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2020 – today
- 2023
[i3]Sonish Sivarajkumar, Pratyush Tandale, Ankit Bhardwaj, Kipp W. Johnson, Anoop Titus, Benjamin S. Glicksberg, Shameer Khader, Kamlesh K. Yadav, Lakshminarayanan Subramanian:
Generation of a Compendium of Transcription Factor Cascades and Identification of Potential Therapeutic Targets using Graph Machine Learning. CoRR abs/2311.17969 (2023)- 2021
- [j19]Ulzee An, Ankit Bhardwaj
, Khader Shameer, Lakshminarayanan Subramanian:
High Precision Mammography Lesion Identification From Imprecise Medical Annotations. Frontiers Big Data 4: 742779 (2021) - [j18]Ramya Dhatri Vunikili, Benjamin S. Glicksberg, Kipp W. Johnson, Joel T. Dudley, Lakshminarayanan Subramanian, Khader Shameer:
Predictive Modelling of Susceptibility to Substance Abuse, Mortality and Drug-Drug Interactions in Opioid Patients. Frontiers Artif. Intell. 4: 742723 (2021) - [i2]Christopher Yacoumatos, Stefano Bragaglia, Anshul Kanakia, Nils Svangård, Jonathan Mangion, Claire Donoghue, James Weatherall, Faisal M. Khan, Khader Shameer:
TrialGraph: Machine Intelligence Enabled Insight from Graph Modelling of Clinical Trials. CoRR abs/2112.08211 (2021) - 2020
- [j17]Andrew C. Liu, Krishna Patel, Ramya Dhatri Vunikili, Kipp W. Johnson, Fahad Abdu, Shivani Kamath Belman, Benjamin S. Glicksberg, Pratyush Tandale, Roberto Fontanez, Oommen K. Mathew, Andrew Kasarskis, Priyabrata Mukherjee, Lakshminarayanan Subramanian, Joel T. Dudley, Khader Shameer:
Sepsis in the era of data-driven medicine: personalizing risks, diagnoses, treatments and prognoses. Briefings Bioinform. 21(4): 1182-1195 (2020) - [c11]Emmette R. Hutchison, Youyi Zhang, Sreenath Nampally, James Weatherall, Faisal M. Khan, Khader Shameer:
Uncovering Machine Learning-Ready Data from Public Clinical Trial Resources: A case-study on normalization across Aggregate Content of ClinicalTrials.gov. BIBM 2020: 2965-2967
2010 – 2019
- 2019
- [j16]Marcus A. Badgeley, Manway Liu, Benjamin S. Glicksberg, Mark M. Shervey, John R. Zech, Khader Shameer, Joseph Lehar, Eric K. Oermann, Michael V. McConnell, Thomas M. Snyder, Joel T. Dudley:
CANDI: an R package and Shiny app for annotating radiographs and evaluating computer-aided diagnosis. Bioinform. 35(9): 1610-1612 (2019) - 2018
- [j15]Khader Shameer, Benjamin S. Glicksberg, Rachel Hodos, Kipp W. Johnson, Marcus A. Badgeley, Ben Readhead, Max S. Tomlinson, Timothy O'Connor, Riccardo Miotto, Brian A. Kidd, Rong Chen, Avi Ma'ayan, Joel T. Dudley:
Systematic analyses of drugs and disease indications in RepurposeDB reveal pharmacological, biological and epidemiological factors influencing drug repositioning. Briefings Bioinform. 19(4): 656-678 (2018) - [j14]Khader Shameer, M. Mercedes Perez-Rodriguez, Roy Bachar, Li Li, Amy Johnson, Kipp W. Johnson, Benjamin S. Glicksberg, Milo R. Smith, Ben Readhead, Joseph Scarpa, Jebakumar Jebakaran, Patricia H. Kovatch, Sabina Lim, Wayne K. Goodman, David L. Reich, Andrew Kasarskis, Nicholas P. Tatonetti, Joel T. Dudley:
Pharmacological risk factors associated with hospital readmission rates in a psychiatric cohort identified using prescriptome data mining. BMC Medical Informatics Decis. Mak. 18(S-3): 79:1-79:11 (2018) - [c10]Abhinav Agrawal, Molly Stewart, Jamie S. Hirsch, John Chelico, Shameer Khader, Negin Hajizadeh:
An Electronic Phenotyping Algorithm for Automated Cohorting of Patients with Severe Acute Respiratory Distress Syndrome. AMIA 2018 - [c9]Raj Brar, Shameer Khader, Abraham Saraya, Kevin Bock, Michael I. Oppenheim, John Chelico, Jamie S. Hirsch:
Unsupervised Learning of an Advanced Illness Cohort to Develop Patient Stratification Models. AMIA 2018 - [c8]Jamie S. Hirsch, Raj Brar, Abraham Saraya, Kevin Bock, Michael I. Oppenheim, John Chelico, Shameer Khader:
MEWSCast: Predictive Forecasting of Modified Early Warning Scores for Preemptive Management of Clinical Acuity. AMIA 2018 - [c7]Shameer Khader, Imroze Shaheen, Molly Stewart, Yalini Senathirajah, Jamie S. Hirsch, John Chelico, Negin Hajizadeh:
Discovering Drivers of Mortality in Severe Acute Respiratory Distress Syndrome: An Investigation using Machine Intelligence Methods. AMIA 2018 - [c6]Benjamin S. Glicksberg, Riccardo Miotto, Kipp W. Johnson, Khader Shameer, Li Li, Rong Chen, Joel T. Dudley:
Automated disease cohort selection using word embeddings from Electronic Health Records. PSB 2018: 145-156 - [c5]Kipp W. Johnson, Benjamin S. Glicksberg, Rachel Hodos, Khader Shameer, Joel T. Dudley:
Causal inference on electronic health records to assess blood pressure treatment targets: An application of the parametric g formula. PSB 2018: 180-191 - [i1]Ulzee An, Khader Shameer, Lakshmi Subramanian:
Mammography Assessment using Multi-Scale Deep Classifiers. CoRR abs/1807.03095 (2018) - 2017
- [j13]Khader Shameer, Marcus A. Badgeley, Riccardo Miotto, Benjamin S. Glicksberg, Joseph W. Morgan, Joel T. Dudley:
Translational bioinformatics in the era of real-time biomedical, health care and wellness data streams. Briefings Bioinform. 18(1): 105-124 (2017) - [c4]Khader Shameer, Kipp W. Johnson, Alexandre Yahi, Riccardo Miotto, Li Li, Doran Ricks, Jebakumar Jebakaran, Patricia H. Kovatch, Partho P. Sengupta, Annetine Gelijns, Alan Moskovitz, Bruce Darrow, David L. Reich, Andrew Kasarskis, Nicholas P. Tatonetti, Deborah F. Pinney, Joel T. Dudley:
Predictive Modeling of Hospital Readmission Rates Using Electronic Medical Record-Wide Machine Learning: A Case-Study Using Mount Sinai Heart Failure Cohort. PSB 2017: 276-287 - 2016
- [j12]Khader Shameer, Lokesh P. Tripathi, Krishna R. Kalari, Joel T. Dudley, Ramanathan Sowdhamini:
Interpreting functional effects of coding variants: challenges in proteome-scale prediction, annotation and assessment. Briefings Bioinform. 17(5): 841-862 (2016) - [j11]Benjamin S. Glicksberg, Li Li, Marcus A. Badgeley, Khader Shameer, Roman Kosoy, Noam D. Beckmann, Nam Pho, Jörg Hakenberg, Meng Ma, Kristin L. Ayers, Gabriel E. Hoffman, Shuyu Dan Li, Eric E. Schadt, Chirag J. Patel, Rong Chen, Joel T. Dudley:
Comparative analyses of population-scale phenomic data in electronic medical records reveal race-specific disease networks. Bioinform. 32(12): 101-110 (2016) - 2015
- [c3]Benjamin S. Glicksberg, Li Li, Wei-Yi Cheng, Khader Shameer, Jörg Hakenberg, Rafael Castellanos, Meng Ma, Lisong Shi, Hardik Shah, Joel T. Dudley, Rong Chen:
An Integrative Pipeline for Multi-Modal Discovery of Disease Relationships. Pacific Symposium on Biocomputing 2015: 407-418 - 2012
- [j10]Rizwan Masud, Khader Shameer, Aparna Dhar, Keyue Ding, Iftikhar J. Kullo:
Gene expression profiling of peripheral blood mononuclear cells in the setting of peripheral arterial disease. J. Clin. Bioinform. 2: 6 (2012) - [j9]Khader Shameer, Ramanathan Sowdhamini:
Functional repertoire, molecular pathways and diseases associated with 3D domain swapping in the human proteome. J. Clin. Bioinform. 2: 8 (2012) - 2011
- [j8]Khader Shameer, Prashant Shingate, S. C. P. Manjunath, M. Karthika, Ganesan Pugalenthi, Ramanathan Sowdhamini:
3DSwap: curated knowledgebase of proteins involved in 3D domain swapping. Database J. Biol. Databases Curation 2011 (2011) - [j7]Giovanni Marco Dall'Olio, Jacopo Marino, Michael Schubert, Kevin L. Keys, Melanie I. Stefan, Colin S. Gillespie, Pierre Poulain, Khader Shameer, Robert Sugar, Brandon M. Invergo, Lars Juhl Jensen, Jaume Bertranpetit, Hafid Laayouni:
Ten Simple Rules for Getting Help from Online Scientific Communities. PLoS Comput. Biol. 7(9) (2011) - [j6]Laurence D. Parnell, Pierre Lindenbaum, Khader Shameer, Giovanni Marco Dall'Olio, Daniel C. Swan, Lars Juhl Jensen, Simon J. Cockell, Brent S. Pedersen, Mary E. Mangan, Christopher A. Miller, István Albert:
BioStar: An Online Question & Answer Resource for the Bioinformatics Community. PLoS Comput. Biol. 7(10) (2011) - [c2]Pandurangan Sundaramurthy, Raashi Sreenivasan, Khader Shameer, Sunita Gakkhar, Ramanathan Sowdhamini:
Poster: HORIBALFRE: Higher Order Residue Interactions Based ALgorithm for Fold REcognition. ICCABS 2011: 262 - 2010
- [j5]Pandurangan Sundaramurthy, Khader Shameer, Raashi Sreenivasan, Sunita Gakkhar, Ramanathan Sowdhamini:
HORI: a web server to compute Higher Order Residue Interactions in protein structures. BMC Bioinform. 11(S-1): 24 (2010) - [j4]Khader Shameer, Lalima L. Madan, Shivamurthy Veeranna, Balasubramanian Gopal, Ramanathan Sowdhamini:
PeptideMine - A webserver for the design of peptides for protein-peptide binding studies derived from protein-protein interactomes. BMC Bioinform. 11: 473 (2010) - [c1]V. S. Gowri, Khader Shameer, Chilamakuri Chandra Sekhar Reddy, Prashant Shingate, Ramanathan Sowdhamini:
A Sequence Data Mining Protocol to Identify Best Representative Sequence for Protein Domain Families. ICDM Workshops 2010: 703-710
2000 – 2009
- 2009
- [j3]Khader Shameer, Paramasivam Nagarajan, Kumar Gaurav, Ramanathan Sowdhamini:
3PFDB - A database of Best Representative PSSM Profiles (BRPs) of Protein Families generated using a novel data mining approach. BioData Min. 2: 8 (2009) - 2008
- [j2]Chilamakuri Chandra Sekhar Reddy, Khader Shameer, Bernard O. Offmann, Ramanathan Sowdhamini:
PURE: A webserver for the prediction of domains in unassigned regions in proteins. BMC Bioinform. 9 (2008) - 2006
- [j1]Ganesan Pugalenthi, Khader Shameer, Narayanaswamy Srinivasan, Ramanathan Sowdhamini:
HARMONY: a server for the assessment of protein structures. Nucleic Acids Res. 34(Web-Server-Issue): 231-234 (2006)
Coauthor Index
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