Tools   Select Another Resource Report Type

https://github.com/bids-standard/bids-validator

Software validation tool that checks submitted folder structure for compliance to BIDS data standard. Validates Brain Imaging Data Structure.

Proper citation: BIDS Validator (RRID:SCR_017255) Copy   

•   Source: SciCrunch Registry

http://www.nitrc.org/projects/brainlife_io/

Platform for publishing reproducible code and datasets and providing access to national supercomputers, private clouds, and institutional high-performance computer systems to promote open software and data sharing to advance understanding of the human brain.

Proper citation: brainlife.io (RRID:SCR_016513) Copy   

•   Source: SciCrunch Registry

https://www.med.upenn.edu/sbia/brats2017.html

Organization that provides a conference about the methods for the segmentation of brain tumors in magnetic resonance imaging (MRI) scans. Its conferences utilize multi-institutional pre-operative MRI scans and focus on the segmentation of intrinsically heterogeneous (in appearance, shape, and histology) brain tumors, namely gliomas.

Proper citation: BraTS (RRID:SCR_016214) Copy   

•   Source: SciCrunch Registry

https://cic.ini.usc.edu/

Project to create complete mesoscale connectivity atlas of the C57Black/6 mouse brain and to subsequently generate its global neural networks.

Proper citation: Mouse Connectome Project (RRID:SCR_017313) Copy   

•   Source: SciCrunch Registry

https://www.drugabuse.gov

Portal provides list of genetic resources such as Brain Atlases and genomes for various species provided by National Institute of Drug Abuse.

Proper citation: Compilation of Genetics Resource Databases (RRID:SCR_017501) Copy   

•   Source: SciCrunch Registry

https://github.com/nipy/heudiconv

Software tool as flexible DICOM converter for organizing brain imaging data into structured directory layouts.

Proper citation: HeuDiConv: a heuristic-centric DICOM converter (RRID:SCR_017427) Copy   

•   Source: SciCrunch Registry

http://www.morf-brain.com/

Portal devoted to suite of MORF reporter mice labels of Cre positive neurons and glia distributed stochastically throughout brain and can be imaged with endogenous fluorescence (mNeonGreen in MORF1 and EGFP in TIGRE-MORF) or stained for multivalent immunoreporter (Spaghetti Monster fluorescent protein V5, or smFP-V5, in MORF3). MORF technology used to label and reconstruct thousands genetically defined cells per brain for large scale, unbiased classification and quantitative analyses of CNS cell types brainwide.

Proper citation: Mononucleotide Repeat Frameshift Portal (RRID:SCR_021125) Copy   

•   Source: SciCrunch Registry

http://www.kcl.ac.uk/ioppn/depts/cn/research/MRC-London-Neurodegenerative-Diseases-Brain-Bank/MRC-London-Neurodegenerative-Diseases-Brain-Bank.aspx

A biomaterial supply resource which provides high quality, clinically and neuropathologically well-characterised human brain and spinal cord tissue. The Brain Bank focuses on neurodegenerative diseases such as Alzheimer’s Disease (AD), Frontotemperal dementias (FTD) and Motor Neurone Disease (MND). However, it also contains tissues for the study of HIV, Autism and Schizophrenia, and movement disorders.

Proper citation: MRC London Neurodegenerative Diseases Brain Bank (RRID:SCR_013839) Copy   

•   Source: SciCrunch Registry

http://semmelweis.hu/hbtb/

A biomaterial resource which stores and distributes dissected human brain samples and topographically oriented tissue blocks. Most brains were removed from the skull and frozen within 2-6 hours after death. The microdissection of 260 different brain nuclei is performed on frozen brains and the samples are kept in -70ºC. Materials must be studied in the course of an approved research project, which has scientific aims and is devoid of any commercial profit for the researches involved and for their respective institutions.

Proper citation: Human Brain Tissue Bank (RRID:SCR_013837) Copy   

•   Source: SciCrunch Registry

http://www.stritch.luc.edu/depts/path/residency/anatomic_pathology.htm#Neuropathology

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 31, 2016. A medical center with a neuropathology research program focused on the normal and abnormal aging process of the central nervous system and a funding source for research. The center serves as a collection site for brains in order to study normal aging and neurodegenerative diseases like Alzheimer's.

Proper citation: Loyola University Medical Center / Hines VA Brain Bank (RRID:SCR_013277) Copy   

•   Source: SciCrunch Registry

http://www.uzh.ch/keyinst/loreta

Software application which computes cortical three-dimensional distribution of current density of the brain based on the scalp-recorded electric potential distribution. The exact low resolution brain electromagnetic tomography method has the property of exact localization to test point sources, yielding images of current density with exact localization, albeit with low spatial resolution. eLORETA has no localization bias even in the presence of structured noise. Deep structures, such as the anterior cingulate cortex and mesial temporal lobes, can be correctly localized with these methods.

Proper citation: exact Low Resolution Electromagnetic Tomography (RRID:SCR_013830) Copy   

•   Source: SciCrunch Registry

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3520032/

Algorithm for computational imaging of MRI data that detects and quantifies ischemic core–penumbra using only a single MRI modality (T2- or diffusion-weighted imaging, T2WI/DWI). It can be used with 3D data on lesions and normal-appearing brain matter (NABM) volumes.

Proper citation: Hierarchical Region Splitting (RRID:SCR_016398) Copy   

•   Source: SciCrunch Registry

https://github.com/jefferis/elmr

Software tool as support for working with light and electron microscopy fly brain data. Part of suite of R packages based on NeuroAnatomy Toolbox. Provides tools to move between adult brain EM and light level data, emphasising interaction between CATMAID web application and R Neuroanatomy Toolbox package.

Proper citation: elmr (RRID:SCR_017249) Copy   

•   Source: SciCrunch Registry

https://www.mbfbioscience.com/neurolucida-explorer

Companion analytical software for Neurolucida and Neurolucida 360, designed to perform extensive morphometric analysis on neuron reconstructions, serial section reconstructions, and brain maps.

Proper citation: Neurolucida Explorer (RRID:SCR_017348) Copy   

•   Source: SciCrunch Registry

https://sourceforge.net/projects/bva-io/

Software package for interfacing the Brain Vision Analyser data files (load/save) for ongoing development of Matlab routines . This package is also compatible with the EEGLAB software, and may be uncompressed in the plugin folder of this software.

Proper citation: BVA import/export EEGLAB plugin (RRID:SCR_016333) Copy   

•   Source: SciCrunch Registry

http://chronux.org

Open-source software package for the analysis of neural data. Chronux routines may be employed in the analysis of both point process and continuous data, ranging from preprocessing, exploratory and confirmatory analysis. The current release is implemented as a MATLAB library. Chronux offers several routines for computing spectra and coherences for both point and continuous processes. In addition, it also offers several general purpose routines that were found useful such as a routine for extracting specified segments from data, or binning spike time data with bins of a specified size. Since the data can be continuous valued, point process times, or point processes that are binned, methods that apply to all these data types are given in routines whose names end with ''''c'''' for continuous, ''''pb'''' for binned point processes, and ''''pt'''' for point process times. Thus, mtspectrumc computes the spectrum of continuous data, mtspectrumpb computes a spectrum for binned point processes, and mtspectrumpt compute spectra for data consisting of point process times. Hybrid routines are also available and similarly named - for instance coherencycpb computes the coherency between continuous and binned point process data.

Proper citation: Chronux (RRID:SCR_005547) Copy   

•   Source: SciCrunch Registry

http://www.research.va.gov/programs/tissue_banking/als/

A human tissue bank that collects, processes, stores and gives out research specimens for future scientific studies. Presently, the VABBB is obtaining neurologic tissue specimens from Veterans who suffer from amyotrophic lateral sclerosis (ALS) and other illnesses that affect Veterans, along with relevant clinical data, essential for research. Currently, neither the cause nor prevention of ALS is known. Medical researchers are currently examining environmental, toxic, genetic, traumatic, medical, and occupational influences as possible contributors to the development and progression of ALS. Veterans have a higher risk of developing ALS compared with non-Veterans; however, the reasons for this higher risk are currently unknown. Any Veteran with ALS in the U.S. may enroll in the VABBB.

Proper citation: VA Biorepository Brain Bank (RRID:SCR_006546) Copy   

•   Source: SciCrunch Registry

http://www.utdallas.edu/bbs/

Mission of the School of Behavioral and Brain Sciences is to understand the intersection of mind, brain and behavior; enhance the health, education, and quality of life of children and families; and create and implement technologies and therapies that repair and strengthen human abilities. The School is housed in Green Hall on the main UT Dallas campus in Richardson. It also has satellite research centers and facilities in downtown Dallas.

Proper citation: University of Texas at Dallas School of Behavioral and Brain Sciences (RRID:SCR_004645) Copy   

•   Source: SciCrunch Registry

http://crcns.org

Website for brain experimental data and other resources such as stimuli and analysis tools. Provides marketplace and discussion forum for sharing tools and data in neuroscience. Data repository and collaborative tool that supports integration of theoretical and experimental neuroscience through collaborative research projects. CRCNS offers funding for new class of proposals focused on data sharing and other resources.

Proper citation: CRCNS (RRID:SCR_005608) Copy   

•   Source: SciCrunch Registry

https://www.bminds.brain.riken.jp/

Web-accessible digital brain atlas of the common marmoset (Callithrix jacchus), prepared from histological sections of the marmoset brain using various staining techniques.

Proper citation: Digital Brain Atlas of the Common Marmoset (RRID:SCR_005069) Copy   

•   Source: SciCrunch Registry