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on page 1 showing 20 out of 135 results

    DRIFTER

Cite this (DRIFTER, RRID:SCR_014937)

URL: http://becs.aalto.fi/en/research/bayes/drifter/

Resource Type: Resource, software resource, image analysis software, data processing software, software application

Model based Bayesian method for eliminating physiological noise from fMRI data. This algorithm uses image voxel analysis to isolate the cardiac and respiratory noise from the relevant data.

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Cite this (NeuroPedia, RRID:SCR_001551)

URL: http://proteomics.ucsd.edu/Software/NeuroPedia/index.html

Resource Type: Resource, data or information resource, database

A neuropeptide encyclopedia of peptide sequences (including genomic and taxonomic information) and spectral libraries of identified MS/MS spectra of homolog neuropeptides from multiple species.

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Cite this (KESM brain atlas, RRID:SCR_001559)

URL: http://kesm.cs.tamu.edu

Resource Type: Resource, atlas, source code, software resource, data or information resource

A web-based, light-weight 3D volume viewer that serves large volumes (typically the whole brain) of high-resolution mouse brain images (~1.5 TB per brain, ~1 um resolution) from the Knife-Edge Scanning Microscope (KESM), invented by Bruce H. McCormick. Currently, KESMBA serves the following data sets: * Mouse: Whole-brain-scale Golgi (acquired 2008 spring): neuronal morphology: Choe et al. (2009) * Mouse: Whole-brain India Ink (acquired 2008 spring): vascular network: Choe et al. (2009); Mayerich et al. (2011); * Mouse: Whole-brain Golgi (acquired 2011 summer): neuronal morphology: Choe et al. (2011); Chung et al. (2011); * Mouse: Whole-brain Nissl (acquired 2009-2010 winter): somata (Choe et al. 2010) (Coming soon) They will ship you the full data set on a hard drive if you provide them with the hard drive and shipping cost.

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Cite this (Mouse Thalamic Projectome Dataset, RRID:SCR_015702)

URL: https://www.ohsu.edu/custom/library/digital-collections/projectionmap

Resource Type: Resource, data set, data or information resource

Data set of thalamo-centric mesoscopic projection maps to the cortex and striatum. The maps are established through two-color, viral (rAAV)-based tracing images and high throughout imaging.

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Cite this (UltraMegaSort 2000, RRID:SCR_015857)

URL: https://neurophysics.ucsd.edu/software.php

Resource Type: Resource, software resource, algorithm resource

Matlab-based routines for the detection and clustering of putative single units from a multi-unit time series, along with quality metrics. This sofwtare was developed by the David Kleinfeld Laboratory at UC San Diego.

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    PD-DOC

Cite this (PD-DOC, RRID:SCR_001596)

URL: http://www.pd-doc.org/

Resource Type: Resource, topical portal, database, service resource, portal, storage service resource, data repository, data or information resource

THIS RESOURCE IS NO LONGER IN SERVICE, documented on December 02, 2011. Notice: This domain name expired on 10/29/11 and is pending renewal or deletion PD-DOC is a portal and a database resource, hosting a database and linking to other databases and data sets of clinical and translational data. PD-DOC functions to organize and facilitate clinical and translational research in Parkinson's disease. The PD-DOC Database contains standardized data collected by user institutions on large numbers of patients with Parkinsons disease and other parkinsonian disorders. In some cases, data is obtained at a single point in time, while in others data is collected repeatedly over time. The PD-DOC Database is composed of the Core Data Set (CDS) which consists of those variables required to be gathered for each subject whose data is entered into the PD-DOC database. In 2005, working groups of Udall Center and invited experts deliberated to establish the components of each CDS section (e.g. General Clinical, Cognitive/Behavioral, Postmortem Brain Neuropathological Findings). The PD-DOC CDS was established and designed to optimize data analyses and data mining for large numbers of subjects participating in a variety of research studies. In most cases corresponding DNA samples are available form the NINDS Human Genetic Repository (at Coriell). Much of the website is publicly available for viewing. To request access to sections of the website dealing with downloading or requesting data, requesting a consultation, or submitting data or other information you will need to register. Before registering, you should read the PD-DOC Policies. Note that PD-DOC data can be used for research purposes only. Once your registration is successfully completed you will be automatically logged into the website.

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Cite this (Research Services Branch National Institutes of Mental Health, RRID:SCR_001633)

URL: http://rsb.info.nih.gov/

Resource Type: Resource, portal, data or information resource

Portal for NIH, NIMH, and NINDS scientific and computer resources including Mac sites, PC sites, Linux sites, intramural programs, intranet and the NIH JumpStart and Directory.

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Cite this (Internet Brain Volume Database, RRID:SCR_002060)

URL: http://www.cma.mgh.harvard.edu/ibvd/

Resource Type: Resource, data or information resource, database

A database of brain neuroanatomic volumetric observations spanning various species, diagnoses, and structures for both individual and group results. A major thrust effort is to enable electronic access to the results that exist in the published literature. Currently, there is quite limited electronic or searchable methods for the data observations that are contained in publications. This effort will facilitate the dissemination of volumetric observations by making a more complete corpus of volumetric observations findable to the neuroscience researcher. This also enhances the ability to perform comparative and integrative studies, as well as metaanalysis. Extensions that permit pre-published, non-published and other representation are planned, again to facilitate comparative analyses. Design strategy: The principle organizing data structure is the "publication". Publications report on "groups" of subjects. These groups have "demographic" information as well as "volume" information for the group as a whole. Groups are comprised of "individuals", which also have demographic and volume information for each of the individuals. The finest-grained data structure is the "individual volume record" which contains a volume observation, the units for the observation, and a pointer to the demographic record for individual upon which the observation is derived. A collection of individual volumes can be grouped into a "group volume" observation; the group can be demographically characterized by the distribution of individual demographic observations for the members of the group.

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Cite this (NeuroMorpho.Org, RRID:SCR_002145)

URL: http://neuromorpho.org/index.jsp

Resource Type: Resource, service resource, data or information resource, data repository, storage service resource, database

Centrally curated inventory of digitally reconstructed neurons associated with peer-reviewed publications that contains some of the most complete axonal arborizations digitally available in the community. Each neuron is represented by a unique identifier, general information (metadata), the original and standardized ASCII files of the digital morphological reconstruction, and a set of morphometric features. It contains contributions from over 100 laboratories worldwide and is continuously updated as new morphological reconstructions are collected, published, and shared. Users may browse by species, brain region, cell type or lab name. Users can also download morphological reconstructions for research and analysis. Deposition and distribution of reconstruction files ultimately prevents data loss. Centralized curation and annotation aims at minimizing the effort required by data owners while ensuring a unified format. It also provides a one-stop entry point for all available reconstructions, thus maximizing data visibility and impact.

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Cite this (BAMS Nested Regions, RRID:SCR_000238)

URL: http://brancusi.usc.edu/bkms/

Resource Type: Resource, data or information resource, database

BAMS is an online resource for information about neural circuitry. The BAMS Nested Regions view focuses on the major brain regions and their relationships. THIS RESOURCE IS NO LONGER AVAILABLE. Documented on July 7th, 2019.

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Cite this (Parkinson’s Disease Biomarkers Program Data Management Resource (PDBP DMR), RRID:SCR_002517)

URL: https://pdbp.ninds.nih.gov

Resource Type: Resource, disease-related portal, topical portal, database, standard specification, narrative resource, service resource, portal, storage service resource, data repository, data or information resource

Common data management resource and web portal to promote discovery of Parkinson's Disease diagnostic and progression biomarker candidates for early detection and measurement of disease progression. PDBP will serve as multi-faceted platform for integrating existing biomarker efforts, standardizing data collection and management across these efforts, accelerating discovery of new biomarkers, and fostering and expanding collaborative opportunities for all stakeholders.

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    ImageJ

Cite this (ImageJ, RRID:SCR_003070)

URL: https://imagej.net/

Resource Type: Resource, image analysis software, data analysis software, data processing software, software application, software resource, software toolkit, image processing software

Software tool as open source Java based image processing program designed for scientific multidimensional images. ImageJ has been transformed to ImageJ2 application to improve data engine to be sufficient to analyze modern datasets.

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Cite this (NIH Image, RRID:SCR_003073)

URL: http://rsb.info.nih.gov/nih-image/index.html

Resource Type: Resource, source code, data processing software, image analysis software, software application, software resource, image processing software

Public image processing and analysis program for Macintosh.

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Cite this (Neuroimaging Informatics Technology Initiative, RRID:SCR_003141)

URL: http://nifti.nimh.nih.gov/

Resource Type: Resource, knowledge environment, training resource

Coordinated and targeted service, training, and research to speed the development and enhance the utility of informatics tools related to neuroimaging. The initial focus will be on tools that are used in fMRI. If NIfTI proves useful in addressing informatics issues in the fMRI research community, it may be expanded to address similar issues in other areas of neuroimaging. Objectives of NIfTI * Enhancement of existing informatics tools used widely in neuroimaging research * Dissemination of neuroimaging informatics tools and information about them * Community-based approaches to solving common problems, such as lack of interoperability of tools and data * Unique training activities and research career development opportunities to those in the tool-user and tool-developer communities * Research and development of the next generation of neuroimaging informatics tools

  • From Current Category

Cite this (Datasharing.net, RRID:SCR_003312)

URL: http://datasharing.net

Resource Type: Resource, topical portal, portal, data or information resource

The U.S. National Institutes of Health Final NIH Statement on Sharing Research Data (NIH-OD-03-032) is now in effect. It specifies that all high-direct-cost NIH grant applications include plans for sharing of research data. To support and encourage collegial, enabling, and rewarding data sharing for neuroscience and beyond, the Laboratory of Neuroinformatics at Weill Medical College of Cornell University has established this site. A source of, and portal to, tools and proposals supporting the informed exchange of neuroscience data.

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Cite this (LONI Software, RRID:SCR_003323)

URL: http://loni.usc.edu/Software/

Resource Type: Resource, software resource, software application, software repository, data analysis software, data processing software

A portal of software resources offered by UCLA's Laboratory of Neuro Imaging. LONI Webapps allow users to analyze, visualize and interact with neuroscience data directly from their web browser. LONI aims to encourage communication between users and LONI software engineers in order to improve the effectiveness of our software and to promote its use by researchers worldwide. We have expanded our software website to include more tools, training and support. Be sure to visit LONI Forums and discuss our tools with other end-users as well as our dedicated LONI staff.

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Cite this (NIH MRI Study of Normal Brain Development, RRID:SCR_003394)

URL: http://www.pediatricmri.nih.gov/

Resource Type: Resource, data set, narrative resource, experimental protocol, data or information resource

Data sets of clinical / behavioral and image data are available for download by qualified researchers from a seven year, multi-site, longitudinal study using magnetic resonance technologies to study brain maturation in healthy, typically-developing infants, children, and adolescents and to correlate brain development with cognitive and behavioral development. The information obtained in this study is expected to provide essential data for understanding the course of normal brain development as a basis for understanding atypical brain development associated with a variety of developmental, neurological, and neuropsychiatric disorders affecting children and adults. This study enrolled over 500 children, ranging from infancy to young adulthood. The goal was to study each participant at least three times over the course of the project at one of six Pediatric Centers across the United States. Brain MR and clinical/behavioral data have been compiled and analyzed at a Data Coordinating Center and Clinical Coordinating Center. Additionally, MR spectroscopy and DTI data are being analyzed. The study was organized around two objectives corresponding to two age ranges at the time of enrollment, each with its own protocols. * Objective 1 enrolled children ages 4 years, 6 months through 18 years (total N = 433). This sample was recruited across the six Pediatric Study Centers using community based sampling to reflect the demographics of the United States in terms of income, race, and ethnicity. The subjects were studied with both imaging and clinical/behavioral measures at two year intervals for three time points. * Objective 2 enrolled newborns, infants, toddlers, and preschoolers from birth through 4 years, 5 months, who were studied three or more times at two Pediatric Study Centers at intervals ranging from three months for the youngest subjects to one year as the children approach the Objective 1 age range. Both imaging and clinical/behavioral measures were collected at each time point. Participant recruitment used community based sampling that included hospital venues (e.g., maternity wards and nurseries, satellite physician offices, and well-child clinics), community organizations (e.g., day-care centers, schools, and churches), and siblings of children participating in other research at the Pediatric Study Centers. At timepoint 1, of those enrolled, 114 children had T1 scans that passed quality control checks. Staged data release plan: The first data release included structural MR images and clinical/behavioral data from the first assessments, Visit 1, for Objective 1. A second data release included structural MRI and clinical/behavioral data from the second visit for Objective 1. A third data release included structural MRI data for both Objective 1 and 2 and all time points, as well as preliminary spectroscopy data. A fourth data release added cortical thickness, gyrification and cortical surface data. Yet to be released are longitudinally registered anatomic MRI data and diffusion tensor data. A collaborative effort among the participating centers and NIH resulted in age-appropriate MR protocols and clinical/behavioral batteries of instruments. A summary of this protocol is available as a Protocol release document. Details of the project, such as study design, rationale, recruitment, instrument battery, MRI acquisition details, and quality controls can be found in the study protocol. Also available are the MRI procedure manual and Clinical/Behavioral procedure manuals for Objective 1 and Objective 2.

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Cite this (BAMS Cells, RRID:SCR_003531)

URL: https://bams1.org/cells/list.php, https://bams1.org/cells/search_bams_ref.php, https://bams1.org/cells/search_by_brain_region.php

Resource Type: Resource, data or information resource, database

BAMS is an online resource for information about neural circuitry. The BAMS Cell view focuses on the major brain regions and which cells are contained therein.

  • From Current Category

Cite this (National Brain Databank, RRID:SCR_003606)

URL: http://national_databank.mclean.org

Resource Type: Resource, data set, data or information resource, database

THIS RESOURCE IS NO LONGER IN SERVCE, documented September 6, 2016. A publicly accessible data repository to provide neuroscience investigators with secure access to cohort collections. The Databank collects and disseminates gene expression data from microarray experiments on brain tissue samples, along with diagnostic results from postmortem studies of neurological and psychiatric disorders. All of the data that is derived from studies of the HBTRC collection is being incorporated into the National Brain Databank. This data is available to the general public, although strict precautions are undertaken to maintain the confidentiality of the brain donors and their family members. The system is designed to incorporate MIAME and MAGE-ML based microarray data sharing standards. Data from various types of studies conducted on brain tissue in the HBTRC collection will be available from studies using different technologies, such as gene expression profiling, quantitative RT-PCR, situ hybridization, and immunocytochemistry and will have the potential for providing powerful insights into the subregional and cellular distribution of genes and/or proteins in different brain regions and eventually in specific subregions and cellular subtypes.

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Cite this ( Trans-Institute Angiogenesis Research Program , RRID:SCR_000384)

URL: http://www.tarp.nih.gov/

Resource Type: Resource, portal, topical portal, resource, data or information resource

Trans-NIH program encouraging and facilitating the study of the underlying mechanisms controlling blood vessel growth and development. Other aims include: to identify specific targets and to develop therapeutics against pathologic angiogenesis in order to reduce the morbidity due to abnormal blood vessel proliferation in a variety of disease states; to better understand the process of angiogenesis and vascularization to improve states of decreased vascularization; to encourage and facilitate the study of the processes of lymphangiogenesis; and to achieve these goals through a multidisciplinary approach, bringing together investigators with varied backgrounds and varied interests.

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