Conventional search engines (e.g., PubMed) can identify many facets of information contained in Medline records and give an indication of the current state of knowledge on a given topic. However, such queries are insufficient for investigators operating at the frontiers of scientific discovery, who need to assess the possible significance of new findings or hypothesized relationships that have not yet been experimentally tested. """"""""Arrowsmith"""""""" is a computer-assisted strategy designed to address this problem by facilitating the identification of information that is present implicitly within or across databases. It does this by identifying title words that are shared across a pair of disjoint literatures, filtering out words that are likely to be non-informative, and justaposing titles of papers in each literature that share a given title word, allowing the user to assess whether the two sets of papers are suggestive of a biologically meaningful inference when considered together. To test the feasibility of Arrowsmith for use by the scientific community, a set of field testers will be trained to evaluate the feasibility and utility of Arrowsmith analyses when used in the context of multi-disciplinary neuroscience groups that have both significant laboratory and informatics components. The utility of linking papers via shared terms taken from other fields of Medline records, e.g., abstract words or MeSH subject headings, will also be evaluated. Access to Arrowsmith will be provided via a Web site that will be upgraded and expanded to accommodate the larger public as well. Finally, it will be assessed whether Arrowsmith analyses can help facilitate new interdisciplinary research by identifying and alerting complementary groups of investigators who independently are tackling problems of joint interest, that may be best addressed by working together. Because of the generality of the Arrowsmith approach, it may be applied to a wide range of biomedical problems and, indeed, to conduct searches within or across any databases that contain textual material.

Agency
National Institute of Health (NIH)
Institute
National Library of Medicine (NLM)
Type
Research Project (R01)
Project #
5R01LM007292-02
Application #
6538228
Study Section
Special Emphasis Panel (ZRG1-SSS-Q (02))
Program Officer
Florance, Valerie
Project Start
2001-06-15
Project End
2006-05-31
Budget Start
2002-06-01
Budget End
2003-05-31
Support Year
2
Fiscal Year
2002
Total Cost
$615,145
Indirect Cost
Name
University of Illinois at Chicago
Department
Psychiatry
Type
Schools of Medicine
DUNS #
121911077
City
Chicago
State
IL
Country
United States
Zip Code
60612
Smalheiser, Neil R (2012) The search for endogenous siRNAs in the mammalian brain. Exp Neurol 235:455-63
Perkins, Guy A; Ellisman, Mark H (2011) Mitochondrial configurations in peripheral nerve suggest differential ATP production. J Struct Biol 173:117-27
Tummala, Hemachand; Li, Xiaofan; Homayouni, Ramin (2010) Interaction of a novel mitochondrial protein, 4-nitrophenylphosphatase domain and non-neuronal SNAP25-like protein homolog 1 (NIPSNAP1), with the amyloid precursor protein family. Eur J Neurosci 31:1926-34
Price, Diana L; Rockenstein, Edward; Ubhi, Kiren et al. (2010) Alterations in mGluR5 expression and signaling in Lewy body disease and in transgenic models of alpha-synucleinopathy--implications for excitotoxicity. PLoS One 5:e14020
Smalheiser, Neil R; Torvik, Vetle I; Zhou, Wei (2009) Arrowsmith two-node search interface: a tutorial on finding meaningful links between two disparate sets of articles in MEDLINE. Comput Methods Programs Biomed 94:190-7
Smalheiser, Neil R; Lugli, Giovanni (2009) microRNA regulation of synaptic plasticity. Neuromolecular Med 11:133-40
Smalheiser, Neil R; Lugli, Giovanni; Torvik, Vetle I et al. (2008) Natural antisense transcripts are co-expressed with sense mRNAs in synaptoneurosomes of adult mouse forebrain. Neurosci Res 62:236-9
Lugli, Giovanni; Torvik, Vetle I; Larson, John et al. (2008) Expression of microRNAs and their precursors in synaptic fractions of adult mouse forebrain. J Neurochem 106:650-61
Wei, Lai; Fan, Meiyun; Xu, Lijing et al. (2008) Bioinformatic analysis reveals cRel as a regulator of a subset of interferon-stimulated genes. J Interferon Cytokine Res 28:541-51
Perkins, Guy A; Sosinsky, Gina E; Ghassemzadeh, Sassan et al. (2008) Electron tomographic analysis of cytoskeletal cross-bridges in the paranodal region of the node of Ranvier in peripheral nerves. J Struct Biol 161:469-80

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