Neil R Smalheiser


Affiliation: University of Illinois at Chicago
Country: USA


  1. Smalheiser N, Cohen A. Design of a generic, open platform for machine learning-assisted indexing and clustering of articles in PubMed, a biomedical bibliographic database. Data Inf Manag. 2018;2:27-36 pubmed publisher
    ..We then discuss how the generic platform can be extended to include a wide variety of other machine learning based goals and projects, and can be used as a public platform for disseminating the results of NLP tools to end-users as well. ..
  2. Smalheiser N, Cohen A, Bonifield G. Unsupervised low-dimensional vector representations for words, phrases and text that are transparent, scalable, and produce similarity metrics that are not redundant with neural embeddings. J Biomed Inform. 2019;90:103096 pubmed publisher
  3. Smalheiser N, Lugli G. microRNA regulation of synaptic plasticity. Neuromolecular Med. 2009;11:133-40 pubmed publisher
    ..Thus, locally formed microRNAs may mark the location of previously activated synapses and perform a type of synaptic tagging and capture. ..
  4. Shao W, Adams C, Cohen A, Davis J, McDonagh M, Thakurta S, et al. Aggregator: a machine learning approach to identifying MEDLINE articles that derive from the same underlying clinical trial. Methods. 2015;74:65-70 pubmed publisher
    ..Although painstaking examination of full-text may be needed to be conclusive, metadata are surprisingly accurate in predicting when two articles derive from the same underlying clinical trial. ..
  5. Smalheiser N, Lugli G, Thimmapuram J, Cook E, Larson J. Endogenous siRNAs and noncoding RNA-derived small RNAs are expressed in adult mouse hippocampus and are up-regulated in olfactory discrimination training. RNA. 2011;17:166-81 pubmed publisher
    ..Further studies are warranted to characterize the role(s) played by endogenous siRNAs and noncoding RNA-derived small RNAs in learning and memory. ..
  6. Smalheiser N. The search for endogenous siRNAs in the mammalian brain. Exp Neurol. 2012;235:455-63 pubmed publisher
    ..I conclude that, despite their apparent low abundance, endogenous siRNAs and noncoding RNA-derived small RNAs are likely to play an important role in regulating synaptic plasticity. ..
  7. Smalheiser N. The RNA-centred view of the synapse: non-coding RNAs and synaptic plasticity. Philos Trans R Soc Lond B Biol Sci. 2014;369: pubmed publisher
    ..ncRNAs do not appear to be direct mediators of synaptic transmission in the manner of neurotransmitters or receptors, yet they orchestrate synaptic plasticity-and may drive species-specific changes in cognition. ..
  8. Smalheiser N, Bonifield G. Two Similarity Metrics for Medical Subject Headings (MeSH): An Aid to Biomedical Text Mining and Author Name Disambiguation. J Biomed Discov Collab. 2016;7:e1 pubmed publisher
    ..The dataset is freely available for download and can be queried at Handling editor: Elizabeth Workman, MLIS, PhD. ..
  9. Smalheiser N, Lugli G, Torvik V, Mise N, Ikeda R, Abe K. Natural antisense transcripts are co-expressed with sense mRNAs in synaptoneurosomes of adult mouse forebrain. Neurosci Res. 2008;62:236-9 pubmed publisher
    ..This study provides evidence that a new class of noncoding RNAs (natural antisense transcripts) are expressed near synapses, and encourages further studies of their roles in neuronal function. ..