Select Publications

• Transforming 50 years of data: A machine learning approach to create new revenue streams for traditional publishers

   Biradar, Usha B., Lokanath Khamari, and Shrey Bhate

  Information Services & Use 38, no. 1-2 (2018): 61-65.

• LABA/LAMA combinations versus LAMA monotherapy or LABA/ICS in COPD: a systematic review and meta-analysis

  Gustavo J Rodrigo; David Price; Antonio Anzueto; Dave Singh; Pablo Altman; Giovanni Bader; Francesco Patalano; Robert Fogel; Konstantinos Kostikas

  International Journal of COPD, 2017

• PHI-base: a new interface and further additions for the multi-species pathogen-host interaction database

  Martin Urban, Alayne Cuzick, Kim Rutherford, Alistair Irvine, Helder Pedro, Rashmi Pant, Vidyendra Sadanadan, Lokanath Khamari, Santhoshkumar Billal, Kim E. Hammond-Kosack

  Nucleic Acids Research, 2017

• Machine Learning Approach for Multi-Layered Detection of Chemical Named Entities in Text

   Biradar, Usha B., Harsha Gurulingappa, Lokanath Khamari, and Shashikala Giriyan

  International Journal of Software Science and Computational Intelligence (IJSSCI) 8, no. 1 (2016): 1-15

• Recommendation based p2p file sharing on disconnected manet

  Teegala Spandana, Sesha Bhrgavi

  IJESR, 2015

• The Pathogen-Host Interactions database (PHI-base): additions and future developments

  Martin Urban, Rashmi Pant, Arathi Raghunath, Alistair G. Irvine, Helder Pedro and Kim E. Hammond-Kosack

  Nucleic Acids Research, 2014

• Challenges in mining the literature for chemical information

  Harsha Gurulingappa, Anirban Mudi, Luca Toldo, Martin Hofmann-Apitius and Jignesh Bhate

  RSC Advances, 2013

• Automatic detection of adverse events to predict drug label changes using text and data mining techniques.

  Harsha Gurulingappa, Luca Toldo, Abdul Mateen Rajput, Jan A. Kors, Adel Taweel, Yorki Tayrouz

  Pharmacoepidemiology and Drug Safety, 2013 (DOI: 10.1002/pds.3493)

• ‘HypothesisFinder:’ A Strategy for the Detection of Speculative Statements in Scientific Text

  Ashutosh Malhotra, Erfan Younesi, Harsha Gurulingappa, Martin Hofmann-Apitius

  PLoS Computational Biology, Volume 9, Issue 7, 2013

• Text Analytics for the Detection of Drug Safety Events from Case Reports

  Luca Toldo, Sanmitra Bhattacharya and Harsha Gurulingappa

  Drug Safety Journal, Volume 35, Issue 1, 2012. pp. 1197-1198

• Extraction of Adverse Drug Effects from Medical Case Reports

  Harsha Gurulingappa, Abdul-Mateen Rajput, and Luca Toldo

  Journal of Biomedical Semantics, Volume 3, Issue 15, 2012.

• Automated identification of adverse events from case reports using machine learning

  Luca Toldo, Sanmitra Bhattacharya and Harsha Gurulingappa

  In Proceedings of Workshop on Computational Methods in Pharmacovigilance, 24th European Medical Informatics Conference (MIE), Pisa, Italy, August 2012.

• Protein interaction data curation: the International Molecular Exchange (IMEIMEIMEx) consortium

  Nature Methods, Vol 9, No.4, p. 345, APRIL 2012

• The IntAct molecular interaction database in 2012

  Nucleic Acid Research, Vol 40, D841, March 14, 2012

• XTractor Premium – a Knowledgebase of manually annotated biomedical relationships updated everyday from PubMed abstracts

  Guru Rao, Lokanath Khamari, Vidyendra Sadanandan, Jignesh Bhate – Nature Methods, 2009

  Molecular Connections Pvt. Ltd, Basavanagudi, Bangalore, India

• Elucidating the role of CREBBP co-activator in erythroid differentiation by literature mining and analysis

  Iyer J, Raghunath A, Bhate J,Wang L, 9 (1): 12-20, 2008

  Molecular Connections Pvt. Ltd, Basavanagudi, Bangalore, India, and National Institute of Singapore, Singapore.

• Plasma proteome knowledgebase: exploring disease biomarker correlations.

  Iyer J, Srinivas VM, Khamari L, Sequeira JM, Das N, Periasamy UR, Bhate J 8 (1) : 18-29, 2007

  Molecular Connections Pvt. Ltd., Bangalore, India

• A comparison of information on molecular interactions available in full-length publications versus abstracts.

  Mahadevan U, Bhate J, Raghunath A, Kashyap S, Dey PC, Prakash N, Bhat B, Zachariah LL, Wong L, 8 (1) : 8-17, 2007

  Molecular Connections Pvt. Ltd., Bangalore, India and National Institute of Singapore, Republic of Singapore

• Co-regulator recruitment and the mechanism of retinoic acid receptor synergy

  Pierre Germain, Jaya Iyer, Christina Zechel, Hinrich Gronemeyer Nature 415, 187 – 192 (10 Jan 2002), Letters to Nature

• Literature Data Mining for Biology

  Lynette Hirschman, Jong C. Park, Junichi Tsujii, Cathy Wu, Limsoon Wong.

• Toward Routine Automatic Pathway Discovery from On-Line Scientific Text Abstracts

  S.-K. Ng, M. Wong.

• Natural Language Processing and Information Extraction in Biology

  Jun-ichi Tsujii, Limsoon Wong.