Literature DB >> 30615938

Rapamycin - mTOR + BRAF = ? Using relational similarity to find therapeutically relevant drug-gene relationships in unstructured text.

Safa Fathiamini1, Amber M Johnson2, Jia Zeng2, Vijaykumar Holla2, Nora S Sanchez2, Funda Meric-Bernstam3, Elmer V Bernstam4, Trevor Cohen5.   

Abstract

Entities:  

Keywords:  Attributional similarity; Neural word embeddings; Pharmacogenomics; Precision oncology; Random Indexing; Relational similarity

Year:  2019        PMID： 30615938      PMCID： PMC6386529          DOI： 10.1016/j.jbi.2019.103094

Source DB:  PubMed          Journal:  J Biomed Inform        ISSN： 1532-0464            Impact factor:   6.317


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  18 in total

Review 1.  Empirical distributional semantics: methods and biomedical applications.

Authors:  Trevor Cohen; Dominic Widdows
Journal:  J Biomed Inform       Date:  2009-02-14       Impact factor: 6.317

2.  Embedding of semantic predications.

Authors:  Trevor Cohen; Dominic Widdows
Journal:  J Biomed Inform       Date:  2017-03-08       Impact factor: 6.317

3.  Identifying plausible adverse drug reactions using knowledge extracted from the literature.

Authors:  Ning Shang; Hua Xu; Thomas C Rindflesch; Trevor Cohen
Journal:  J Biomed Inform       Date:  2014-07-19       Impact factor: 6.317

4.  Automated identification of molecular effects of drugs (AIMED).

Authors:  Safa Fathiamini; Amber M Johnson; Jia Zeng; Alejandro Araya; Vijaykumar Holla; Ann M Bailey; Beate C Litzenburger; Nora S Sanchez; Yekaterina Khotskaya; Hua Xu; Funda Meric-Bernstam; Elmer V Bernstam; Trevor Cohen
Journal:  J Am Med Inform Assoc       Date:  2016-04-23       Impact factor: 4.497

5.  A Study of Neural Word Embeddings for Named Entity Recognition in Clinical Text.

Authors:  Yonghui Wu; Jun Xu; Min Jiang; Yaoyun Zhang; Hua Xu
Journal:  AMIA Annu Symp Proc       Date:  2015-11-05

6.  Discovering discovery patterns with Predication-based Semantic Indexing.

Authors:  Trevor Cohen; Dominic Widdows; Roger W Schvaneveldt; Peter Davies; Thomas C Rindflesch
Journal:  J Biomed Inform       Date:  2012-07-26       Impact factor: 6.317

7.  Predicting high-throughput screening results with scalable literature-based discovery methods.

Authors:  T Cohen; D Widdows; C Stephan; R Zinner; J Kim; T Rindflesch; P Davies
Journal:  CPT Pharmacometrics Syst Pharmacol       Date:  2014-10-08

8.  Adapting Word Embeddings from Multiple Domains to Symptom Recognition from Psychiatric Notes.

Authors:  Yaoyun Zhang; Hee-Jin Li; Jingqi Wang; Trevor Cohen; Kirk Roberts; Hua Xu
Journal:  AMIA Jt Summits Transl Sci Proc       Date:  2018-05-18

9.  Pharmacovigilance from social media: mining adverse drug reaction mentions using sequence labeling with word embedding cluster features.

Authors:  Azadeh Nikfarjam; Abeed Sarker; Karen O'Connor; Rachel Ginn; Graciela Gonzalez
Journal:  J Am Med Inform Assoc       Date:  2015-03-09       Impact factor: 4.497

10.  Probabilistic Prognostic Estimates of Survival in Metastatic Cancer Patients (PPES-Met) Utilizing Free-Text Clinical Narratives.

Authors:  Imon Banerjee; Michael Francis Gensheimer; Douglas J Wood; Solomon Henry; Sonya Aggarwal; Daniel T Chang; Daniel L Rubin
Journal:  Sci Rep       Date:  2018-07-03       Impact factor: 4.379
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