk for Renal Insufficiency Among Lithium-Treated Patients: An Electronic Health Record Study.

Castro VM, Roberson AM, McCoy TH, Wiste A, Cagan A, Smoller JW, Rosenbaum JF, Ostacher M, Perlis RH.

Neuropsychopharmacology. 2016 Mar;41(4):1138-43. doi: 10.1038/npp.2015.254. Epub 2015 Aug 21.

21.

Common Genetic Variants Influence Circulating Vitamin D Levels in Inflammatory Bowel Diseases.

Ananthakrishnan AN, Cagan A, Cai T, Gainer VS, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP, Xavier RJ.

Inflamm Bowel Dis. 2015 Nov;21(11):2507-14. doi: 10.1097/MIB.0000000000000524.

22.

Diabetes and the risk of infections with immunomodulator therapy in inflammatory bowel diseases.

Ananthakrishnan AN, Cagan A, Cai T, Gainer VS, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP.

Aliment Pharmacol Ther. 2015 Jun;41(11):1141-8. doi: 10.1111/apt.13195. Epub 2015 Apr 13.

23.

TYK2 protein-coding variants protect against rheumatoid arthritis and autoimmunity, with no evidence of major pleiotropic effects on non-autoimmune complex traits.

Diogo D, Bastarache L, Liao KP, Graham RR, Fulton RS, Greenberg JD, Eyre S, Bowes J, Cui J, Lee A, Pappas DA, Kremer JM, Barton A, Coenen MJ, Franke B, Kiemeney LA, Mariette X, Richard-Miceli C, Canhão H, Fonseca JE, de Vries N, Tak PP, Crusius JB, Nurmohamed MT, Kurreeman F, Mikuls TR, Okada Y, Stahl EA, Larson DE, Deluca TL, O'Laughlin M, Fronick CC, Fulton LL, Kosoy R, Ransom M, Bhangale TR, Ortmann W, Cagan A, Gainer V, Karlson EW, Kohane I, Murphy SN, Martin J, Zhernakova A, Klareskog L, Padyukov L, Worthington J, Mardis ER, Seldin MF, Gregersen PK, Behrens T, Raychaudhuri S, Denny JC, Plenge RM.

PLoS One. 2015 Apr 7;10(4):e0122271. doi: 10.1371/journal.pone.0122271. eCollection 2015.

24.

A clinical perspective on the relevance of research domain criteria in electronic health records.

McCoy TH, Castro VM, Rosenfield HR, Cagan A, Kohane IS, Perlis RH.

Am J Psychiatry. 2015 Apr;172(4):316-20. doi: 10.1176/appi.ajp.2014.14091177.

PMID:
25827030
25.

A single-dose pilot trial of intranasal rapid-acting insulin in apolipoprotein E4 carriers with mild-moderate Alzheimer's disease.

Rosenbloom MH, Barclay TR, Pyle M, Owens BL, Cagan AB, Anderson CP, Frey WH 2nd, Hanson LR.

CNS Drugs. 2014 Dec;28(12):1185-9. doi: 10.1007/s40263-014-0214-y.

PMID:
25373630
26.

The use of computed tomography attenuation to evaluate osteoporosis following acute fractures of the thoracic and lumbar vertebra.

Emohare O, Cagan A, Morgan R, Davis R, Asis M, Switzer J, Polly DW Jr.

Geriatr Orthop Surg Rehabil. 2014 Jun;5(2):50-5. doi: 10.1177/2151458514525042.

27.

Automatic identification of methotrexate-induced liver toxicity in patients with rheumatoid arthritis from the electronic medical record.

Lin C, Karlson EW, Dligach D, Ramirez MP, Miller TA, Mo H, Braggs NS, Cagan A, Gainer V, Denny JC, Savova GK.

J Am Med Inform Assoc. 2015 Apr;22(e1):e151-61. doi: 10.1136/amiajnl-2014-002642. Epub 2014 Oct 25.

28.

Mode of childbirth and long-term outcomes in women with inflammatory bowel diseases.

Ananthakrishnan AN, Cheng A, Cagan A, Cai T, Gainer VS, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP.

Dig Dis Sci. 2015 Feb;60(2):471-7. doi: 10.1007/s10620-014-3353-6. Epub 2014 Sep 12.

29.

Genetic influences on brain gene expression in rats selected for tameness and aggression.

Heyne HO, Lautenschläger S, Nelson R, Besnier F, Rotival M, Cagan A, Kozhemyakina R, Plyusnina IZ, Trut L, Carlborg Ö, Petretto E, Kruglyak L, Pääbo S, Schöneberg T, Albert FW.

Genetics. 2014 Nov;198(3):1277-90. doi: 10.1534/genetics.114.168948. Epub 2014 Sep 3.

30.

Opportunistic computed tomography screening shows a high incidence of osteoporosis in ankylosing spondylitis patients with acute vertebral fractures.

Emohare O, Cagan A, Polly DW Jr, Gertner E.

J Clin Densitom. 2015 Jan-Mar;18(1):17-21. doi: 10.1016/j.jocd.2014.07.006. Epub 2014 Sep 22.

PMID:
25172008
31.

Colonoscopy is associated with a reduced risk for colon cancer and mortality in patients with inflammatory bowel diseases.

Ananthakrishnan AN, Cagan A, Cai T, Gainer VS, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP.

Clin Gastroenterol Hepatol. 2015 Feb;13(2):322-329.e1. doi: 10.1016/j.cgh.2014.07.018. Epub 2014 Jul 17.

32.

Higher plasma vitamin D is associated with reduced risk of Clostridium difficile infection in patients with inflammatory bowel diseases.

Ananthakrishnan AN, Cagan A, Gainer VS, Cheng SC, Cai T, Szolovits P, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP.

Aliment Pharmacol Ther. 2014 May;39(10):1136-42. doi: 10.1111/apt.12706. Epub 2014 Mar 18.

33.

Thromboprophylaxis is associated with reduced post-hospitalization venous thromboembolic events in patients with inflammatory bowel diseases.

Ananthakrishnan AN, Cagan A, Gainer VS, Cheng SC, Cai T, Scoville E, Konijeti GG, Szolovits P, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP.

Clin Gastroenterol Hepatol. 2014 Nov;12(11):1905-10. doi: 10.1016/j.cgh.2014.02.034. Epub 2014 Mar 12.

34.

Mortality and extraintestinal cancers in patients with primary sclerosing cholangitis and inflammatory bowel disease.

Ananthakrishnan AN, Cagan A, Gainer VS, Cheng SC, Cai T, Szolovits P, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP.

J Crohns Colitis. 2014 Sep;8(9):956-63. doi: 10.1016/j.crohns.2014.01.019. Epub 2014 Feb 19.

35.

Serum inflammatory markers and risk of colorectal cancer in patients with inflammatory bowel diseases.

Ananthakrishnan AN, Cheng SC, Cai T, Cagan A, Gainer VS, Szolovits P, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP.

Clin Gastroenterol Hepatol. 2014 Aug;12(8):1342-8.e1. doi: 10.1016/j.cgh.2013.12.030. Epub 2014 Jan 7.

36.

Stratification of risk for hospital admissions for injury related to fall: cohort study.

Castro VM, McCoy TH, Cagan A, Rosenfield HR, Murphy SN, Churchill SE, Kohane IS, Perlis RH.

BMJ. 2014 Oct 24;349:g5863. doi: 10.1136/bmj.g5863.

37.

Evolution of the pygmy phenotype: evidence of positive selection fro genome-wide scans in African, Asian, and Melanesian pygmies.

Migliano AB, Romero IG, Metspalu M, Leavesley M, Pagani L, Antao T, Huang DW, Sherman BT, Siddle K, Scholes C, Hudjashov G, Kaitokai E, Babalu A, Belatti M, Cagan A, Hopkinshaw B, Shaw C, Nelis M, Metspalu E, Mägi R, Lempicki RA, Villems R, Lahr MM, Kivisild T.

Hum Biol. 2013 Feb-Jun;85(1-3):251-84.

PMID:
24297229
38.

Modeling disease severity in multiple sclerosis using electronic health records.

Xia Z, Secor E, Chibnik LB, Bove RM, Cheng S, Chitnis T, Cagan A, Gainer VS, Chen PJ, Liao KP, Shaw SY, Ananthakrishnan AN, Szolovits P, Weiner HL, Karlson EW, Murphy SN, Savova GK, Cai T, Churchill SE, Plenge RM, Kohane IS, De Jager PL.

PLoS One. 2013 Nov 11;8(11):e78927. doi: 10.1371/journal.pone.0078927. eCollection 2013.

39.

Association between reduced plasma 25-hydroxy vitamin D and increased risk of cancer in patients with inflammatory bowel diseases.

Ananthakrishnan AN, Cheng SC, Cai T, Cagan A, Gainer VS, Szolovits P, Shaw SY, Churchill S, Karlson EW, Murphy SN, Kohane I, Liao KP.

Clin Gastroenterol Hepatol. 2014 May;12(5):821-7. doi: 10.1016/j.cgh.2013.10.011. Epub 2013 Oct 23.

40.

Lipid and lipoprotein levels and trend in rheumatoid arthritis compared to the general population.

Liao KP, Cai T, Gainer VS, Cagan A, Murphy SN, Liu C, Churchill S, Shaw SY, Kohane I, Solomon DH, Plenge RM, Karlson EW.

Arthritis Care Res (Hoboken). 2013 Dec;65(12):2046-50. doi: 10.1002/acr.22091.

41.

Great ape genetic diversity and population history.

Prado-Martinez J, Sudmant PH, Kidd JM, Li H, Kelley JL, Lorente-Galdos B, Veeramah KR, Woerner AE, O'Connor TD, Santpere G, Cagan A, Theunert C, Casals F, Laayouni H, Munch K, Hobolth A, Halager AE, Malig M, Hernandez-Rodriguez J, Hernando-Herraez I, Prüfer K, Pybus M, Johnstone L, Lachmann M, Alkan C, Twigg D, Petit N, Baker C, Hormozdiari F, Fernandez-Callejo M, Dabad M, Wilson ML, Stevison L, Camprubí C, Carvalho T, Ruiz-Herrera A, Vives L, Mele M, Abello T, Kondova I, Bontrop RE, Pusey A, Lankester F, Kiyang JA, Bergl RA, Lonsdorf E, Myers S, Ventura M, Gagneux P, Comas D, Siegismund H, Blanc J, Agueda-Calpena L, Gut M, Fulton L, Tishkoff SA, Mullikin JC, Wilson RK, Gut IG, Gonder MK, Ryder OA, Hahn BH, Navarro A, Akey JM, Bertranpetit J, Reich D, Mailund T, Schierup MH, Hvilsom C, Andrés AM, Wall JD, Bustamante CD, Hammer MF, Eichler EE, Marques-Bonet T.

Nature. 2013 Jul 25;499(7459):471-5. doi: 10.1038/nature12228. Epub 2013 Jul 3.

42.

Normalization of plasma 25-hydroxy vitamin D is associated with reduced risk of surgery in Crohn's disease.

Ananthakrishnan AN, Cagan A, Gainer VS, Cai T, Cheng SC, Savova G, Chen P, Szolovits P, Xia Z, De Jager PL, Shaw SY, Churchill S, Karlson EW, Kohane I, Plenge RM, Murphy SN, Liao KP.

Inflamm Bowel Dis. 2013 Aug;19(9):1921-7. doi: 10.1097/MIB.0b013e3182902ad9.

43.

Sauropod dinosaur osteoderms from the Late Cretaceous of Madagascar.

Curry Rogers K, D'Emic M, Rogers R, Vickaryous M, Cagan A.

Nat Commun. 2011 Nov 29;2:564. doi: 10.1038/ncomms1578.

PMID:
22127060
44.

Integrated explosive preconcentrator and electrochemical detection system for 2,4,6-trinitrotoluene (TNT) vapor.

Cizek K, Prior C, Thammakhet C, Galik M, Linker K, Tsui R, Cagan A, Wake J, La Belle J, Wang J.

Anal Chim Acta. 2010 Feb 19;661(1):117-21. doi: 10.1016/j.aca.2009.12.008. Epub 2009 Dec 16.

PMID:
20113724
45.

A hybrid nanosensor for TNT vapor detection.

Díaz Aguilar A, Forzani ES, Leright M, Tsow F, Cagan A, Iglesias RA, Nagahara LA, Amlani I, Tsui R, Tao NJ.

Nano Lett. 2010 Feb 10;10(2):380-4. doi: 10.1021/nl902382s.

PMID:
20041699
46.

Rapid and sensitive measurements of nitrate ester explosives using microchip electrophoresis with electrochemical detection.

Piccin E, Dossi N, Cagan A, Carrilho E, Wang J.

Analyst. 2009 Mar;134(3):528-32. doi: 10.1039/b813993h. Epub 2008 Dec 5.

PMID:
19238290
47.

Reliable, rapid and simple voltammetric detection of urea nitrate explosive.

Cagan A, Lu D, Cizek K, La Belle J, Wang J.

Analyst. 2008 May;133(5):585-7. doi: 10.1039/b800858b. Epub 2008 Feb 15.

PMID:
18427677
48.

"One-step" simplified electrochemical sensing of TATP based on its acid treatment.

Munoz RA, Lu D, Cagan A, Wang J.

Analyst. 2007 Jun;132(6):560-5. Epub 2007 Apr 30.

PMID:
17525813
49.

Highly sensitive electrochemical detection of trace liquid peroxide explosives at a Prussian-blue 'artificial-peroxidase' modified electrode.

Lu D, Cagan A, Munoz RA, Tangkuaram T, Wang J.

Analyst. 2006 Dec;131(12):1279-81. Epub 2006 Oct 12.

PMID:
17124534

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