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http://trans.nih.gov/CEHP/

Trans-NIH project to assess the state of longitudinal and epidemiological research on demographic, social and biologic determinants of cognitive and emotional health in aging adults and the pathways by which cognitive and emotional health may reciprocally influence each other. A database of large scale longitudinal study relevant to healthy aging in 4 domains was created based on responses of investigators conducting these studies and is available for query. The four domains are: * Cognitive Health * Emotional Health * Demographic and Social Factors * Biomedical and Physiologic Factors

Proper citation: Cognitive and Emotional Health Project: The Healthy Brain (RRID:SCR_007390) Copy   

•   Source: SciCrunch Registry

http://www.nia.nih.gov/research/dab/nia-mutant-mouse-aging-colony-handbook

THIS RESOURCE IS NO LONGER IN SERVICE, documented on September 09, 2013. Supply aged mutant and transgenic mice for NIH-supported research directly related to the biology of aging. The mice are raised by the NIA's contractor, Taconic Farms, in Specific Pathogen-Free (SPF) barrier facilities. The strains in the mutant mouse aging colony have been donated by the investigators who developed the models, and those investigators are still the legally recognized owners of the intellectual property. A Material Transfer Agreement (MTA) is required to purchase the mice (a one-time requirement per strain). There are restrictions to the use of this colony as described in the MTA. These restrictions include a prohibition against breeding the mice purchased from the NIA Mutant Mouse Aging Colony, agreement that the mice will not be used for commercial purposes, and agreement that the mice and all derivatives will not be transferred to third parties. The restrictions are further spelled out in the MTA. Animals are sold by age, not weight, and ages are stated in 1 month intervals only; all animals born within a calendar month are considered to be the same age, so date of birth (DOB) is given as month/year. All mice are virgins. The mutant mouse aging colony is slated to end in September 2013. Old mice will be available until September 2013 but the availability of young mice will end earlier. Entries of different strains into the mutant mouse aging colony will end at different times, dependent on the lifespan and pattern of use of the strain. Mouse models include: * Snell Dwarf (3623) ??????????????? last entry will be the November 2011 DOB (date of birth) * Ames Dwarf (324) ??????????????? last entry will be the October 2012 DOB * A53T ???????????????????????-synuclein Transgenic (322) ??????????????? last entry will be the December 2012 DOB * GFP Transgenic (317) ??????????????? last entry will be the January 2013 DOB

Proper citation: NIA Mutant Mouse Aging Colony Handbook (RRID:SCR_007328) Copy   

•   Source: SciCrunch Registry

http://www.icpsr.umich.edu/icpsrweb/NACDA/

Archive of data relevant to gerontological and aging research. Used to advance research on aging. Subjects include demographic, social, economic, and psychological characteristics of older adults, physical health and functioning of older adults, and health care needs of older adults. NACDA staff represents team of professional researchers, archivists and technicians who work together to obtain, process, distribute, and promote data relevant to aging research.

Proper citation: National Archive of Computerized Data on Aging (NACDA) (RRID:SCR_005876) Copy   

•   Source: SciCrunch Registry

http://sageweb.org/

A resource center that distributes important resources to the biogerontological community and facilitates interactions and collaborative efforts amongst researchers to aid biogerontologists and enhance research into the basic biology of aging. They aim to make SAGEWEB the premier aging-related website containing a variety of different content types including: * Databases related to the basic biology of aging * Software and bioinformatic tools for aging-related science * Educational tools for teachers and students interested in aging biology * Primers on important topics in aging-related science * Videos and podcasts of aging-related topics * Aging-related discussion forums and blogs * Links to additional aging-related labs, conferences, and resources

Proper citation: Sageweb (RRID:SCR_010217) Copy   

•   Source: SciCrunch Registry

http://alzheimer.ucdavis.edu/research/resources.php#tissue

THIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016. Support research in Alzheimer's disease (AD) offering pilot grants, recruitment of research subjects, access to database, tissue samples, and statistical and research study design consultation for investigators. The scientific effort of the program seeks to: promote research directed at understanding factors that influence the expression and progression of Alzheimer's disease; develop and maintain cohorts of carefully diagnosed and well characterized research subjects available for research studies on Alzheimer's disease and dementia; provide support to investigators in subject recruitment, clinical research, experimental design, and statistical analysis of data; and maintain a variety of samples (brain, DNA, serum) and an extensive electronic database suitable for developing new research and supporting existing programs.

Proper citation: UC Davis Alzheimers Disease Center - Resources (RRID:SCR_010699) Copy   

•   Source: SciCrunch Registry

http://alzheimer.ucdavis.edu/

We developed this Web site for researchers, primary care physicians, caregivers, students and those with a general interest in Alzheimer's Disease. Utilizing the many resources and web links, we think you will find this a useful portal to understanding the many facets of Dementia. The center is part of nationwide and statewide programs. The ADC has several important goals: * Educate health professionals and the public about Alzheimer's disease and related dementias * Conduct research in clinical and community populations into the causes and potential treatments for dementia * Advocate changes in health policy and practice that will enhance the recognition, treatment and management of dementia * Serve as an expert referral center for the diagnosis of dementia

Proper citation: UC Davis Alzheimer's Disease Center (RRID:SCR_010613) Copy   

•   Source: SciCrunch Registry

https://imputationserver.sph.umich.edu/

Web server to implement whole genotype imputation workflow for efficient parallelization of computationally intensive tasks. Service for imputation that facilitates access to new reference panels and greatly improves user experience and productivity. Used to find haplotype segments and reference panel of sequenced genomes, assign genotypes at untyped markers, improve genome coverage, facilitate comparison and combination of studies that use different marker panels, increase power to detect genetic association, and guide fine mapping.

Proper citation: Michigan Imputation Server (RRID:SCR_017579) Copy   

•   Source: SciCrunch Registry

http://www.brain.northwestern.edu/research/for-researchers/index.html

Tissue bank for collecting, cataloging and storing postmortem brain tissue samples from subjects with and without neurological disorders. Specimens are available for research on cognitive impairment, Alzheimer's, dementia and other disorders along with clinical data such as demographic information, health and family history and neuropsychological test scores. The bank provides services to distribute postmortem brain tissue and other samples to investigators for use in research that will provide qualitative and quantitative diagnostic information to physicians, families, and researchers.

Proper citation: Northwestern CNADC Tissue Bank / Neuropathology Core (RRID:SCR_013178) Copy   

•   Source: SciCrunch Registry

https://skyline.gs.washington.edu/labkey/project/home/software/Skyline/begin.view

Software tool as Windows client application for targeted proteomics method creation and quantitative data analysis. Open source document editor for creating and analyzing targeted proteomics experiments. Used for large scale quantitative mass spectrometry studies in life sciences.

Proper citation: Skyline (RRID:SCR_014080) Copy   

•   Source: SciCrunch Registry

https://www.synapse.org/ampad

Repository for distribution of various types of molecular data from human, cell-based and animal model biosamples, analytical results and research tools generated through multiple NIA-supported programs. Currently Portal supports AMP-AD Target Discovery and Preclinical Validation and MOVE-AD Consortia and translational center, MODEL-AD.

Proper citation: AMP-AD Knowledge Portal (RRID:SCR_016316) Copy   

•   Source: SciCrunch Registry

http://pklab.med.harvard.edu/scde/pagoda.links.html

Software tool for analyzing transcriptional heterogeneity to detect statistically significant ways in which measured cells can be classified. Used to resolve multiple, potentially overlapping aspects of transcriptional heterogeneity by testing gene sets for coordinated variability among measured cells.

Proper citation: PAGODA (RRID:SCR_017099) Copy   

•   Source: SciCrunch Registry

http://research.mssm.edu/integrative-network-biology/Software.html

Software tool as probabilistic multi omics data matching procedure to curate data, identify and correct data annotation and errors in large databases. Used to check potential labeling errors in profiles where number of cis relationships is small, such as miRNA and RPPA profiles.

Proper citation: proMODMatcher (RRID:SCR_017219) Copy   

•   Source: SciCrunch Registry

https://majiq.biociphers.org/

Software package to detect and quantify local splicing variations (LSV) from RNA-Seq data. Used to automatically detect and downweight outliers in RNA-Seq datasets with replicates for differential splicing (SD) analysis.

Proper citation: MAJIQ (RRID:SCR_016706) Copy   

•   Source: SciCrunch Registry

https://github.com/HussainiLab/hfoGUI

Graphical user interface to visualize EEG data. The applications can vary from scoring High Frequency Oscillations, to observing Theta and Gamma Synchrony.

Proper citation: hfoGUI (RRID:SCR_016726) Copy   

•   Source: SciCrunch Registry

https://adrc.mc.duke.edu/index.php

An Alzheimer's disease center (ADC) that offers support services for families caring for persons with memory disorders, community outreach and education programs, in addition to its clinical and basic research activities. Information on current scientific and clinical findings is offered to the general public, medical and scientific community. An important emphasis of the Bryan ADRC is to advance basic medical discovery concerning AD and related dementias. This basic science mission is facilitated through the DNA cell repository located in the Institute of Genome Sciences and Policy (IGSP) and the Bryan ADRC brain donation program of the Kathleen Price Bryan Brain Bank. These affiliated Bryan ADRC programs provide a source of fresh brain tissue.

Proper citation: Joseph and Kathleen Bryan Alzheimer's Disease Research Center (RRID:SCR_005025) Copy   

•   Source: SciCrunch Registry

http://adni-info.org/

Database of the results of the ADNI study. ADNI is an initiative to develop biomarker-based methods to detect and track the progression of Alzheimer's disease (AD) that provides access to qualified scientists to their database of imaging, clinical, genomic, and biomarker data.

Proper citation: ADNI - Alzheimer's Disease Neuroimaging Initiative (RRID:SCR_003007) Copy   

•   Source: SciCrunch Registry

https://neurobiobank.nih.gov/

National resource for investigators utilizing human post-mortem brain tissue and related biospecimens for their research to understand conditions of the nervous system. Federated network of brain and tissue repositories in the United States that collects, evaluates, stores, and makes available to researchers, brain and other tissues in a way that is consistent with the highest ethical and research standards. The NeuroBioBank ensures protection of the privacy and wishes of donors. Provides information to the public about the need for tissue donation and how to register as a donor.

Proper citation: NIH NeuroBioBank (RRID:SCR_003131) Copy   

•   Source: SciCrunch Registry

https://github.com/automaticanalysis/automaticanalysis

Integration framework for major open source packages in neuroimaging including SPM, FSL, FreeSurfer, EEGLAB, and Fieldtrip. Efficient neuroimaging workflows and parallel processing using Matlab and XML. Addresses challenges of processing multimodal datasets, like combining anatomy, functional MRI, diffusion, and EEG, to yield integrated views of brain. Allows to design, execute, and share pipelines utilizing multiple open source packages. Supports parallelized execution to address challenges of large cohort studies and provides quality control offering group statistics and reporting facilities to help identify outlier subjects and erroneous processing steps.

Proper citation: Automatic Analysis (RRID:SCR_003560) Copy   

•   Source: SciCrunch Registry

http://www.loni.usc.edu/Software/LOVE

A versatile 1D, 2D and 3D data viewer geared for cross-platform visualization of stereotactic brain data. It is a 3-D viewer that allows volumetric data display and manipulation of axial, sagittal and coronal views. It reads Analyze, Raw-binary and NetCDF volumetric data, as well as, Multi-Contour Files (MCF), LWO/LWS surfaces, atlas hierarchical brain-region labelings ( Brain Trees). It is a portable Java-based software, which only requires a Java interpreter and a 64 MB of RAM memory to run on any computer architecture. LONI_Viz allows the user to interactively overlay and browse through several data volumes, zoom in and out in the axial, sagittal and coronal views, and reports the intensities and the stereo-tactic voxel and world coordinates of the data. Expert users can use LONI_Viz to delineate structures of interest, e.g., sulcal curves, on the 3 cardinal projections of the data. These curves then may be use to reconstruct surfaces representing the topological boundaries of cortical and sub-cortical regions of interest. The 3D features of the package include a SurfaceViewer and a full real-time VolumeRenderer. These allow the user to view the relative positions of different anatomical or functional regions which are not co-planar in any of the axial, sagittal or coronal 2D projection planes. The interactive part of LONI_Viz features a region drawing module used for manual delineation of regions of interest. A series of 2D contours describing the boundary of a region in projection planes (axial, sagittal or coronal) could be used to reconstruct the surface-representation of the 3D outer shell of the region. The latter could then be resliced in directions complementary to the drawing-direction and these complementary contours could be loaded in all tree cardinal views. In addition the surface object could be displayed using the SurfaceViewer. A pre-loading data crop and sub-sampling module allows the user to load and view practically data of any size. This is especially important when viewing cryotome, histological or stained data-sets which may reach 1GB (109 bytes) in size. The user could overlay several pre-registered volumes, change intensity colors and ranges and the inter-volume opacities to visually inspect similarities and differences between the different subjects/modalities. Several image-processing aids provide histogram plotting, image-smoothing, etc. Specific Features: * Region description DataBase * Moleculo-genetic database * Brain anatomical data viewer * BrainMapper tool * Surface (LightWave objects/scenes) and Volume rendering tools * Interactive Contour Drawing tool Implementation Issues: * Applet vs. Application - the software is available as both an applet and a standalone application. The former could be used to browse data from within the LONI database, however, it imposes restrictions on file-size, Internet connection and network-bandwidth and client/server file access. The later requires a local install and configuration of the LONI_Viz software * Extendable object-oriented code (Java), computer architecture independent * Complete online software documentation is available at http://www.loni.ucla.edu/LONI_Viz and a Java-Class documentation is available at http://www.loni.ucla.edu/~dinov/LONI_Vis.dir/doc/LONI_Viz_Java_Docs.html

Proper citation: LONI Visualization Tool (RRID:SCR_000765) Copy   

•   Source: SciCrunch Registry

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

Software for the analysis of multiple diffusion properties along fiber bundle as functions in an infinite dimensional space and their association with a set of covariates of interest, such as age, diagnostic status and gender, in real applications. The resulting analysis pipeline can be used for understanding normal brain development, the neural bases of neuropsychiatric disorders, and the joint effects of environmental and genetic factors on white matter fiber bundles.

Proper citation: Functional Regression Analysis of DTI Tract Statistics (RRID:SCR_002293) Copy   

•   Source: SciCrunch Registry