Literature DB >> 16845166

NeuroScholar's electronic laboratory notebook and its application to neuroendocrinology.

Arshad M Khan1, Joel D Hahn, Wei-Cheng Cheng, Alan G Watts, Gully A P C Burns.   

Abstract

Scientists continually relate information from the published literature to their current research. The challenge of this essential and time-consuming activity increases as the body of scientific literature continues to grow. In an attempt to lessen the challenge, we have developed an Electronic Laboratory Notebook (ELN) application. Our ELN functions as a component of another application we have developed, an open-source knowledge management system for the neuroscientific literature called NeuroScholar (http://www. neuroscholar. org/). Scanned notebook pages, images, and data files are entered into the ELN, where they can be annotated, organized, and linked to similarly annotated excerpts from the published literature within Neuroscholar. Associations between these knowledge constructs are created within a dynamic node-and-edge user interface. To produce an interactive, adaptable knowledge base. We demonstrate the ELN's utility by using it to organize data and literature related to our studies of the neuroendocrine hypothalamic paraventricular nucleus (PVH). We also discuss how the ELN could be applied to model other neuroendocrine systems; as an example we look at the role of PVH stressor-responsive neurons in the context of their involvement in the suppression of reproductive function. We present this application to the community as open-source software and invite contributions to its development.

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Year:  2006        PMID: 16845166      PMCID: PMC4476904          DOI: 10.1385/NI:4:2:139

Source DB:  PubMed          Journal:  Neuroinformatics        ISSN: 1539-2791


  17 in total

Review 1.  Should the neuroscience community make a paradigm shift to sharing primary data?

Authors:  S H Koslow
Journal:  Nat Neurosci       Date:  2000-09       Impact factor: 24.884

2.  Immunotoxin lesion of hypothalamically projecting norepinephrine and epinephrine neurons differentially affects circadian and stressor-stimulated corticosterone secretion.

Authors:  Sue Ritter; Alan G Watts; Thu T Dinh; Graciela Sanchez-Watts; Christi Pedrow
Journal:  Endocrinology       Date:  2003-04       Impact factor: 4.736

3.  NeuroSys: a semistructured laboratory database.

Authors:  Sandy Pittendrigh; Gwen Jacobs
Journal:  Neuroinformatics       Date:  2003

4.  Neuroscience-knowledge management: slow change so far.

Authors:  F E Bloom
Journal:  Trends Neurosci       Date:  1995-02       Impact factor: 13.837

Review 5.  The Human Brain Project: neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience data.

Authors:  G M Shepherd; J S Mirsky; M D Healy; M S Singer; E Skoufos; M S Hines; P M Nadkarni; P L Miller
Journal:  Trends Neurosci       Date:  1998-11       Impact factor: 13.837

6.  Immunotoxic destruction of distinct catecholamine subgroups produces selective impairment of glucoregulatory responses and neuronal activation.

Authors:  S Ritter; K Bugarith; T T Dinh
Journal:  J Comp Neurol       Date:  2001-04-02       Impact factor: 3.215

7.  Studies on the neuroanatomical basis for stress-induced oestrogen-potentiated suppression of reproductive function: evidence against direct corticotropin-releasing hormone projections to the vicinity of luteinizing hormone-releasing hormone cell bodies in female rats.

Authors:  J D Hahn; T Kalamatianos; C W Coen
Journal:  J Neuroendocrinol       Date:  2003-08       Impact factor: 3.627

8.  Influence of corticotropin-releasing factor on reproductive functions in the rat.

Authors:  C Rivier; W Vale
Journal:  Endocrinology       Date:  1984-03       Impact factor: 4.736

9.  Hindbrain catecholamine neurons mediate consummatory responses to glucoprivation.

Authors:  Bryan Hudson; Sue Ritter
Journal:  Physiol Behav       Date:  2004-09-15

10.  Intravenous 2-deoxy-D-glucose injection rapidly elevates levels of the phosphorylated forms of p44/42 mitogen-activated protein kinases (extracellularly regulated kinases 1/2) in rat hypothalamic parvicellular paraventricular neurons.

Authors:  Arshad M Khan; Alan G Watts
Journal:  Endocrinology       Date:  2003-10-02       Impact factor: 4.736

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  5 in total

1.  Mapping Molecular Datasets Back to the Brain Regions They are Extracted from: Remembering the Native Countries of Hypothalamic Expatriates and Refugees.

Authors:  Arshad M Khan; Alice H Grant; Anais Martinez; Gully A P C Burns; Brendan S Thatcher; Vishwanath T Anekonda; Benjamin W Thompson; Zachary S Roberts; Daniel H Moralejo; James E Blevins
Journal:  Adv Neurobiol       Date:  2018

2.  Tools for knowledge acquisition within the NeuroScholar system and their application to anatomical tract-tracing data.

Authors:  Gully A P C Burns; Wei-Cheng Cheng
Journal:  J Biomed Discov Collab       Date:  2006-08-08

3.  Neurophysiological analytics for all! Free open-source software tools for documenting, analyzing, visualizing, and sharing using electronic notebooks.

Authors:  David M Rosenberg; Charles C Horn
Journal:  J Neurophysiol       Date:  2016-04-20       Impact factor: 2.714

Review 4.  Controlling feeding behavior by chemical or gene-directed targeting in the brain: what's so spatial about our methods?

Authors:  Arshad M Khan
Journal:  Front Neurosci       Date:  2013-12-18       Impact factor: 4.677

5.  The NeuARt II system: a viewing tool for neuroanatomical data based on published neuroanatomical atlases.

Authors:  Gully A P C Burns; Wei-Cheng Cheng; Richard H Thompson; Larry W Swanson
Journal:  BMC Bioinformatics       Date:  2006-12-13       Impact factor: 3.169

  5 in total

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