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http://www.ohsu.edu/xd/research/centers-institutes/neurology/alzheimers/research/data-tissue/neuro-imaging.cfm

NeuroImaging laboratory focused on detecting early brain changes associated with cognitive decline and dementia that manages the neuroimaging component of all studies at the Layton Aging and Alzheimer's Center including acquisition and archival services, as well as volumetric analysis of anonymized MRI scans. Assistance with resulting data is also available, including statistical analysis, and preparation of materials for presentation and publication. The Layton Center also manages a library of thousands of digitized MRI scans, including what is believed to be the largest collection of longitudinal MRI scans of cognitively intact elderly subjects. The OADC Neuroimaging Lab conducts MRI studies on both 3 and 7T MRI systems using advanced sequences, employing a multimodal approach to brain imaging research.

Proper citation: Layton Center NeuroImaging Laboratory (RRID:SCR_008823) Copy   

•   Source: SciCrunch Registry

http://www.sfn.org/index.aspx?pagename=brainfacts

Brain Facts is a 74-page primer on the brain and nervous system, published by SfN. Designed for a lay audience as an introduction to neuroscience, Brain Facts is also a valuable educational resource used by high school teachers and students who participate in Brain Awareness Week. The 2008 edition updates all sections and includes new information on brain development, learning and memory, language, neurological and psychiatric illnesses, potential therapies, and more. Download the full book (PDF) or download individual sections. All downloads are PDFs. Educators, request a copy of the Brain Facts book (paperback or CD) - contact [email protected].

Proper citation: Brain Facts (RRID:SCR_008788) Copy   

•   Source: SciCrunch Registry

http://www.ohsu.edu/xd/research/centers-institutes/neurology/alzheimers/

An aging and Alzheimer's disease research center that conducts studies of treatments, technologies for patient support, genetics, neuroimaging, and pathology. The Center's clinical research focuses on understanding differing rates of progression and cognitive decline as compared to optimal cognitive health in the elderly and are currently studying methods of gauging the progression of Alzheimer’s disease through research in genetics, neuroimaging, and cerebrospinal fluid biomarkers. Clinical trials performed at the Center include drugs targeted to ameliorate the symptoms of memory failure and slow the progression of disease.

Proper citation: OHSU Layton Aging and Alzheimer's Disease Center (RRID:SCR_008821) Copy   

•   Source: SciCrunch Registry

http://www.med.upenn.edu/cndr/biosamples-brainbank.html

A brain and tissue bank that contains human brain samples from patients with Alzheimer's disease (AD), Parkinson's disease (PD) and other related neurodegenerative dementias and movement disorders. This brain bank serves as a resource for scientists and researchers, providing access to tissue samples for further research. While priority is given to University of Pennsylvania researchers, this bank will provide requests to researchers not associated with the University of Pennsylvania. This tissue bank accepts donations from those seeing a University of Pennsylvania physician or collaborator.

Proper citation: University of Pennslyvania Brain Bank (RRID:SCR_008820) Copy   

•   Source: SciCrunch Registry

http://www.nimh.nih.gov/educational-resources/brains-inner-workings/the-brains-inner-workings-activities-for-grades-9-through-12.shtml

This comprehensive free collection of multimedia resources and inquiry-based activities tied to the National Science Education Standards help teachers and students learn about the structure, function and cognitive aspects of the human brain. The packet includes a teacher's manual, student manual, DVD of videos, and a CDROM of accompanying materials.

Proper citation: Brain's Inner Workings: Activities for Grades 9 through 12 (RRID:SCR_008842) Copy   

•   Source: SciCrunch Registry

http://psychiatry.stanford.edu/alzheimer/

Portal for gerontology research with a variety of clinical, research and educational programs, with the aim of improving the lives of those affected by Alzheimer's Disease and memory losses associated with normal aging. The Center investigates the nature of Alzheimer's Disease, its progression over time, its response to treatments, and problems patients and caregivers experience in dealing with the changes that occur. It also conducts studies that look at changes that occur over the course of normal aging and have a Normal Aging Brain Donor Program. The Aging Clinical Research Center puts out a newsletter that showcases various projects and includes informative articles on dementia.

Proper citation: Stanford/VA Aging Clinical Research Center (RRID:SCR_008678) Copy   

•   Source: SciCrunch Registry

http://www.neuroanatomy.ca/

The WEB ATLAS contains photographs of dissected brains showing important structures. The diagrams folder contains drawings showing functionally important parts of the brain as well as drawings of dissections adapted from C.G. Smith. We are particularly pleased to make Nan Cheney''s medical illustrations of the brain and the head available. The STROKE MODEL portion of the website has syndromes associated with strokes of different vessels of the brain as well as extensive diagrams and tables about the vessels of the brain. The 3D RECONSTRUCTIONS featured on this website were made from MRI scans through the brain - where indicated the source material was from the NIH Visible Human Project. The website will also contain material important for the neuroanatomy labs for med students at UBC. Weekly quizzes will help you keep up with studying the material, the podcasts will help you review material presented in the labs, and the weekly wikis will help you share information with your peers.

Proper citation: Neuroanatomy at UBC (RRID:SCR_008744) Copy   

•   Source: SciCrunch Registry

https://itunes.apple.com/be/app/3d-brain/id331399332?mt=8

iPhone and iPad app that provides a good overview of the brain and its structures allowing you to rotate and zoom around 29 interactive structures with your touch screen. Discover how each brain region functions, what happens when it is injured, and how it is involved in mental illness. Each detailed structure comes with information on functions, disorders, brain damage, case studies, and links to modern research. Compatible with iPhone, iPod touch and iPad. Requires iOS 3.0 or later.

Proper citation: 3D Brain (RRID:SCR_013138) Copy   

•   Source: SciCrunch Registry

http://nipy.org

Community site to make brain imaging research easier that aims to build software that is clearly written, clearly explained, a good fit for the underlying ideas, and a natural home for collaboration.

Proper citation: Neuroimaging in Python (RRID:SCR_013141) Copy   

•   Source: SciCrunch Registry

http://www.digitalimagesolutions.de

Stroketool-CT is a user friendly MS-Windows based software system for calculation and visualization of enhanced CT perfusion imaging data sets of the brain. It contains features such as quantitative perfusion using SVD algorithms; DICOM compatibility; rapid calculations of rCBF, MTT, rCBV, TTP,Tmax; and interactive and automatic AIF-detection.

Proper citation: Stroketool-CT (RRID:SCR_013611) Copy   

•   Source: SciCrunch Registry

https://usa.healthcare.siemens.com/magnetic-resonance-imaging/options-and-upgrades/clinical-applications/autoalign-head-ls

Software designed to automatically realign brain images for easier cross patient examination regardless of age, disease or head position. It positions and aligns anatomy-related sagittal, coronal and axial slices using anatomical landmarks.

Proper citation: AutoAlign Head (RRID:SCR_014245) Copy   

•   Source: SciCrunch Registry

https://cfn.upenn.edu/~zewang/BENtbx.php

A toolkit for mapping brain entropy using fMRI. It uses several functions from ASLtbx. At its core, the toolkit is a collection of batch scripts that implement a pipeline for processing fMRI data in order to get Sample entropy for each voxel.

Proper citation: Brain Entropy Mapping Toolbox (RRID:SCR_014470) Copy   

•   Source: SciCrunch Registry

http://www.brainsimagebank.ac.uk

A searchable collection of anonymised images and associated clinical data. It includes normal individuals at all ages (from prenatal to old age). The image bank contains integrated data sets already collected as part of research studies which include control subjects. New data is added as they become available.

Proper citation: BRAINS Imagebank (RRID:SCR_014576) Copy   

•   Source: SciCrunch Registry

http://coins.mrn.org/

A web-based neuroimaging and neuropsychology software suite that offers versatile, automatable data upload/import/entry options, rapid and secure sharing of data among PIs, querying and export all data, real-time reporting, and HIPAA and IRB compliant study-management tools suitable to large institutions as well as smaller scale neuroscience and neuropsychology researchers. COINS manages over over 400 studies, more than 265,000 clinical neuropsychological assessments, and 26,000 MRI, EEG, and MEG scan sessions collected from 18,000 participants at over ten institutions on topics related to the brain and behavior. As neuroimaging research continues to grow, dynamic neuroinformatics systems are necessary to store, retrieve, mine and share the massive amounts of data. The Collaborative Informatics and Neuroimaging Suite (COINS) has been created to facilitate communication and cultivate a data community. This tool suite offers versatile data upload/import/entry options, rapid and secure sharing of data among PIs, querying of data types and assessments, real-time reporting, and study-management tools suitable to large institutions as well as smaller scale researchers. It manages studies and their data at the Mind Research Network, the Nathan Kline Institute, University of Colorado Boulder, the Olin Neuropsychiatry Research Center (at) Hartford Hospital, and others. COINS is dynamic and evolves as the neuroimaging field grows. COINS consists of the following collaboration-centric tools: * Subject and Study Management: MICIS (Medical Imaging Computer Information System) is a centralized PostgreSQL-based web application that implements best practices for participant enrollment and management. Research site administrators can easily create and manage studies, as well as generate reports useful for reporting to funding agencies. * Scan Data Collection: An automated DICOM receiver collects, archives, and imports imaging data into the file system and COINS, requiring no user intervention. The database also offers scan annotation and behavioral data management, radiology review event reports, and scan time billing. * Assessment Data Collection: Clinical data gathered from interviews, questionnaires, and neuropsychological tests are entered into COINS through the web application called Assessment Manager (ASMT). ASMT's intuitive design allows users to start data collection with little or no training. ASMT offers several options for data collection/entry: dual data entry, for paper assessments, the Participant Portal, an online tool that allows subjects to fill out questionnaires, and Tablet entry, an offline data entry tool. * Data Sharing: De-identified neuroimaging datasets with associated clinical-data, cognitive-data, and associated meta-data are available through the COINS Data Exchange tool. The Data Exchange is an interface that allows investigators to request and share data. It also tracks data requests and keeps an inventory of data that has already been shared between users. Once requests for data have been approved, investigators can download the data directly from COINS.

Proper citation: Mind Research Network - COINS (RRID:SCR_000805) Copy   

•   Source: SciCrunch Registry

http://www.loni.ucla.edu/~thompson/thompson.html

The UCLA laboratory of neuroimaging is working in several areas to enhance knowledge of anatomy, including brain mapping in large human populations, HIV, Schizophrenia, methamphetamine, tumor growth and 4d brain mapping, genetics and detection of abnormalities.

Proper citation: University of California at Los Angeles, School of Medicine: Neuro Imaging Lab of Thompson (RRID:SCR_001924) Copy   

•   Source: SciCrunch Registry

http://sig.biostr.washington.edu/projects/MindSeer/index.html

A cross-platform application for 3D brain visualization for multi-modality neuroimaging data written in Java/Java3D, that runs in both standalone and client-server mode. It supports basic data management capabilities, visualization of 3D surfaces (SPM's output or OFF files), volumes (Analyze, NIFTI or Minc) and label sets. MindSeer has 2 different modes: # Client/Server is designed to allow users to visualize data that is stored centrally and enhance collaboration. # Standalone mode is available to view local data and is built for more performance than Client/Server Both modes have the same interface and support the same features. It has a modular architecture and is designed to be extensible. Requirements: # Java 5.0 or above. # Java Web Start. # Java3D (installed automatically by Web Start).

Proper citation: MindSeer (RRID:SCR_003019) Copy   

•   Source: SciCrunch Registry

https://nemoanalytics.org/

Portal enabling web based visualization and analysis of multi omic data describing cell types in developing and adult brain, powered by gEAR and EpiViz. Release 1 on April 2019 includes single cell and bulk tissue RNAseq, ATACseq, and ChIPseq from fetal human prefrontal cortex, as well as from stem cell models of neural induction. Portal will expand to include multiple regions of developing and adult brain and additional analytical tools.

Proper citation: NeMO Analytics (RRID:SCR_018164) Copy   

•   Source: SciCrunch Registry

http://www.neuro.uni-jena.de/cat/

Software toolbox as extension to SPM12 to provide computational anatomy. This covers diverse morphometric methods such as voxel based morphometry, surface based morphometry, deformation based morphometry, and region or label based morphometry.

Proper citation: Computational Anatomy Toolbox for SPM (RRID:SCR_019184) Copy   

•   Source: SciCrunch Registry

http://conp.ca/

Web interface that facilitates open science for neuroscience community by simplifying global access to and sharing of datasets and tools. Portal internalizes typical data cycle of research project, beginning with data acquisition, followed by data processing with published tools, and ultimately publication of results with link to original dataset. Platform to form interactive network of collaborations in brain research, interdisciplinary student training, international partnerships, clinical translation and open publishing. Provides unified interface to Canadian neuroscience research community. Open neuroscience research with sharing of both data and methods, to create large-scale databases, development of standards for sharing, facilitation of advanced analytic strategies, open dissemination to global community of neuroscience data and methods, and establishment of training programs for next generation of computational neuroscience researchers.

Proper citation: Canadian Open Neuroscience Platform (RRID:SCR_016433) Copy   

•   Source: SciCrunch Registry

http://www.nitrc.org/projects/uf2c/

Software tool to standardize and facilitate connectivity studies through a graphical user interface and validated preset parameters.

Proper citation: User Friendly Functional Connectivity - UF²C (RRID:SCR_016550) Copy   

•   Source: SciCrunch Registry