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Items: 1 to 50 of 103


A probabilistic automated tagger to identify human-related publications.

Cohen AM, Dunivin ZO, Smalheiser NR.

Database (Oxford). 2018 Jan 1;2018:1-8. doi: 10.1093/database/bay079.


Rediscovering Don Swanson: the Past, Present and Future of Literature-Based Discovery.

Smalheiser NR.

J Data Inf Sci. 2017 Dec;2(4):43-64. doi: 10.1515/jdis-2017-0019.


Gaps within the Biomedical Literature: Initial Characterization and Assessment of Strategies for Discovery.

Peng Y, Bonifield G, Smalheiser NR.

Front Res Metr Anal. 2017 May;2. pii: 3. doi: 10.3389/frma.2017.00003. Epub 2017 May 22.


Identifying reports of randomized controlled trials (RCTs) via a hybrid machine learning and crowdsourcing approach.

Wallace BC, Noel-Storr A, Marshall IJ, Cohen AM, Smalheiser NR, Thomas J.

J Am Med Inform Assoc. 2017 Nov 1;24(6):1165-1168. doi: 10.1093/jamia/ocx053.


Predicting MeSH Beyond MEDLINE.

Kehoe AK, Torvik VI, Ross MB, Smalheiser NR.

Proc 1st Workshop Sch Web Min (2017). 2017 Feb;2017:49-56. doi: 10.1145/3057148.3057155.


Two Similarity Metrics for Medical Subject Headings (MeSH): An Aid to Biomedical Text Mining and Author Name Disambiguation.

Smalheiser NR, Bonifield G.

J Biomed Discov Collab. 2016 Apr 6;7:e1. doi: 10.5210/disco.v7i0.6654.


Chronic corticosterone-mediated dysregulation of microRNA network in prefrontal cortex of rats: relevance to depression pathophysiology.

Dwivedi Y, Roy B, Lugli G, Rizavi H, Zhang H, Smalheiser NR.

Transl Psychiatry. 2015 Nov 17;5:e682. doi: 10.1038/tp.2015.175.


Nuggets: findings shared in multiple clinical case reports.

Smalheiser NR, Shao W, Yu PS.

J Med Libr Assoc. 2015 Oct;103(4):171-6. doi: 10.3163/1536-5050.103.4.002.


Examining the Impact of the National Institutes of Health Public Access Policy on the Citation Rates of Journal Articles.

De Groote SL, Shultz M, Smalheiser NR.

PLoS One. 2015 Oct 8;10(10):e0139951. doi: 10.1371/journal.pone.0139951. eCollection 2015.


Plasma Exosomal miRNAs in Persons with and without Alzheimer Disease: Altered Expression and Prospects for Biomarkers.

Lugli G, Cohen AM, Bennett DA, Shah RC, Fields CJ, Hernandez AG, Smalheiser NR.

PLoS One. 2015 Oct 1;10(10):e0139233. doi: 10.1371/journal.pone.0139233. eCollection 2015.


Automated confidence ranked classification of randomized controlled trial articles: an aid to evidence-based medicine.

Cohen AM, Smalheiser NR, McDonagh MS, Yu C, Adams CE, Davis JM, Yu PS.

J Am Med Inform Assoc. 2015 May;22(3):707-17. doi: 10.1093/jamia/ocu025. Epub 2015 Feb 5.


Three journal similarity metrics and their application to biomedical journals.

D'Souza JL, Smalheiser NR.

PLoS One. 2014 Dec 23;9(12):e115681. doi: 10.1371/journal.pone.0115681. eCollection 2014.


Mammalian Argonaute-DNA binding?

Smalheiser NR, Gomes OL.

Biol Direct. 2014 Dec 4;10:27. doi: 10.1186/s13062-014-0027-4.


Aggregator: a machine learning approach to identifying MEDLINE articles that derive from the same underlying clinical trial.

Shao W, Adams CE, Cohen AM, Davis JM, McDonagh MS, Thakurta S, Yu PS, Smalheiser NR.

Methods. 2015 Mar;74:65-70. doi: 10.1016/j.ymeth.2014.11.006. Epub 2014 Nov 20.


The RNA-centred view of the synapse: non-coding RNAs and synaptic plasticity.

Smalheiser NR.

Philos Trans R Soc Lond B Biol Sci. 2014 Sep 26;369(1652). pii: 20130504. doi: 10.1098/rstb.2013.0504. Review.


Enoxacin Elevates MicroRNA Levels in Rat Frontal Cortex and Prevents Learned Helplessness.

Smalheiser NR, Zhang H, Dwivedi Y.

Front Psychiatry. 2014 Feb 10;5:6. doi: 10.3389/fpsyt.2014.00006. eCollection 2014.


Expression of microRNAs and other small RNAs in prefrontal cortex in schizophrenia, bipolar disorder and depressed subjects.

Smalheiser NR, Lugli G, Zhang H, Rizavi H, Cook EH, Dwivedi Y.

PLoS One. 2014 Jan 27;9(1):e86469. doi: 10.1371/journal.pone.0086469. eCollection 2014.


Rule-based deduplication of article records from bibliographic databases.

Jiang Y, Lin C, Meng W, Yu C, Cohen AM, Smalheiser NR.

Database (Oxford). 2014 Jan 16;2014:bat086. doi: 10.1093/database/bat086. Print 2014.


Design and implementation of Metta, a metasearch engine for biomedical literature retrieval intended for systematic reviewers.

Smalheiser NR, Lin C, Jia L, Jiang Y, Cohen AM, Yu C, Davis JM, Adams CE, McDonagh MS, Meng W.

Health Inf Sci Syst. 2014 Jan 10;2:1. doi: 10.1186/2047-2501-2-1. eCollection 2014.


Tools for Identifying Reliable Evidence and Implementing it in Everyday Clinical Care.

Cohen AM, Demner-Fushman D, Iorio A, Sim I, Smalheiser NR.

AMIA Jt Summits Transl Sci Proc. 2013 Mar 18;2013:42-4. eCollection 2013.


How many scientists does it take to change a paradigm? New ideas to explain scientific observations are everywhere--we just need to learn how to see them.

Smalheiser NR.

EMBO Rep. 2013 Oct;14(10):861-5. doi: 10.1038/embor.2013.125. Epub 2013 Sep 6. No abstract available.


Preparing synaptoneurosomes from adult mouse forebrain.

Lugli G, Smalheiser NR.

Methods Mol Biol. 2013;936:173-9.


Primary microRNA precursor transcripts are localized at post-synaptic densities in adult mouse forebrain.

Lugli G, Larson J, Demars MP, Smalheiser NR.

J Neurochem. 2012 Nov;123(4):459-66. doi: 10.1111/j.1471-4159.2012.07921.x. Epub 2012 Sep 28.


MicroRNA expression is down-regulated and reorganized in prefrontal cortex of depressed suicide subjects.

Smalheiser NR, Lugli G, Rizavi HS, Torvik VI, Turecki G, Dwivedi Y.

PLoS One. 2012;7(3):e33201. doi: 10.1371/journal.pone.0033201. Epub 2012 Mar 9.


Transcription factor binding sites are highly enriched within microRNA precursor sequences.

Piriyapongsa J, Jordan IK, Conley AB, Ronan T, Smalheiser NR.

Biol Direct. 2011 Dec 2;6:61. doi: 10.1186/1745-6150-6-61.


The search for endogenous siRNAs in the mammalian brain.

Smalheiser NR.

Exp Neurol. 2012 Jun;235(2):455-63. doi: 10.1016/j.expneurol.2011.10.015. Epub 2011 Oct 28. Review.


Mitochondrial small RNAs that are up-regulated in hippocampus during olfactory discrimination training in mice.

Smalheiser NR, Lugli G, Thimmapuram J, Cook EH, Larson J.

Mitochondrion. 2011 Nov;11(6):994-5. doi: 10.1016/j.mito.2011.08.014. Epub 2011 Sep 9.


MicroRNA expression in rat brain exposed to repeated inescapable shock: differential alterations in learned helplessness vs. non-learned helplessness.

Smalheiser NR, Lugli G, Rizavi HS, Zhang H, Torvik VI, Pandey GN, Davis JM, Dwivedi Y.

Int J Neuropsychopharmacol. 2011 Nov;14(10):1315-25. doi: 10.1017/S1461145710001628. Epub 2011 Jan 28.


Endogenous siRNAs and noncoding RNA-derived small RNAs are expressed in adult mouse hippocampus and are up-regulated in olfactory discrimination training.

Smalheiser NR, Lugli G, Thimmapuram J, Cook EH, Larson J.

RNA. 2011 Jan;17(1):166-81. doi: 10.1261/rna.2123811. Epub 2010 Nov 2.


Olfactory discrimination training up-regulates and reorganizes expression of microRNAs in adult mouse hippocampus.

Smalheiser NR, Lugli G, Lenon AL, Davis JM, Torvik VI, Larson J.

ASN Neuro. 2010 Feb 26;2(1):e00028. doi: 10.1042/AN20090055.


Author Name Disambiguation in MEDLINE.

Torvik VI, Smalheiser NR.

ACM Trans Knowl Discov Data. 2009 Jul 1;3(3). pii: 11.


Do Neural Cells Communicate with Endothelial Cells via Secretory Exosomes and Microvesicles?

Smalheiser NR.

Cardiovasc Psychiatry Neurol. 2009;2009:383086. doi: 10.1155/2009/383086. Epub 2009 Aug 3.


microRNA regulation of synaptic plasticity.

Smalheiser NR, Lugli G.

Neuromolecular Med. 2009;11(3):133-40. doi: 10.1007/s12017-009-8065-2. Epub 2009 May 21. Review.


Arrowsmith two-node search interface: a tutorial on finding meaningful links between two disparate sets of articles in MEDLINE.

Smalheiser NR, Torvik VI, Zhou W.

Comput Methods Programs Biomed. 2009 May;94(2):190-7. doi: 10.1016/j.cmpb.2008.12.006. Epub 2009 Jan 30.


Natural antisense transcripts are co-expressed with sense mRNAs in synaptoneurosomes of adult mouse forebrain.

Smalheiser NR, Lugli G, Torvik VI, Mise N, Ikeda R, Abe K.

Neurosci Res. 2008 Dec;62(4):236-9. doi: 10.1016/j.neures.2008.08.010. Epub 2008 Sep 4.


Regulation of mammalian microRNA processing and function by cellular signaling and subcellular localization.

Smalheiser NR.

Biochim Biophys Acta. 2008 Nov;1779(11):678-81. doi: 10.1016/j.bbagrm.2008.03.009. Epub 2008 Apr 8. Review.


Expression of microRNAs and their precursors in synaptic fractions of adult mouse forebrain.

Lugli G, Torvik VI, Larson J, Smalheiser NR.

J Neurochem. 2008 Jul;106(2):650-61. doi: 10.1111/j.1471-4159.2008.05413.x. Epub 2008 Apr 12.


Anne O'Tate: A tool to support user-driven summarization, drill-down and browsing of PubMed search results.

Smalheiser NR, Zhou W, Torvik VI.

J Biomed Discov Collab. 2008 Feb 15;3:2. doi: 10.1186/1747-5333-3-2.


A quantitative model for linking two disparate sets of articles in MEDLINE.

Torvik VI, Smalheiser NR.

Bioinformatics. 2007 Jul 1;23(13):1658-65. Epub 2007 Apr 26.


ADAM: another database of abbreviations in MEDLINE.

Zhou W, Torvik VI, Smalheiser NR.

Bioinformatics. 2006 Nov 15;22(22):2813-8. Epub 2006 Sep 18.


Complications in mammalian microRNA target prediction.

Smalheiser NR, Torvik VI.

Methods Mol Biol. 2006;342:115-27. Review.


Alu elements within human mRNAs are probable microRNA targets.

Smalheiser NR, Torvik VI.

Trends Genet. 2006 Oct;22(10):532-6. Epub 2006 Aug 17.


Collaborative development of the Arrowsmith two node search interface designed for laboratory investigators.

Smalheiser NR, Torvik VI, Bischoff-Grethe A, Burhans LB, Gabriel M, Homayouni R, Kashef A, Martone ME, Perkins GA, Price DL, Talk AC, West R.

J Biomed Discov Collab. 2006 Jul 3;1:8.


A tutorial on information retrieval: basic terms and concepts.

Zhou W, Smalheiser NR, Yu C.

J Biomed Discov Collab. 2006 Mar 13;1:2.


Guidelines for negotiating scientific collaboration.

Smalheiser NR, Perkins GA, Jones S.

PLoS Biol. 2005 Jun;3(6):e217. Epub 2005 Jun 14. No abstract available.


Mammalian microRNAs derived from genomic repeats.

Smalheiser NR, Torvik VI.

Trends Genet. 2005 Jun;21(6):322-6.


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