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Items: 1 to 50 of 131

1.

Deletion of the glucocorticoid receptor chaperone FKBP51 prevents glucocorticoid-induced skin atrophy.

Baida G, Bhalla P, Yemelyanov A, Stechschulte LA, Shou W, Readhead B, Dudley JT, Sánchez ER, Budunova I.

Oncotarget. 2018 Oct 5;9(78):34772-34783. doi: 10.18632/oncotarget.26194. eCollection 2018 Oct 5.

2.

Integrative bioinformatics identifies postnatal lead (Pb) exposure disrupts developmental cortical plasticity.

Smith MR, Yevoo P, Sadahiro M, Austin C, Amarasiriwardena C, Awawda M, Arora M, Dudley JT, Morishita H.

Sci Rep. 2018 Nov 6;8(1):16388. doi: 10.1038/s41598-018-34592-4.

3.

Expression-based drug screening of neural progenitor cells from individuals with schizophrenia.

Readhead B, Hartley BJ, Eastwood BJ, Collier DA, Evans D, Farias R, He C, Hoffman G, Sklar P, Dudley JT, Schadt EE, Savić R, Brennand KJ.

Nat Commun. 2018 Oct 24;9(1):4412. doi: 10.1038/s41467-018-06515-4.

4.

CANDI: an R package and Shiny app for annotating radiographs and evaluating Computer-Aided Diagnosis.

Badgeley MA, Liu M, Glicksberg BS, Shervey M, Zech J, Shameer K, Lehar J, Oermann EK, McConnell MV, Snyder TM, Dudley JT.

Bioinformatics. 2018 Oct 10. doi: 10.1093/bioinformatics/bty855. [Epub ahead of print]

PMID:
30304439
5.

Integrative approach to sporadic Alzheimer's disease: deficiency of TYROBP in cerebral Aβ amyloidosis mouse normalizes clinical phenotype and complement subnetwork molecular pathology without reducing Aβ burden.

Haure-Mirande JV, Wang M, Audrain M, Fanutza T, Kim SH, Heja S, Readhead B, Dudley JT, Blitzer RD, Schadt EE, Zhang B, Gandy S, Ehrlich ME.

Mol Psychiatry. 2018 Oct 3. doi: 10.1038/s41380-018-0255-6. [Epub ahead of print]

PMID:
30283032
6.

Pharmacological risk factors associated with hospital readmission rates in a psychiatric cohort identified using prescriptome data mining.

Shameer K, Perez-Rodriguez MM, Bachar R, Li L, Johnson A, Johnson KW, Glicksberg BS, Smith MR, Readhead B, Scarpa J, Jebakaran J, Kovatch P, Lim S, Goodman W, Reich DL, Kasarskis A, Tatonetti NP, Dudley JT.

BMC Med Inform Decis Mak. 2018 Sep 14;18(Suppl 3):79. doi: 10.1186/s12911-018-0653-3.

7.

MetaCyto: A Tool for Automated Meta-analysis of Mass and Flow Cytometry Data.

Hu Z, Jujjavarapu C, Hughey JJ, Andorf S, Lee HC, Gherardini PF, Spitzer MH, Thomas CG, Campbell J, Dunn P, Wiser J, Kidd BA, Dudley JT, Nolan GP, Bhattacharya S, Butte AJ.

Cell Rep. 2018 Jul 31;24(5):1377-1388. doi: 10.1016/j.celrep.2018.07.003.

8.

Open chromatin profiling of human postmortem brain infers functional roles for non-coding schizophrenia loci.

Fullard JF, Giambartolomei C, Hauberg ME, Xu K, Voloudakis G, Shao Z, Bare C, Dudley JT, Mattheisen M, Robakis NK, Haroutunian V, Roussos P.

Hum Mol Genet. 2018 Jun 29. doi: 10.1093/hmg/ddy229. [Epub ahead of print] No abstract available.

PMID:
29982455
9.

The whole is greater than the sum of its parts: combining classical statistical and machine intelligence methods in medicine.

Shameer K, Johnson KW, Glicksberg BS, Dudley JT, Sengupta PP.

Heart. 2018 Jul;104(14):1228. doi: 10.1136/heartjnl-2018-313377. No abstract available.

PMID:
29945951
10.

Multiscale Analysis of Independent Alzheimer's Cohorts Finds Disruption of Molecular, Genetic, and Clinical Networks by Human Herpesvirus.

Readhead B, Haure-Mirande JV, Funk CC, Richards MA, Shannon P, Haroutunian V, Sano M, Liang WS, Beckmann ND, Price ND, Reiman EM, Schadt EE, Ehrlich ME, Gandy S, Dudley JT.

Neuron. 2018 Jul 11;99(1):64-82.e7. doi: 10.1016/j.neuron.2018.05.023. Epub 2018 Jun 21.

PMID:
29937276
11.
12.

A Network-Biology Informed Computational Drug Repositioning Strategy to Target Disease Risk Trajectories and Comorbidities of Peripheral Artery Disease.

Shameer K, Dow G, Glicksberg BS, Johnson KW, Ze Y, Tomlinson MS, Readhead B, Dudley JT, Kullo IJ.

AMIA Jt Summits Transl Sci Proc. 2018 May 18;2017:108-117. eCollection 2018.

13.

Artificial Intelligence in Cardiology.

Johnson KW, Torres Soto J, Glicksberg BS, Shameer K, Miotto R, Ali M, Ashley E, Dudley JT.

J Am Coll Cardiol. 2018 Jun 12;71(23):2668-2679. doi: 10.1016/j.jacc.2018.03.521. Review.

14.

Adaptive Landscape of Protein Variation in Human Exomes.

Patel R, Scheinfeldt LB, Sanderford MD, Lanham TR, Tamura K, Platt A, Glicksberg BS, Xu K, Dudley JT, Kumar S.

Mol Biol Evol. 2018 Aug 1;35(8):2015-2025. doi: 10.1093/molbev/msy107.

15.

The next generation of precision medicine: observational studies, electronic health records, biobanks and continuous monitoring.

Glicksberg BS, Johnson KW, Dudley JT.

Hum Mol Genet. 2018 May 1;27(R1):R56-R62. doi: 10.1093/hmg/ddy114.

PMID:
29659828
16.

Rapamycin Modulates Glucocorticoid Receptor Function, Blocks Atrophogene REDD1, and Protects Skin from Steroid Atrophy.

Lesovaya E, Agarwal S, Readhead B, Vinokour E, Baida G, Bhalla P, Kirsanov K, Yakubovskaya M, Platanias LC, Dudley JT, Budunova I.

J Invest Dermatol. 2018 Sep;138(9):1935-1944. doi: 10.1016/j.jid.2018.02.045. Epub 2018 Mar 27.

17.

Isolation and Identification of the Follicular Microbiome: Implications for Acne Research.

Hall JB, Cong Z, Imamura-Kawasawa Y, Kidd BA, Dudley JT, Thiboutot DM, Nelson AM.

J Invest Dermatol. 2018 Sep;138(9):2033-2040. doi: 10.1016/j.jid.2018.02.038. Epub 2018 Mar 13.

PMID:
29548797
18.

Machine learning in cardiovascular medicine: are we there yet?

Shameer K, Johnson KW, Glicksberg BS, Dudley JT, Sengupta PP.

Heart. 2018 Jul;104(14):1156-1164. doi: 10.1136/heartjnl-2017-311198. Epub 2018 Jan 19. Review.

PMID:
29352006
19.

Causal inference on electronic health records to assess blood pressure treatment targets: an application of the parametric g formula.

Johnson KW, Glicksberg BS, Hodos RA, Shameer K, Dudley JT.

Pac Symp Biocomput. 2018;23:180-191.

20.

Automated disease cohort selection using word embeddings from Electronic Health Records.

Glicksberg BS, Miotto R, Johnson KW, Shameer K, Li L, Chen R, Dudley JT.

Pac Symp Biocomput. 2018;23:145-156.

21.

Loss-of-function of neuroplasticity-related genes confers risk for human neurodevelopmental disorders.

Smith MR, Glicksberg BS, Li L, Chen R, Morishita H, Dudley JT.

Pac Symp Biocomput. 2018;23:68-79.

22.

Regulatory T-cell Genes Drive Altered Immune Microenvironment in Adult Solid Cancers and Allow for Immune Contextual Patient Subtyping.

Brouwer-Visser J, Cheng WY, Bauer-Mehren A, Maisel D, Lechner K, Andersson E, Dudley JT, Milletti F.

Cancer Epidemiol Biomarkers Prev. 2018 Jan;27(1):103-112. doi: 10.1158/1055-9965.EPI-17-0461. Epub 2017 Nov 13.

PMID:
29133367
23.

Predicting age by mining electronic medical records with deep learning characterizes differences between chronological and physiological age.

Wang Z, Li L, Glicksberg BS, Israel A, Dudley JT, Ma'ayan A.

J Biomed Inform. 2017 Dec;76:59-68. doi: 10.1016/j.jbi.2017.11.003. Epub 2017 Nov 4.

PMID:
29113935
24.

Uncovering exposures responsible for birth season - disease effects: a global study.

Boland MR, Parhi P, Li L, Miotto R, Carroll R, Iqbal U, Nguyen PA, Schuemie M, You SC, Smith D, Mooney S, Ryan P, Li YJ, Park RW, Denny J, Dudley JT, Hripcsak G, Gentine P, Tatonetti NP.

J Am Med Inform Assoc. 2017 Sep 28. doi: 10.1093/jamia/ocx105. [Epub ahead of print]

PMID:
29036387
25.

Dysregulation of miRNA-9 in a Subset of Schizophrenia Patient-Derived Neural Progenitor Cells.

Topol A, Zhu S, Hartley BJ, English J, Hauberg ME, Tran N, Rittenhouse CA, Simone A, Ruderfer DM, Johnson J, Readhead B, Hadas Y, Gochman PA, Wang YC, Shah H, Cagney G, Rapoport J, Gage FH, Dudley JT, Sklar P, Mattheisen M, Cotter D, Fang G, Brennand KJ.

Cell Rep. 2017 Sep 5;20(10):2525. doi: 10.1016/j.celrep.2017.08.073. No abstract available.

26.

Intracoronary Imaging, Cholesterol Efflux, and Transcriptomics after Intensive Statin Treatment in Diabetes.

Chamaria S, Johnson KW, Vengrenyuk Y, Baber U, Shameer K, Divaraniya AA, Glicksberg BS, Li L, Bhatheja S, Moreno P, Maehara A, Mehran R, Dudley JT, Narula J, Sharma SK, Kini AS.

Sci Rep. 2017 Aug 1;7(1):7001. doi: 10.1038/s41598-017-07029-7.

27.

Necroptosis activation in Alzheimer's disease.

Caccamo A, Branca C, Piras IS, Ferreira E, Huentelman MJ, Liang WS, Readhead B, Dudley JT, Spangenberg EE, Green KN, Belfiore R, Winslow W, Oddo S.

Nat Neurosci. 2017 Sep;20(9):1236-1246. doi: 10.1038/nn.4608. Epub 2017 Jul 24.

PMID:
28758999
28.

Artificial Intelligence-Based Assessment of Left Ventricular Filling Pressures From 2-Dimensional Cardiac Ultrasound Images.

Salem Omar AM, Shameer K, Narula S, Abdel Rahman MA, Rifaie O, Narula J, Dudley JT, Sengupta PP.

JACC Cardiovasc Imaging. 2018 Mar;11(3):509-510. doi: 10.1016/j.jcmg.2017.05.003. Epub 2017 Jul 19. No abstract available.

PMID:
28734920
29.

Enabling Precision Cardiology Through Multiscale Biology and Systems Medicine.

Johnson KW, Shameer K, Glicksberg BS, Readhead B, Sengupta PP, Björkegren JLM, Kovacic JC, Dudley JT.

JACC Basic Transl Sci. 2017 Jun 26;2(3):311-327. doi: 10.1016/j.jacbts.2016.11.010. eCollection 2017 Jun. Review.

30.

Integrative network analysis identifies novel drivers of pathogenesis and progression in newly diagnosed multiple myeloma.

Laganà A, Perumal D, Melnekoff D, Readhead B, Kidd BA, Leshchenko V, Kuo PY, Keats J, DeRome M, Yesil J, Auclair D, Lonial S, Chari A, Cho HJ, Barlogie B, Jagannath S, Dudley JT, Parekh S.

Leukemia. 2018 Jan;32(1):120-130. doi: 10.1038/leu.2017.197. Epub 2017 Jun 23.

PMID:
28642592
31.

Deficiency of TYROBP, an adapter protein for TREM2 and CR3 receptors, is neuroprotective in a mouse model of early Alzheimer's pathology.

Haure-Mirande JV, Audrain M, Fanutza T, Kim SH, Klein WL, Glabe C, Readhead B, Dudley JT, Blitzer RD, Wang M, Zhang B, Schadt EE, Gandy S, Ehrlich ME.

Acta Neuropathol. 2017 Nov;134(5):769-788. doi: 10.1007/s00401-017-1737-3. Epub 2017 Jun 13.

32.

Deep learning for healthcare: review, opportunities and challenges.

Miotto R, Wang F, Wang S, Jiang X, Dudley JT.

Brief Bioinform. 2017 May 6. doi: 10.1093/bib/bbx044. [Epub ahead of print]

PMID:
28481991
33.

Reply: Deep Learning With Unsupervised Feature in Echocardiographic Imaging.

Narula S, Shameer K, Salem Omar AM, Dudley JT, Sengupta PP.

J Am Coll Cardiol. 2017 Apr 25;69(16):2101-2102. doi: 10.1016/j.jacc.2017.01.062. No abstract available.

34.

Open chromatin profiling of human postmortem brain infers functional roles for non-coding schizophrenia loci.

Fullard JF, Giambartolomei C, Hauberg ME, Xu K, Voloudakis G, Shao Z, Bare C, Dudley JT, Mattheisen M, Robakis NK, Haroutunian V, Roussos P.

Hum Mol Genet. 2017 May 15;26(10):1942-1951. doi: 10.1093/hmg/ddx103.

35.

The Asthma Mobile Health Study, a large-scale clinical observational study using ResearchKit.

Chan YY, Wang P, Rogers L, Tignor N, Zweig M, Hershman SG, Genes N, Scott ER, Krock E, Badgeley M, Edgar R, Violante S, Wright R, Powell CA, Dudley JT, Schadt EE.

Nat Biotechnol. 2017 Apr;35(4):354-362. doi: 10.1038/nbt.3826. Epub 2017 Mar 13.

36.

Transcriptome-based repurposing of apigenin as a potential anti-fibrotic agent targeting hepatic stellate cells.

Hicks DF, Goossens N, Blas-García A, Tsuchida T, Wooden B, Wallace MC, Nieto N, Lade A, Redhead B, Cederbaum AI, Dudley JT, Fuchs BC, Lee YA, Hoshida Y, Friedman SL.

Sci Rep. 2017 Mar 3;7:42563. doi: 10.1038/srep42563.

37.

Systematic analyses of drugs and disease indications in RepurposeDB reveal pharmacological, biological and epidemiological factors influencing drug repositioning.

Shameer K, Glicksberg BS, Hodos R, Johnson KW, Badgeley MA, Readhead B, Tomlinson MS, O'Connor T, Miotto R, Kidd BA, Chen R, Ma'ayan A, Dudley JT.

Brief Bioinform. 2018 Jul 20;19(4):656-678. doi: 10.1093/bib/bbw136.

38.

Automated cell type discovery and classification through knowledge transfer.

Lee HC, Kosoy R, Becker CE, Dudley JT, Kidd BA.

Bioinformatics. 2017 Jun 1;33(11):1689-1695. doi: 10.1093/bioinformatics/btx054.

39.

Integrative Analysis of Disease Signatures Shows Inflammation Disrupts Juvenile Experience-Dependent Cortical Plasticity.

Smith MR, Burman P, Sadahiro M, Kidd BA, Dudley JT, Morishita H.

eNeuro. 2017 Jan 18;3(6). pii: ENEURO.0240-16.2016. doi: 10.1523/ENEURO.0240-16.2016. eCollection 2016 Nov-Dec.

40.

Novel Therapeutics Identification for Fibrosis in Renal Allograft Using Integrative Informatics Approach.

Li L, Greene I, Readhead B, Menon MC, Kidd BA, Uzilov AV, Wei C, Philippe N, Schroppel B, He JC, Chen R, Dudley JT, Murphy B.

Sci Rep. 2017 Jan 4;7:39487. doi: 10.1038/srep39487.

41.

Intracoronary Imaging, Cholesterol Efflux, and Transcriptomes After Intensive Statin Treatment: The YELLOW II Study.

Kini AS, Vengrenyuk Y, Shameer K, Maehara A, Purushothaman M, Yoshimura T, Matsumura M, Aquino M, Haider N, Johnson KW, Readhead B, Kidd BA, Feig JE, Krishnan P, Sweeny J, Milind M, Moreno P, Mehran R, Kovacic JC, Baber U, Dudley JT, Narula J, Sharma S.

J Am Coll Cardiol. 2017 Feb 14;69(6):628-640. doi: 10.1016/j.jacc.2016.10.029. Epub 2016 Oct 29.

42.

Genomic Analysis of Kidney Allograft Injury Identifies Hematopoietic Cell Kinase as a Key Driver of Renal Fibrosis.

Wei C, Li L, Menon MC, Zhang W, Fu J, Kidd B, Keung KL, Woytovich C, Greene I, Xiao W, Salem F, Yi Z, He JC, Dudley JT, Murphy B.

J Am Soc Nephrol. 2017 May;28(5):1385-1393. doi: 10.1681/ASN.2016020238. Epub 2016 Dec 7.

43.

PREDICTIVE MODELING OF HOSPITAL READMISSION RATES USING ELECTRONIC MEDICAL RECORD-WIDE MACHINE LEARNING: A CASE-STUDY USING MOUNT SINAI HEART FAILURE COHORT.

Shameer K, Johnson KW, Yahi A, Miotto R, Li LI, Ricks D, Jebakaran J, Kovatch P, Sengupta PP, Gelijns S, Moskovitz A, Darrow B, David DL, Kasarskis A, Tatonetti NP, Pinney S, Dudley JT.

Pac Symp Biocomput. 2017;22:276-287. doi: 10.1142/9789813207813_0027.

44.

EXPLORING THE REPRODUCIBILITY OF PROBABILISTIC CAUSAL MOLECULAR NETWORK MODELS.

Cohain A, Divaraniya AA, Zhu K, Scarpa JR, Kasarskis A, Zhu J, Chang R, Dudley JT, Schadt EE.

Pac Symp Biocomput. 2017;22:120-131. doi: 10.1142/9789813207813_0013.

45.

Machine-Learning Algorithms to Automate Morphological and Functional Assessments in 2D Echocardiography.

Narula S, Shameer K, Salem Omar AM, Dudley JT, Sengupta PP.

J Am Coll Cardiol. 2016 Nov 29;68(21):2287-2295. doi: 10.1016/j.jacc.2016.08.062.

46.

Transcriptional Profiling of Egg Allergy and Relationship to Disease Phenotype.

Kosoy R, Agashe C, Grishin A, Leung DY, Wood RA, Sicherer SH, Jones SM, Burks AW, Davidson WF, Lindblad RW, Dawson P, Merad M, Kidd BA, Dudley JT, Sampson HA, Berin MC.

PLoS One. 2016 Oct 27;11(10):e0163831. doi: 10.1371/journal.pone.0163831. eCollection 2016.

47.

Gene expression elucidates functional impact of polygenic risk for schizophrenia.

Fromer M, Roussos P, Sieberts SK, Johnson JS, Kavanagh DH, Perumal TM, Ruderfer DM, Oh EC, Topol A, Shah HR, Klei LL, Kramer R, Pinto D, Gümüş ZH, Cicek AE, Dang KK, Browne A, Lu C, Xie L, Readhead B, Stahl EA, Xiao J, Parvizi M, Hamamsy T, Fullard JF, Wang YC, Mahajan MC, Derry JM, Dudley JT, Hemby SE, Logsdon BA, Talbot K, Raj T, Bennett DA, De Jager PL, Zhu J, Zhang B, Sullivan PF, Chess A, Purcell SM, Shinobu LA, Mangravite LM, Toyoshiba H, Gur RE, Hahn CG, Lewis DA, Haroutunian V, Peters MA, Lipska BK, Buxbaum JD, Schadt EE, Hirai K, Roeder K, Brennand KJ, Katsanis N, Domenici E, Devlin B, Sklar P.

Nat Neurosci. 2016 Nov;19(11):1442-1453. doi: 10.1038/nn.4399. Epub 2016 Sep 26.

48.

Gold Nanoparticle Reprograms Pancreatic Tumor Microenvironment and Inhibits Tumor Growth.

Saha S, Xiong X, Chakraborty PK, Shameer K, Arvizo RR, Kudgus RA, Dwivedi SK, Hossen MN, Gillies EM, Robertson JD, Dudley JT, Urrutia RA, Postier RG, Bhattacharya R, Mukherjee P.

ACS Nano. 2016 Dec 27;10(12):10636-10651. doi: 10.1021/acsnano.6b02231. Epub 2016 Oct 19.

PMID:
27758098
49.

Influence of age on androgen deprivation therapy-associated Alzheimer's disease.

Nead KT, Gaskin G, Chester C, Swisher-McClure S, Dudley JT, Leeper NJ, Shah NH.

Sci Rep. 2016 Oct 18;6:35695. doi: 10.1038/srep35695.

50.

Replicating Cardiovascular Condition-Birth Month Associations.

Li L, Boland MR, Miotto R, Tatonetti NP, Dudley JT.

Sci Rep. 2016 Sep 14;6:33166. doi: 10.1038/srep33166.

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