Linked Life Data

18692360

Source:http://linkedlifedata.com/resource/pubmed/id/18692360

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PredicateObject
rdf:type
lifeskim:mentions
pubmed:issue
8
pubmed:dateCreated
2008-10-20
pubmed:abstractText
The complexity of neurophysiology data has increased tremendously over the last years, especially due to the widespread availability of multi-channel recording techniques. With adequate computing power the current limit for computational neuroscience is the effort and time it takes for scientists to translate their ideas into working code. Advanced analysis methods are complex and often lack reproducibility on the basis of published descriptions. To overcome this limitation we develop FIND (Finding Information in Neural Data) as a platform-independent, open source framework for the analysis of neuronal activity data based on Matlab (Mathworks). Here, we outline the structure of the FIND framework and describe its functionality, our measures of quality control, and the policies for developers and users. Within FIND we have developed a unified data import from various proprietary formats, simplifying standardized interfacing with tools for analysis and simulation. The toolbox FIND covers a steadily increasing number of tools. These analysis tools address various types of neural activity data, including discrete series of spike events, continuous time series and imaging data. Additionally, the toolbox provides solutions for the simulation of parallel stochastic point processes to model multi-channel spiking activity. We illustrate two examples of complex analyses with FIND tools: First, we present a time-resolved characterization of the spiking irregularity in an in vivo extracellular recording from a mushroom-body extrinsic neuron in the honeybee during odor stimulation. Second, we describe layer specific input dynamics in the rat primary visual cortex in vivo in response to visual flash stimulation on the basis of multi-channel spiking activity.
pubmed:language
eng
pubmed:journal
pubmed:citationSubset
IM
pubmed:status
MEDLINE
pubmed:month
Oct
pubmed:issn
0893-6080
pubmed:author
pubmed:issnType
Print
pubmed:volume
21
pubmed:owner
NLM
pubmed:authorsComplete
Y
pubmed:pagination
1085-93
pubmed:meshHeading
pubmed:year
2008
pubmed:articleTitle
FIND--a unified framework for neural data analysis.
pubmed:affiliation
Bernstein Center for Computational Neuroscience, Albert-Ludwigs-University, Freiburg, Germany. meier@biologie.uni-freiburg.de
pubmed:publicationType
Journal Article, Research Support, Non-U.S. Gov't