Neurosynth

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Neurosynth
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NeuroSynth

Category: Neurosynth
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Neuroinformatics database

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Neurosynth is a neuroinformatics database developed by Tal Yarkoni. It is available from:

http://neurosynth.org/

It contains Talairach coordinates (MNI coordinates) from neuroimaging studies. The method is described in the paper:

Tal Yarkoni, Russell A. Poldrack, Thomas E. Nichols, David C. Van Essen, Tor D. Wager (2011). "Large-scale automated synthesis of human functional neuroimaging data". Nature Methods missing volume: missing pages. doi: 10.1038/NMETH.1635. [1].

Papers in the Brede Wiki that are also present in the NeuroSynth database may be listed in the Papers in Neurosynth category.

Some data is available from:

https://github.com/neurosynth/neurosynth-data

Contents

[edit] Papers

[edit] Primary

  1. Large-scale automated synthesis of human functional neuroimaging data
  2. NeuroSynth: a new platform for large-scale automated synthesis of human functional neuroimaging data

[edit] Other

  1. Decoding the role of the insula in human cognition: functional parcellation and large-scale reverse inference
  2. Discovering relations between mind, brain, and mental disorders using topic mapping
  3. Topic mapping: a literature-wide analysis of mind-brain relationships

[edit] Python

Here we are using the Brede package https://github.com/fnielsen/brede

[edit] PubMed identifiers

How many papers are there in Neurosynth?

>>> from brede.data.neurosynth import NeurosynthDatabase
>>> nd = NeurosynthDatabase()
>>> nd_database = nd.database()
>>> neurosynth_pmids = set(nd_database.id)
>>> len(neurosynth_pmids)
10903

Comparison with Brede Wiki - how many papers are there in the Brede Wiki with a PMID:

>>> from brede.data.bredewiki import BredeWikiTemplates
>>> bwt = BredeWikiTemplates()
>>> papers = bwt.tables.brede_paper.all()
>>> bredewiki_pmids = set(papers._pmid.dropna().astype(int))
>>> len(bredewiki_pmids)
840

Number of papers in Brede Wiki linked to Neurosynth:

>>> bredewiki_neurosynth_pmids = set(papers._neurosynth.dropna().astype(int))
>>> len(bredewiki_neurosynth_pmids)
14

PMID of papers in Brede Wiki that could be linked to Neurosynth:

>>> (neurosynth_pmids - bredewiki_neurosynth_pmids) & bredewiki_pmids
set([19246473, 23055490, 15928068, 18509462, 18296073, 19366871 ...
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