| Year |
Citation |
Score |
| 2021 |
Vunikili R, Glicksberg BS, Johnson KW, Dudley JT, Subramanian L, Shameer K. Predictive Modelling of Susceptibility to Substance Abuse, Mortality and Drug-Drug Interactions in Opioid Patients. Frontiers in Artificial Intelligence. 4: 742723. PMID 34957391 DOI: 10.3389/frai.2021.742723 |
0.751 |
|
| 2021 |
De Freitas JK, Johnson KW, Golden E, Nadkarni GN, Dudley JT, Bottinger EP, Glicksberg BS, Miotto R. Phe2vec: Automated disease phenotyping based on unsupervised embeddings from electronic health records. Patterns (New York, N.Y.). 2: 100337. PMID 34553174 DOI: 10.1016/j.patter.2021.100337 |
0.781 |
|
| 2021 |
Hodos RA, Strub MD, Ramachandran S, Meleshkevitch EA, Boudko DY, Bridges RJ, Dudley JT, McCray PB. Integrative chemogenomic analysis identifies small molecules that partially rescue ΔF508-CFTR for cystic fibrosis. Cpt: Pharmacometrics & Systems Pharmacology. 10: 500-510. PMID 33934548 DOI: 10.1002/psp4.12626 |
0.796 |
|
| 2020 |
Hodos RA, Strub MD, Ramachandran S, Li L, McCray PB, Dudley JT. Integrative genomic meta-analysis reveals novel molecular insights into cystic fibrosis and ΔF508-CFTR rescue. Scientific Reports. 10: 20553. PMID 33239626 DOI: 10.1038/s41598-020-76347-0 |
0.786 |
|
| 2020 |
Sengupta PP, Shrestha S, Berthon B, Messas E, Donal E, Tison GH, Min JK, D'hooge J, Voigt JU, Dudley J, Verjans JW, Shameer K, Johnson K, Lovstakken L, Tabassian M, et al. Proposed Requirements for Cardiovascular Imaging-Related Machine Learning Evaluation (PRIME): A Checklist: Reviewed by the American College of Cardiology Healthcare Innovation Council. Jacc. Cardiovascular Imaging. 13: 2017-2035. PMID 32912474 DOI: 10.1016/J.Jcmg.2020.07.015 |
0.631 |
|
| 2020 |
Landi I, Glicksberg BS, Lee HC, Cherng S, Landi G, Danieletto M, Dudley JT, Furlanello C, Miotto R. Deep representation learning of electronic health records to unlock patient stratification at scale. Npj Digital Medicine. 3: 96. PMID 32699826 DOI: 10.1038/s41746-020-0301-z |
0.69 |
|
| 2020 |
Lee HC, Ichikawa O, Glicksberg BS, Divaraniya AA, Becker CE, Agarwal P, Dudley JT. Identification of therapeutic targets from genetic association studies using hierarchical component analysis. Biodata Mining. 13: 6. PMID 32565911 DOI: 10.1186/S13040-020-00216-9 |
0.779 |
|
| 2020 |
Smith MR, Yevoo P, Sadahiro M, Readhead B, Kidd B, Dudley JT, Morishita H. Systematic Analysis of Environmental Chemicals That Dysregulate Critical Period Plasticity-Related Gene Expression Reveals Common Pathways That Mimic Immune Response to Pathogen. Neural Plasticity. 2020: 1673897. PMID 32454811 DOI: 10.1155/2020/1673897 |
0.766 |
|
| 2020 |
Chaudhry FF, Danieletto M, Golden E, Scelza J, Botwin G, Shervey M, De Freitas JK, Paranjpe I, Nadkarni GN, Miotto R, Glowe P, Stock G, Percha B, Zimmerman N, Dudley JT, et al. Sleep in the Natural Environment: A Pilot Study. Sensors (Basel, Switzerland). 20. PMID 32138289 DOI: 10.3390/S20051378 |
0.61 |
|
| 2020 |
Miotto R, Percha BL, Glicksberg BS, Lee HC, Cruz L, Dudley JT, Nabeel I. Identifying Acute Low Back Pain Episodes in Primary Care Practice From Clinical Notes: Observational Study. Jmir Medical Informatics. 8: e16878. PMID 32130159 DOI: 10.2196/16878 |
0.642 |
|
| 2019 |
Russak AJ, Johnson KW, Halperin JL, Percha B, Dudley JT. Racial and Sex Differences in Stroke Risk in Patients With Atrial Fibrillation. Journal of the American College of Cardiology. 74: 3069-3070. PMID 31865975 DOI: 10.1016/j.jacc.2019.10.018 |
0.557 |
|
| 2019 |
Peña CJ, Smith M, Ramakrishnan A, Cates HM, Bagot RC, Kronman HG, Patel B, Chang AB, Purushothaman I, Dudley J, Morishita H, Shen L, Nestler EJ. Early life stress alters transcriptomic patterning across reward circuitry in male and female mice. Nature Communications. 10: 5098. PMID 31704941 DOI: 10.1038/S41467-019-13085-6 |
0.758 |
|
| 2019 |
Glicksberg BS, Amadori L, Akers NK, Sukhavasi K, Franzén O, Li L, Belbin GM, Ayers KL, Shameer K, Badgeley MA, Johnson KW, Readhead B, Darrow BJ, Kenny EE, Betsholtz C, ... ... Dudley JT, et al. Correction to: Integrative analysis of loss-of-function variants in clinical and genomic data reveals novel genes associated with cardiovascular traits. Bmc Medical Genomics. 12: 154. PMID 31684948 DOI: 10.1186/s12920-019-0573-9 |
0.782 |
|
| 2019 |
Glicksberg BS, Amadori L, Akers NK, Sukhavasi K, Franzén O, Li L, Belbin GM, Akers KL, Shameer K, Badgeley MA, Johnson KW, Readhead B, Darrow BJ, Kenny EE, Betsholtz C, ... ... Dudley JT, et al. Integrative analysis of loss-of-function variants in clinical and genomic data reveals novel genes associated with cardiovascular traits. Bmc Medical Genomics. 12: 108. PMID 31345219 DOI: 10.1186/S12920-019-0542-3 |
0.795 |
|
| 2019 |
Badgeley MA, Zech JR, Oakden-Rayner L, Glicksberg BS, Liu M, Gale W, McConnell MV, Percha B, Snyder TM, Dudley JT. Deep learning predicts hip fracture using confounding patient and healthcare variables. Npj Digital Medicine. 2: 31. PMID 31304378 DOI: 10.1038/s41746-019-0105-1 |
0.64 |
|
| 2019 |
Xu K, Kosoy R, Shameer K, Kumar S, Liu L, Readhead B, Belbin GM, Lee HC, Chen R, Dudley JT. Genome-wide analysis indicates association between heterozygote advantage and healthy aging in humans. Bmc Genetics. 20: 52. PMID 31266448 DOI: 10.1186/S12863-019-0758-4 |
0.302 |
|
| 2019 |
Glicksberg BS, Oskotsky B, Thangaraj PM, Giangreco N, Badgeley MA, Johnson KW, Datta D, Rudrapatna V, Rappoport N, Shervey MM, Miotto R, Goldstein TC, Rutenberg E, Frazier R, Lee N, ... ... Dudley JT, et al. PatientExploreR: an extensible application for dynamic visualization of patient clinical history from Electronic Health Records in the OMOP Common Data Model Title. Bioinformatics (Oxford, England). PMID 31214700 DOI: 10.1093/Bioinformatics/Btz409 |
0.775 |
|
| 2019 |
Liu AC, Patel K, Vunikili RD, Johnson KW, Abdu F, Belman SK, Glicksberg BS, Tandale P, Fontanez R, Mathew OK, Kasarskis A, Mukherjee P, Subramanian L, Dudley JT, Shameer K. Sepsis in the era of data-driven medicine: personalizing risks, diagnoses, treatments and prognoses. Briefings in Bioinformatics. PMID 31190075 DOI: 10.1093/Bib/Bbz059 |
0.779 |
|
| 2019 |
Johnson KW, Glicksberg BS, Shameer K, Vengrenyuk Y, Krittanawong C, Russak AJ, Sharma SK, Narula JN, Dudley JT, Kini AS. A transcriptomic model to predict increase in fibrous cap thickness in response to high-dose statin treatment: Validation by serial intracoronary OCT imaging. Ebiomedicine. PMID 31126891 DOI: 10.1016/J.Ebiom.2019.05.007 |
0.754 |
|
| 2019 |
Ichikawa O, Glicksberg BS, Genes N, Kidd BA, Li L, Dudley JT. Lyme Disease Patient Trajectories Learned from Electronic Medical Data for Stratification of Disease Risk and Therapeutic Response. Scientific Reports. 9: 4460. PMID 30872757 DOI: 10.1038/S41598-019-41128-X |
0.691 |
|
| 2019 |
Johnson KW, De Freitas JK, Glicksberg BS, Bobe JR, Dudley JT. Evaluation of patient re-identification using laboratory test orders and mitigation via latent space variables. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 24: 415-426. PMID 30864342 |
0.757 |
|
| 2019 |
Glicksberg BS, Li L, Chen R, Dudley J, Chen B. Leveraging Big Data to Transform Drug Discovery. Methods in Molecular Biology (Clifton, N.J.). 1939: 91-118. PMID 30848458 DOI: 10.1007/978-1-4939-9089-4_6 |
0.718 |
|
| 2019 |
Lagana A, Bhalla S, Aleman A, Mei AH, Leshchenko V, Landesman Y, Melnekoff D, Beno I, Madduri D, Richter JR, Chari A, Cho HJ, Jagannath S, Dudley J, Parekh S. A Machine Learning Approach Identifies a 30-Gene Model That Predicts Sensitivity to Selinexor in Multiple Myeloma Blood. 134: 3101-3101. DOI: 10.1182/Blood-2019-130753 |
0.317 |
|
| 2018 |
Vashisht R, Jung K, Schuler A, Banda JM, Park RW, Jin S, Li L, Dudley JT, Johnson KW, Shervey MM, Xu H, Wu Y, Natrajan K, Hripcsak G, Jin P, et al. Association of Hemoglobin A1c Levels With Use of Sulfonylureas, Dipeptidyl Peptidase 4 Inhibitors, and Thiazolidinediones in Patients With Type 2 Diabetes Treated With Metformin: Analysis From the Observational Health Data Sciences and Informatics Initiative. Jama Network Open. 1: e181755. PMID 30646124 DOI: 10.1001/jamanetworkopen.2018.1755 |
0.597 |
|
| 2018 |
Di Narzo AF, Brodmerkel C, Telesco SE, Argmann C, Peters LA, Li K, Kidd B, Dudley J, Cho J, Schadt EE, Kasarskis A, Dobrin R, Hao K. High Throughput Identification of Plasma Proteomic Signature of Inflammatory Bowel Disease. Journal of Crohn's & Colitis. PMID 30445421 DOI: 10.1093/Ecco-Jcc/Jjy190 |
0.306 |
|
| 2018 |
Smith MR, Readhead B, Dudley JT, Morishita H. Critical period plasticity-related transcriptional aberrations in schizophrenia and bipolar disorder. Schizophrenia Research. PMID 30442475 DOI: 10.1016/J.Schres.2018.10.021 |
0.771 |
|
| 2018 |
Smith MR, Yevoo P, Sadahiro M, Austin C, Amarasiriwardena C, Awawda M, Arora M, Dudley JT, Morishita H. Integrative bioinformatics identifies postnatal lead (Pb) exposure disrupts developmental cortical plasticity. Scientific Reports. 8: 16388. PMID 30401819 DOI: 10.1038/S41598-018-34592-4 |
0.774 |
|
| 2018 |
Badgeley MA, Liu M, Glicksberg BS, Shervey M, Zech J, Shameer K, Lehar J, Oermann EK, McConnell MV, Snyder TM, Dudley JT. CANDI: an R package and Shiny app for annotating radiographs and evaluating Computer-Aided Diagnosis. Bioinformatics (Oxford, England). PMID 30304439 DOI: 10.1093/Bioinformatics/Bty855 |
0.629 |
|
| 2018 |
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, ... ... Dudley JT, et al. Pharmacological risk factors associated with hospital readmission rates in a psychiatric cohort identified using prescriptome data mining. Bmc Medical Informatics and Decision Making. 18: 79. PMID 30255805 DOI: 10.1186/S12911-018-0653-3 |
0.763 |
|
| 2018 |
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, et al. MetaCyto: A Tool for Automated Meta-analysis of Mass and Flow Cytometry Data. Cell Reports. 24: 1377-1388. PMID 30067990 DOI: 10.1016/J.Celrep.2018.07.003 |
0.579 |
|
| 2018 |
Shameer K, Johnson KW, Glicksberg BS, Dudley JT, Sengupta PP. The whole is greater than the sum of its parts: combining classical statistical and machine intelligence methods in medicine. Heart (British Cardiac Society). 104: 1228. PMID 29945951 DOI: 10.1136/Heartjnl-2018-313377 |
0.746 |
|
| 2018 |
Johnson KW, Dudley JT, Bobe JR. A 72-Year-Old Patient with Longstanding, Untreated Familial Hypercholesterolemia but no Coronary Artery Calcification: A Case Report. Cureus. 10: e2452. PMID 29888156 DOI: 10.7759/cureus.2452 |
0.586 |
|
| 2018 |
Shameer K, Dow G, Glicksberg BS, Johnson KW, Ze Y, Tomlinson MS, Readhead B, Dudley JT, Kullo IJ. A Network-Biology Informed Computational Drug Repositioning Strategy to Target Disease Risk Trajectories and Comorbidities of Peripheral Artery Disease. Amia Joint Summits On Translational Science Proceedings. Amia Joint Summits On Translational Science. 2017: 108-117. PMID 29888052 |
0.785 |
|
| 2018 |
Johnson KW, Torres Soto J, Glicksberg BS, Shameer K, Miotto R, Ali M, Ashley E, Dudley JT. Artificial Intelligence in Cardiology. Journal of the American College of Cardiology. 71: 2668-2679. PMID 29880128 DOI: 10.1016/J.Jacc.2018.03.521 |
0.752 |
|
| 2018 |
Patel R, Scheinfeldt LB, Sanderford MD, Lanham TR, Tamura K, Platt A, Glicksberg BS, Xu K, Dudley JT, Kumar S. Adaptive landscape of protein variation in human exomes. Molecular Biology and Evolution. PMID 29846678 DOI: 10.1093/Molbev/Msy107 |
0.652 |
|
| 2018 |
Polubriaginof FCG, Vanguri R, Quinnies K, Belbin GM, Yahi A, Salmasian H, Lorberbaum T, Nwankwo V, Li L, Shervey MM, Glowe P, Ionita-Laza I, Simmerling M, Hripcsak G, Bakken S, ... ... Dudley J, et al. Disease Heritability Inferred from Familial Relationships Reported in Medical Records. Cell. PMID 29779949 DOI: 10.1016/J.Cell.2018.04.032 |
0.368 |
|
| 2018 |
Glicksberg BS, Johnson KW, Dudley JT. The next generation of precision medicine: observational studies, electronic health records, biobanks, and continuous monitoring. Human Molecular Genetics. PMID 29659828 DOI: 10.1093/Hmg/Ddy114 |
0.765 |
|
| 2018 |
Shameer K, Johnson KW, Glicksberg BS, Dudley JT, Sengupta PP. Machine learning in cardiovascular medicine: are we there yet? Heart (British Cardiac Society). PMID 29352006 DOI: 10.1136/Heartjnl-2017-311198 |
0.752 |
|
| 2018 |
Johnson KW, Glicksberg BS, Hodos RA, Shameer K, Dudley JT. Causal inference on electronic health records to assess blood pressure treatment targets: an application of the parametric g formula. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 23: 180-191. PMID 29218880 |
0.76 |
|
| 2018 |
Glicksberg BS, Miotto R, Johnson KW, Shameer K, Li L, Chen R, Dudley JT. Automated disease cohort selection using word embeddings from Electronic Health Records. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 23: 145-156. PMID 29218877 |
0.787 |
|
| 2018 |
Smith MR, Glicksberg BS, Li L, Chen R, Morishita H, Dudley JT. Loss-of-function of neuroplasticity-related genes confers risk for human neurodevelopmental disorders. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 23: 68-79. PMID 29218870 |
0.783 |
|
| 2018 |
Hodos R, Zhang P, Lee HC, Duan Q, Wang Z, Clark NR, Ma'ayan A, Wang F, Kidd B, Hu J, Sontag D, Dudley J. Cell-specific prediction and application of drug-induced gene expression profiles. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 23: 32-43. PMID 29218867 |
0.786 |
|
| 2018 |
Lagana A, Park S, Edwards D, Leshchenko V, Crochiere M, Landesman Y, Melnekoff D, Beno I, Perumal D, Madduri D, Richter J, Chari A, Cho HJ, Barlogie B, Jagannath S, ... Dudley J, et al. E2F1 Is a Biomarker of Selinexor Resistance in Relapsed/Refractory Multiple Myeloma Patients Blood. 132: 3216-3216. DOI: 10.1182/Blood-2018-99-116500 |
0.322 |
|
| 2018 |
Johnson K, Khader S, Glicksberg BS, Vengrenyuk Y, Divaraniya AA, Li L, Sharma SK, Narula J, Dudley J, Kini AS. A MACHINE LEARNING MODEL PREDICTS INDIVIDUALS WHO IMPROVE CORONARY ARTERY PLAQUE FIBROUS CAP THICKNESS FOLLOWING HIGH-INTENSITY STATIN THERAPY Journal of the American College of Cardiology. 71: A1348. DOI: 10.1016/S0735-1097(18)31889-8 |
0.761 |
|
| 2017 |
Johnson KW, Shameer K, Glicksberg BS, Readhead B, Sengupta PP, Björkegren JLM, Kovacic JC, Dudley JT. Enabling Precision Cardiology Through Multiscale Biology and Systems Medicine. Jacc. Basic to Translational Science. 2: 311-327. PMID 30062151 DOI: 10.1016/J.Jacbts.2016.11.010 |
0.788 |
|
| 2017 |
Wang Z, Li L, Glicksberg BS, Israel A, Dudley JT, Ma'ayan A. Predicting Age by Mining Electronic Medical Records with Deep Learning Characterizes Differences between Chronological and Physiological Age. Journal of Biomedical Informatics. PMID 29113935 DOI: 10.1016/J.Jbi.2017.11.003 |
0.648 |
|
| 2017 |
Scott SA, Obeng AO, Botton MR, Yang Y, Scott ER, Ellis SB, Wallsten R, Kaszemacher T, Zhou X, Chen R, Nicoletti P, Naik H, Kenny EE, Vega A, Waite E, ... ... Dudley J, et al. Institutional profile: translational pharmacogenomics at the Icahn School of Medicine at Mount Sinai. Pharmacogenomics. PMID 28982267 DOI: 10.2217/Pgs-2017-0137 |
0.312 |
|
| 2017 |
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, et al. Intracoronary Imaging, Cholesterol Efflux, and Transcriptomics after Intensive Statin Treatment in Diabetes. Scientific Reports. 7: 7001. PMID 28765529 DOI: 10.1038/S41598-017-07029-7 |
0.763 |
|
| 2017 |
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. Systematic analyses of drugs and disease indications in RepurposeDB reveal pharmacological, biological and epidemiological factors influencing drug repositioning. Briefings in Bioinformatics. PMID 28200013 DOI: 10.1093/Bib/Bbw136 |
0.781 |
|
| 2017 |
Di Narzo AF, Telesco SE, Brodmerkel C, Argmann C, Peters LA, Li K, Kidd B, Dudley J, Cho J, Schadt EE, Kasarskis A, Dobrin R, Hao K. High-Throughput Characterization of Blood Serum Proteomics of IBD Patients with Respect to Aging and Genetic Factors. Plos Genetics. 13: e1006565. PMID 28129359 DOI: 10.1371/Journal.Pgen.1006565 |
0.35 |
|
| 2017 |
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. Novel Therapeutics Identification for Fibrosis in Renal Allograft Using Integrative Informatics Approach. Scientific Reports. 7: 39487. PMID 28051114 DOI: 10.1038/Srep39487 |
0.341 |
|
| 2017 |
Melnekoff D, Lagana A, Hamou W, Allette K, Beno I, Leshchenko V, Perumal D, Madduri D, Chari A, Cho HJ, Barlogie B, Jagannath S, Dudley J, Sebra R, Parekh S. Single-Cell RNA Sequencing Reveals Distinct Transcriptomic Profiles of Multiple Myeloma with Implications for Personalized Medicine Blood. 130: 62-62. DOI: 10.1182/Blood.V130.Suppl_1.62.62 |
0.338 |
|
| 2017 |
Bhatheja S, Johnson K, Vengrenyuk Y, Khader S, Yoshimura T, Benjamin G, Maehara A, Purushothaman M, Mahajan M, Moreno P, Mehran R, Baber U, Dudley J, Narula J, Sharma S, et al. ATHEROSCLEROTIC PLAQUE MORPHOLOGY IN RESPONSE TO HIGH INTENSITY LIPID LOWERING THERAPY BY MULTIMODALITY IMAGING AMONG WOMEN AND MEN: A YELLOW-II SUB-STUDY Journal of the American College of Cardiology. 69: 1056. DOI: 10.1016/S0735-1097(17)34445-5 |
0.591 |
|
| 2017 |
Kini AS, Shameer K, Vengrenyuk Y, Glicksberg B, Johnson K, Divaraniya A, Readhead B, Purushothaman M, Kidd B, Sharma S, Narula J, Dudley J. INVESTIGATION OF NOVEL DRUG TARGETS IMPLICATED IN HIGH-DOSE STATIN THERAPY FROM YELLOW-II TRIAL: TOWARDS PERSONALIZED LIPID LOWERING THERAPIES Journal of the American College of Cardiology. 69: 977. DOI: 10.1016/S0735-1097(17)34366-8 |
0.758 |
|
| 2017 |
Yadav KK, Shameer K, Yadav SS, Elaiho C, Li L, O'Connor J, Glicksberg B, Jhonson K, Badgeley M, Readhead B, Kidd B, Kasarskis A, Dudley J, Tewari A. MP14-08 A MULTISCALE SURVEY OF INFLAMMATORY DISEASES AND PROSTATE ONCOPHENOTYPES. Journal of Urology. 197. DOI: 10.1016/J.Juro.2017.02.472 |
0.651 |
|
| 2016 |
Duan Q, Reid SP, Clark NR, Wang Z, Fernandez NF, Rouillard AD, Readhead B, Tritsch SR, Hodos R, Hafner M, Niepel M, Sorger PK, Dudley JT, Bavari S, Panchal RG, et al. L1000CDS(2): LINCS L1000 characteristic direction signatures search engine. Npj Systems Biology and Applications. 2. PMID 28413689 DOI: 10.1038/npjsba.2016.15 |
0.775 |
|
| 2016 |
Smith MR, Burman P, Sadahiro M, Kidd BA, Dudley JT, Morishita H. Integrative Analysis of Disease Signatures Shows Inflammation Disrupts Juvenile Experience-Dependent Cortical Plasticity. Eneuro. 3. PMID 28101530 DOI: 10.1523/ENEURO.0240-16.2016 |
0.782 |
|
| 2016 |
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, ... ... Dudley JT, et al. Intracoronary Imaging, Cholesterol Efflux, and Transcriptomes after Intensive Statin Treatment: The YELLOW II study. Journal of the American College of Cardiology. PMID 27989886 DOI: 10.1016/J.Jacc.2016.10.029 |
0.58 |
|
| 2016 |
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, ... ... Dudley JT, et al. PREDICTIVE MODELING OF HOSPITAL READMISSION RATES USING ELECTRONIC MEDICAL RECORD-WIDE MACHINE LEARNING: A CASE-STUDY USING MOUNT SINAI HEART FAILURE COHORT. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 22: 276-287. PMID 27896982 |
0.608 |
|
| 2016 |
Cohain A, Divaraniya AA, Zhu K, Scarpa JR, Kasarskis A, Zhu J, Chang R, Dudley JT, Schadt EE. EXPLORING THE REPRODUCIBILITY OF PROBABILISTIC CAUSAL MOLECULAR NETWORK MODELS. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 22: 120-131. PMID 27896968 DOI: 10.1142/9789813207813_0013 |
0.766 |
|
| 2016 |
Di Narzo AF, Peters LA, Argmann C, Stojmirovic A, Perrigoue J, Li K, Telesco S, Kidd B, Walker J, Dudley J, Cho J, Schadt EE, Kasarskis A, Curran M, Dobrin R, et al. Blood and Intestine eQTLs from an Anti-TNF-Resistant Crohn's Disease Cohort Inform IBD Genetic Association Loci. Clinical and Translational Gastroenterology. 7: e177. PMID 27336838 DOI: 10.1038/Ctg.2016.34 |
0.345 |
|
| 2016 |
Glicksberg BS, Li L, Badgeley MA, Shameer K, Kosoy R, Beckmann ND, Pho N, Hakenberg J, Ma M, Ayers KL, Hoffman GE, Dan Li S, Schadt EE, Patel CJ, Chen R, ... Dudley JT, et al. Comparative analyses of population-scale phenomic data in electronic medical records reveal race-specific disease networks. Bioinformatics (Oxford, England). 32: i101-i110. PMID 27307606 DOI: 10.1093/Bioinformatics/Btw282 |
0.69 |
|
| 2016 |
Uzilov AV, Ding W, Fink MY, Antipin Y, Brohl AS, Davis C, Lau CY, Pandya C, Shah H, Kasai Y, Powell J, Micchelli M, Castellanos R, Zhang Z, Linderman M, ... ... Dudley JT, et al. Development and clinical application of an integrative genomic approach to personalized cancer therapy. Genome Medicine. 8: 62. PMID 27245685 DOI: 10.1186/S13073-016-0313-0 |
0.676 |
|
| 2016 |
Li L, Lee NJ, Glicksberg BS, Radbill BD, Dudley JT. Data-Driven Identification of Risk Factors of Patient Satisfaction at a Large Urban Academic Medical Center. Plos One. 11: e0156076. PMID 27228056 DOI: 10.1371/Journal.Pone.0156076 |
0.664 |
|
| 2016 |
Hodos RA, Kidd BA, Shameer K, Readhead BP, Dudley JT. In silico methods for drug repurposing and pharmacology. Wiley Interdisciplinary Reviews. Systems Biology and Medicine. PMID 27080087 DOI: 10.1002/Wsbm.1337 |
0.795 |
|
| 2016 |
Badgeley MA, Shameer K, Glicksberg BS, Tomlinson MS, Levin MA, McCormick PJ, Kasarskis A, Reich DL, Dudley JT. EHDViz: clinical dashboard development using open-source technologies. Bmj Open. 6: e010579. PMID 27013597 DOI: 10.1136/Bmjopen-2015-010579 |
0.643 |
|
| 2016 |
Shameer K, Badgeley MA, Miotto R, Glicksberg BS, Morgan JW, Dudley JT. Translational bioinformatics in the era of real-time biomedical, health care and wellness data streams. Briefings in Bioinformatics. PMID 26876889 DOI: 10.1093/Bib/Bbv118 |
0.666 |
|
| 2016 |
Perumal D, Lagana' A, Melnekoff D, Readhead B, Kidd B, Leshchenko VV, Kuo P, Yesil J, Derome M, Auclair D, Madduri D, Chari A, Cho HJ, Barlogie B, Jagannath S, ... Dudley J, et al. Network Modeling Reveals CDC42BPA and CLEC11A As Novel Driver Genes of t(4; 14) Multiple Myeloma Blood. 128: 802-802. DOI: 10.1182/Blood.V128.22.802.802 |
0.354 |
|
| 2016 |
Lagana A, Perumal D, Melnekoff D, Readhead B, Kidd B, Leshchenko VV, Kuo P, Keats JJ, Derome M, Yesil J, Auclair D, Madduri D, Chari A, Cho HJ, Barlogie B, ... ... Dudley J, et al. Integrative Network Analysis of Newly Diagnosed Multiple Myeloma Identifies a Novel RNA-Seq Based High Riskgene Signature Blood. 128: 3285-3285. DOI: 10.1182/Blood.V128.22.3285.3285 |
0.378 |
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| 2016 |
Salem Omar AM, Shameer K, Narula S, Abdel-Rahman MA, Rifaie O, Narula J, Dudley J, Sengupta P. IMAGING BASED BIG DATA AND MACHINE LEARNING FRAMEWORK FOR RAPID PHENOTYPING OF LEFT VENTRICULAR DIASTOLIC FUNCTION Journal of the American College of Cardiology. 67: 1614. DOI: 10.1016/S0735-1097(16)31615-1 |
0.306 |
|
| 2015 |
Li L, Cheng WY, Glicksberg BS, Gottesman O, Tamler R, Chen R, Bottinger EP, Dudley JT. Identification of type 2 diabetes subgroups through topological analysis of patient similarity. Science Translational Medicine. 7: 311ra174. PMID 26511511 DOI: 10.1126/Scitranslmed.Aaa9364 |
0.716 |
|
| 2015 |
Glicksberg BS, Li L, Cheng WY, Shameer K, Hakenberg J, Castellanos R, Ma M, Shi L, Shah H, Dudley JT, Chen R. An integrative pipeline for multi-modal discovery of disease relationships. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 407-18. PMID 25592600 |
0.72 |
|
| 2015 |
Lagana A, Readhead B, Perumal D, Kidd B, Cho HJ, Chari A, Jagannath S, Dudley J, Parekh S. Towards a Network-Based Molecular Taxonomy of Newly Diagnosed Multiple Myeloma Blood. 126: 840-840. DOI: 10.1182/Blood.V126.23.840.840 |
0.368 |
|
| 2015 |
Perumal D, Lagana' A, Rubinsteyn A, Finnigan JP, Kuo P, Leshchenko VV, Chari A, Cho HJ, Jagannath S, Dudley J, Hammerbacher J, Schadt E, Bhardwaj N, Parekh S. Patient-Specific Mutation-Derived Tumor Antigens As Targets for Cancer Immunotherapy in Multiple Myeloma Blood. 126: 1851-1851. DOI: 10.1182/Blood.V126.23.1851.1851 |
0.303 |
|
| 2014 |
Li L, Ruau DJ, Patel CJ, Weber SC, Chen R, Tatonetti NP, Dudley JT, Butte AJ. Disease risk factors identified through shared genetic architecture and electronic medical records. Science Translational Medicine. 6: 234ra57. PMID 24786325 DOI: 10.1126/Scitranslmed.3007191 |
0.665 |
|
| 2014 |
Avitzur Y, Guo C, Mastropaolo LA, Bahrami E, Chen H, Zhao Z, Elkadri A, Dhillon S, Murchie R, Fattouh R, Huynh H, Walker JL, Wales PW, Cutz E, Kakuta Y, ... Dudley J, et al. Mutations in tetratricopeptide repeat domain 7A result in a severe form of very early onset inflammatory bowel disease. Gastroenterology. 146: 1028-39. PMID 24417819 DOI: 10.1053/J.Gastro.2014.01.015 |
0.303 |
|
| 2014 |
Perumal D, Leshchenko VV, Kuo P, Jiang Z, Readhead B, Eden C, Athaluri Divakar SK, Zhang W, Cho HJ, Chari A, Reddy M, Reddy EP, Dudley J, Jagannath S, Parekh S. Weighted Gene Co-Expression Network Analysis (WGCNA) Identifies Highly Proliferative Myeloma Subgroup Responsive to CDK4/ARK5 Inhibition Blood. 124: 3445-3445. DOI: 10.1182/Blood.V124.21.3445.3445 |
0.31 |
|
| 2014 |
Readhead B, Kania K, Eden C, Perumal D, Gidwani V, Chari A, Cho HJ, Jagannath S, Kuo P, Kidd B, Dudley J, Parekh S. An Integrative Network Approach for Genomic Discovery and Personalized Therapy in Relapsed Multiple Myeloma Blood. 124: 3426-3426. DOI: 10.1182/Blood.V124.21.3426.3426 |
0.37 |
|
| 2014 |
Li L, Readhead B, Chen R, Zhang W, Murphy B, Dudley J. An Integrative Informatics Approach to Identify Drug Targets and Therapies for Chronic Allograft Nephropathy After Kidney Transplantation.: Abstract# 2928 Transplantation. 98: 230. DOI: 10.1097/00007890-201407151-00683 |
0.387 |
|
| 2013 |
Readhead B, Dudley J. Translational Bioinformatics Approaches to Drug Development. Advances in Wound Care. 2: 470-489. PMID 24527359 DOI: 10.1089/Wound.2012.0422 |
0.339 |
|
| 2013 |
Jahchan NS, Dudley JT, Mazur PK, Flores N, Yang D, Palmerton A, Zmoos AF, Vaka D, Tran KQ, Zhou M, Krasinska K, Riess JW, Neal JW, Khatri P, Park KS, et al. A drug repositioning approach identifies tricyclic antidepressants as inhibitors of small cell lung cancer and other neuroendocrine tumors. Cancer Discovery. 3: 1364-77. PMID 24078773 DOI: 10.1158/2159-8290.Cd-13-0183 |
0.668 |
|
| 2013 |
Karczewski KJ, Dudley JT, Kukurba KR, Chen R, Butte AJ, Montgomery SB, Snyder M. Systematic functional regulatory assessment of disease-associated variants. Proceedings of the National Academy of Sciences of the United States of America. 110: 9607-12. PMID 23690573 DOI: 10.1073/Pnas.1219099110 |
0.657 |
|
| 2012 |
Haeberle H, Dudley JT, Liu JT, Butte AJ, Contag CH. Identification of cell surface targets through meta-analysis of microarray data. Neoplasia (New York, N.Y.). 14: 666-9. PMID 22904683 DOI: 10.1593/Neo.12634 |
0.586 |
|
| 2012 |
Chen R, Dudley JT, Ruau D, Butte AJ. Quantifying multi-ethnic representation in genetic studies of high mortality diseases. Amia Joint Summits On Translational Science Proceedings Amia Summit On Translational Science. 2012: 11-8. PMID 22779041 |
0.642 |
|
| 2012 |
Ruau D, Dudley JT, Chen R, Phillips NG, Swan GE, Lazzeroni LC, Clark JD, Butte AJ, Angst MS. Integrative approach to pain genetics identifies pain sensitivity loci across diseases. Plos Computational Biology. 8: e1002538. PMID 22685391 DOI: 10.1371/Journal.Pcbi.1002538 |
0.63 |
|
| 2012 |
Dudley JT, Kim Y, Liu L, Markov GJ, Gerold K, Chen R, Butte AJ, Kumar S. Human genomic disease variants: a neutral evolutionary explanation. Genome Research. 22: 1383-94. PMID 22665443 DOI: 10.1101/Gr.133702.111 |
0.652 |
|
| 2012 |
Chen R, Corona E, Sikora M, Dudley JT, Morgan AA, Moreno-Estrada A, Nilsen GB, Ruau D, Lincoln SE, Bustamante CD, Butte AJ. Type 2 diabetes risk alleles demonstrate extreme directional differentiation among human populations, compared to other diseases. Plos Genetics. 8: e1002621. PMID 22511877 DOI: 10.1371/Journal.Pgen.1002621 |
0.62 |
|
| 2012 |
Chen R, Mias GI, Li-Pook-Than J, Jiang L, Lam HY, Chen R, Miriami E, Karczewski KJ, Hariharan M, Dewey FE, Cheng Y, Clark MJ, Im H, Habegger L, Balasubramanian S, ... ... Dudley JT, et al. Personal omics profiling reveals dynamic molecular and medical phenotypes. Cell. 148: 1293-307. PMID 22424236 DOI: 10.1016/J.Cell.2012.02.009 |
0.645 |
|
| 2012 |
Dudley JT, Chen R, Sanderford M, Butte AJ, Kumar S. Evolutionary meta-analysis of association studies reveals ancient constraints affecting disease marker discovery. Molecular Biology and Evolution. 29: 2087-94. PMID 22389448 DOI: 10.1093/Molbev/Mss079 |
0.654 |
|
| 2011 |
Kim Y, Khatri P, Park K, Dudley J, Sage J, Butte A. Identification of serum protein biomarkers for small cell lung cancer. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology. 29: e21005. PMID 28022393 DOI: 10.1200/Jco.2011.29.15_Suppl.E21005 |
0.684 |
|
| 2011 |
Engreitz JM, Chen R, Morgan AA, Dudley JT, Mallelwar R, Butte AJ. ProfileChaser: searching microarray repositories based on genome-wide patterns of differential expression. Bioinformatics (Oxford, England). 27: 3317-8. PMID 21967760 DOI: 10.1093/Bioinformatics/Btr548 |
0.634 |
|
| 2011 |
Dewey FE, Chen R, Cordero SP, Ormond KE, Caleshu C, Karczewski KJ, Whirl-Carrillo M, Wheeler MT, Dudley JT, Byrnes JK, Cornejo OE, Knowles JW, Woon M, Sangkuhl K, Gong L, et al. Phased whole-genome genetic risk in a family quartet using a major allele reference sequence. Plos Genetics. 7: e1002280. PMID 21935354 DOI: 10.1371/Journal.Pgen.1002280 |
0.628 |
|
| 2011 |
Sirota M, Dudley JT, Kim J, Chiang AP, Morgan AA, Sweet-Cordero A, Sage J, Butte AJ. Discovery and preclinical validation of drug indications using compendia of public gene expression data. Science Translational Medicine. 3: 96ra77. PMID 21849665 DOI: 10.1126/Scitranslmed.3001318 |
0.616 |
|
| 2011 |
Dudley JT, Sirota M, Shenoy M, Pai RK, Roedder S, Chiang AP, Morgan AA, Sarwal MM, Pasricha PJ, Butte AJ. Computational repositioning of the anticonvulsant topiramate for inflammatory bowel disease. Science Translational Medicine. 3: 96ra76. PMID 21849664 DOI: 10.1126/Scitranslmed.3002648 |
0.614 |
|
| 2011 |
Dudley JT, Deshpande T, Butte AJ. Exploiting drug-disease relationships for computational drug repositioning. Briefings in Bioinformatics. 12: 303-11. PMID 21690101 DOI: 10.1093/Bib/Bbr013 |
0.611 |
|
| 2011 |
Ruau D, Mbagwu M, Dudley JT, Krishnan V, Butte AJ. Comparison of automated and human assignment of MeSH terms on publicly-available molecular datasets. Journal of Biomedical Informatics. 44: S39-43. PMID 21420508 DOI: 10.1016/J.Jbi.2011.03.007 |
0.595 |
|
| 2011 |
Sharaf RN, Butte AJ, Montgomery KD, Pai R, Dudley JT, Pasricha PJ. Computational prediction and experimental validation associating FABP-1 and pancreatic adenocarcinoma with diabetes. Bmc Gastroenterology. 11: 5. PMID 21251264 DOI: 10.1186/1471-230X-11-5 |
0.562 |
|
| 2011 |
Dudley JT, Chen R, Butte AJ. Matching cancer genomes to established cell lines for personalized oncology. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 243-52. PMID 21121052 |
0.622 |
|
| 2010 |
Engreitz JM, Morgan AA, Dudley JT, Chen R, Thathoo R, Altman RB, Butte AJ. Content-based microarray search using differential expression profiles. Bmc Bioinformatics. 11: 603. PMID 21172034 DOI: 10.1186/1471-2105-11-603 |
0.643 |
|
| 2010 |
Dudley JT, Butte AJ. In silico research in the era of cloud computing. Nature Biotechnology. 28: 1181-5. PMID 21057489 DOI: 10.1038/Nbt1110-1181 |
0.531 |
|
| 2010 |
Tatonetti NP, Dudley JT, Sagreiya H, Butte AJ, Altman RB. An integrative method for scoring candidate genes from association studies: application to warfarin dosing. Bmc Bioinformatics. 11: S9. PMID 21044367 DOI: 10.1186/1471-2105-11-S9-S9 |
0.605 |
|
| 2010 |
Chen DP, Dudley JT, Butte AJ. Latent physiological factors of complex human diseases revealed by independent component analysis of clinarrays. Bmc Bioinformatics. 11: S4. PMID 21044362 DOI: 10.1186/1471-2105-11-S9-S4 |
0.609 |
|
| 2010 |
Chen R, Sigdel TK, Li L, Kambham N, Dudley JT, Hsieh SC, Klassen RB, Chen A, Caohuu T, Morgan AA, Valantine HA, Khush KK, Sarwal MM, Butte AJ. Differentially expressed RNA from public microarray data identifies serum protein biomarkers for cross-organ transplant rejection and other conditions. Plos Computational Biology. 6. PMID 20885780 DOI: 10.1371/Journal.Pcbi.1000940 |
0.62 |
|
| 2010 |
Corona E, Dudley JT, Butte AJ. Extreme evolutionary disparities seen in positive selection across seven complex diseases. Plos One. 5: e12236. PMID 20808933 DOI: 10.1371/Journal.Pone.0012236 |
0.597 |
|
| 2010 |
Dudley JT, Pouliot Y, Chen R, Morgan AA, Butte AJ. Translational bioinformatics in the cloud: an affordable alternative. Genome Medicine. 2: 51. PMID 20691073 DOI: 10.1186/Gm172 |
0.618 |
|
| 2010 |
Dudley JT, Schadt E, Sirota M, Butte AJ, Ashley E. Drug discovery in a multidimensional world: systems, patterns, and networks. Journal of Cardiovascular Translational Research. 3: 438-47. PMID 20677029 DOI: 10.1007/S12265-010-9214-6 |
0.612 |
|
| 2010 |
Dudley JT, Butte AJ. Biomarker and drug discovery for gastroenterology through translational bioinformatics. Gastroenterology. 139: 735-41, 741.e1. PMID 20650279 DOI: 10.1053/J.Gastro.2010.07.024 |
0.574 |
|
| 2010 |
Ashley EA, Butte AJ, Wheeler MT, Chen R, Klein TE, Dewey FE, Dudley JT, Ormond KE, Pavlovic A, Morgan AA, Pushkarev D, Neff NF, Hudgins L, Gong L, Hodges LM, et al. Clinical assessment incorporating a personal genome. Lancet (London, England). 375: 1525-35. PMID 20435227 DOI: 10.1016/S0140-6736(10)60452-7 |
0.62 |
|
| 2010 |
Suthram S, Dudley JT, Chiang AP, Chen R, Hastie TJ, Butte AJ. Network-based elucidation of human disease similarities reveals common functional modules enriched for pluripotent drug targets. Plos Computational Biology. 6: e1000662. PMID 20140234 DOI: 10.1371/Journal.Pcbi.1000662 |
0.673 |
|
| 2010 |
Morgan AA, Dudley JT, Deshpande T, Butte AJ. Dynamism in gene expression across multiple studies. Physiological Genomics. 40: 128-40. PMID 19920211 DOI: 10.1152/Physiolgenomics.90403.2008 |
0.575 |
|
| 2010 |
Sharaf R, Butte AJ, Montgomery KD, Pai RK, Dudley JT, Pasricha PJ. 103 Computational Prediction and Experimental Validation of FABP-1 as a Putative Biomarker for Pancreatic Adenocarcinoma: A Novel Approach to Biomarker Discovery for Gastrointestinal Disorders Gastroenterology. 138: S-19. DOI: 10.1016/S0016-5085(10)60086-8 |
0.558 |
|
| 2009 |
Dudley JT, Butte AJ. A quick guide for developing effective bioinformatics programming skills. Plos Computational Biology. 5: e1000589. PMID 20041221 DOI: 10.1371/Journal.Pcbi.1000589 |
0.554 |
|
| 2009 |
Dudley JT, Tibshirani R, Deshpande T, Butte AJ. Disease signatures are robust across tissues and experiments. Molecular Systems Biology. 5: 307. PMID 19756046 DOI: 10.1038/Msb.2009.66 |
0.599 |
|
| 2009 |
Dudley JT, Butte AJ. Identification of discriminating biomarkers for human disease using integrative network biology. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 27-38. PMID 19209693 |
0.608 |
|
| 2008 |
Chen R, Morgan AA, Dudley J, Deshpande T, Li L, Kodama K, Chiang AP, Butte AJ. FitSNPs: highly differentially expressed genes are more likely to have variants associated with disease. Genome Biology. 9: R170. PMID 19061490 DOI: 10.1186/Gb-2008-9-12-R170 |
0.63 |
|
| 2008 |
Dudley J, Butte AJ. Enabling integrative genomic analysis of high-impact human diseases through text mining Pacific Symposium On Biocomputing 2008, Psb 2008. 580-591. PMID 18229717 |
0.626 |
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