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http://www.alaskabraininjury.org/

The Alaska Brain Injury Network, Inc (ABIN) is a non-profit organization dedicated to Alaskans whose lives have been changed by brain injury. The ABIN mission is to educate, plan, coordinate, and advocate for services for the survivors of traumatic brain injury and their families. ABIN''s Board of 18 directors represents all regions of Alaska, and at least 50 percent are TBI survivors or family members. ABIN has two primary functions: TBI Advisory Board and TBI Resource Navigation Agency. Advisory Board -Visit both urban and rural communities, and listen to the stories that the public shares about the issues facing Alaskans with brain injuries. -Collaborate with our partner boards to affect changes in policies to improve programs and services. -Advocate for safety legislation, in-state brain injury rehabilitation, and TBI Waiver services. -Bring TBI professional training to Alaska. -Conduct ''needs assessment'' surveys of survivors, family members, and health workers. -Maintain up to date information on emerging issues identified through callers, public testimony, and the media. Resource Navigation (Information and Referral) -Respond to requests for assistance, information, resources, and referral. -Distribute a brain injury resource directory with statewide and local resources and supports available to individuals, families, friends, professionals, caregivers and the general public. -Work to establish a TBI hotline and brain injury support groups. -Distribute educational and informational resources to the public.

Proper citation: Alaska Brain Injury Network (RRID:SCR_004815) Copy   

•   Source: SciCrunch Registry
  

http://trackvis.org/

TrackVis is software tool that can visualize and analyze fiber track data from diffusion MR imaging (DTI/DSI/HARDI/Q-Ball) tractography. It does NOT perform actual fiber tracking. Diffusion Toolkit is a set of tools that reconstruct diffusion imaging data and generate fiber track data for TrackVis to visualize. Because these two sets of tools were developed and maintained separately and each has distinguished funtionalities, they decided to distribute them as two separate programs for the ease of maintenance and upgrade. You do need both of them to perform complete diffusion data processing and analysis. Features of TrackVis include: * Cross-platform. Works on Windows, Mac OS X and Linux with native look and feel. * A variety of track filters (track selecting methods) allowing users to explore and locate specific bundles with ease. * Multiple rendering modes with customizable scalar-driven color codes. * Real-time parameter adjustment and 3D render. * Open format of the track data file allowing users to integrate customized scalar data into the track file and visualize and analyze it. Save and restore scenes in XML style scene file. * Statistical scalar analysis of tracks and ROIs. * Synchronized real-time multiple dataset analysis and display allowing time-point and/or subject comparison. Synchronized analysis and display on same dataset can also be performed in real-time remotely over the network. * Upfront in-line parameter adjustment in real-time. No tedious pop-up dialogs. TrackVis works with Track File created by Diffusion Toolkit. Diffusion Toolkit processes raw DICOM, Nifti format and ANALYZE images. TrackVis and Diffusion Toolkit are cross-platform software. They can run on Windows XP, Mac OS X as well as Linux.

Proper citation: TrackVis (RRID:SCR_004817) Copy   

•   Source: SciCrunch Registry
  

http://www.ifomis.org/bfo

A small, upper level ontology that is designed for use in supporting information retrieval, analysis and integration in scientific and other domains. BFO is a genuine upper integration in scientific and other domains. Thus it does not contain physical, chemical, biological or other terms which would properly fall within the coverage domains of the special sciences.

Proper citation: BFO (RRID:SCR_004818) Copy   

•   Source: SciCrunch Registry
  

http://compbio.cs.toronto.edu/prism/

Software for split read (reads which span across a structrual variant -- SV ) mapping and SV calling from the mapping result. It is able to detect small insertions and abitrary size deletions, inversions and tandom duplications with the direction of discordant read pairs. PRISM_CTX is a tool for detecting inter-chromosome trans-location events.

Proper citation: PRISM - Pair Read Informed Split Mapper (RRID:SCR_004812) Copy   

•   Source: SciCrunch Registry
  

http://ibis.tau.ac.il/miRNAkey/

A software pipeline for the analysis of microRNA Deep Sequencing data.

Proper citation: miRNAKey (RRID:SCR_004813) Copy   

•   Source: SciCrunch Registry
  

http://neuroscienceblueprint.nih.gov/factSheet/MicronCon.htm

THIS RESOURCE IS NO LONGER IN SERVICE, documented on April 24, 2012. (no longer being funded) The NIH Microarray Consortium provides for-fee services to a community of NIH grantees, together with a more limited set of services to the public. The primary goal of this consortium is to move basic and translational research forward through acquisition and dissemination of high quality genomic data. This site includes a repository of microarray data sets and offers one-click links to public projects. These datasets were generated by various researchers on these platforms: Affymetrix, Agilent, Ambion, cDNA, Illumina, and Operon. The species currently covered are: Arabidopsis, Bovine, chicken, C. Elegans, Drosophila, Human, Macaca mulatta (Rhesus macaque), Mouse, Rat, Songbird, Xenopus, Yeast, and zebra finch. Basic search functions allows users to choose multiple options for finding the projects that interest them, and raw data files can also be downloaded after user registration. Web-based data analysis tools are also available. Scientists can analyze microarray data from the consortium repository or investigators can upload outside data for analysis.

Proper citation: NIH Neuroscience Microarray Consortium (RRID:SCR_004930) Copy   

•   Source: SciCrunch Registry
  

http://seqanswers.com/

An information resource and user-driven community focused on all aspects of next-generation genomics. They hope to become the central location for next generation sequencing technology discussion and education. The site will always attempt to cater to everyone, regardless of scientific background or knowledge. The High-Throughput Sequencing Map site was conceived by James Hadfield (Cancer Research UK, Cambridge) and built by Nick Loman (University of Birmingham). The database is as only as good as you, the users.

Proper citation: SEQanswers (RRID:SCR_004808) Copy   

•   Source: SciCrunch Registry
  

http://www.engr.uconn.edu/~jiz08001/svseq2.html

Software for accurate and efficient calling of structural variations with low-coverage sequence data. Version 2 uses the BAM files of paired Illumina reads with soft-clip signature as input. It calls both deletions and insertions.

Proper citation: SVseq (RRID:SCR_004804) Copy   

•   Source: SciCrunch Registry
  

http://www.science3point0.com/coaspedia/index.php/Welcome

THIS RESOURCE IS NO LONGER IN SERVICE, documented on February 08, 2013. Wiki serving as a demo for integrating wikis with scientific workflows, extending peer review and open access from formal scholarly publishing to the whole research cycle. Just imagine you could browse science as it happens. It is intended to be launched, as a prototype, in early 2011, and any help with it is welcome just create an account and mention here how you would like to get involved. In the initial phase, the platform will primarily be used to simply archive copies of scholarly articles that were formally published under an Open license. This WikiRepository shall provide a unified front-end to search, discover and sort all these Open Access papers, and to annotate, share, bookmark and discuss them. Later on, it is intended to be complemented by a formal publishing platform, WikiJournal. From the start on, emphasis will be placed on updatability of published research, on placing new research in the context of existing knowledge as well as ongoing and even planned research on the matter, and of the communities concerned.

Proper citation: Daniel Mietchens demo wiki: What would scholarly communication look like if it were invented today? (RRID:SCR_004805) Copy   

•   Source: SciCrunch Registry
  

http://www.adrccares.org/

The Alzheimer's and Dementia Resource Center (ADRC) facilitates tissue donations for the Brain Bank Research Program in order to help find better treatments, more diagnostic tools and a cure for Alzheimer's disease and dementia. The Brain Bank Program is administered by Mount Sinai Medical Center in Miami Beach and under contract with the Florida Department of Elder Affairs. ADRC also provides caregivers with the educational resources, spiritual comfort and emotional support. The ADRC facilitates training for professional caregivers that meets requirements for the Florida Department of Elder Affairs.

Proper citation: Alzheimer's and Dementia Resource Center (RRID:SCR_004924) Copy   

•   Source: SciCrunch Registry
  

http://bioinfo.unl.edu/raiphy.php

A semi-supervised metagenomic fragment classification software program that utilizes the genome signatures to characterize the DNA sequences and taxonomic classification is based on an information theoretic measure referred as Relative Abundance Index (RAI). A DNA sequence of unknown source is classified and taxonomically labeled based on the phylogenetic profiles of the previously sequenced genomes. The profiles are iteratively updated using the unknown DNA sequences and the classification results. After a few cycles, the metagenome is classified into operational taxonomic units.

Proper citation: RAIphy (RRID:SCR_004720) Copy   

•   Source: SciCrunch Registry
  

http://neurosciencenews.com/neuroscience-jobs-board/

Database listing of jobs where neuroscience students, neuroscience research professionals, neuroscience professors and anyone looking for a neuroscience job can use the interface to find jobs in their area or post neuroscience jobs needing to be filled. Neuroscience News members are encouraged to use the resources for neuroscience job information and also consider joining up to our Neuroscience Jobs Group. Members of the Neuroscience Jobs group are allowed to post jobs available and job positions sought. Neuroscience jobs offers, job listings, neuroscience resumes, networking and more can be found in the group.

Proper citation: Neuroscience News: Neuroscience Jobs (RRID:SCR_004601) Copy   

•   Source: SciCrunch Registry
  

http://www.scivee.tv/

A video resource containing short, scientific videos which can be browsed or searched for. The videos are based on published papers, talks or posters. It is free to use and disseminates research findings to the world wide web. SciVee enables researchers to combine video with documentation and data in a media rich format, enhancing journal articles with pubcasts by linking and synchronizing video explanations to their published text. Similarly, video summaries can be associated and synchronized with scientific posters to create postercasts highlighting the key finding of the research.

Proper citation: SciVee (RRID:SCR_004837) Copy   

•   Source: SciCrunch Registry
  

http://www.data.gov/

Catalog of data sets that are generated and held by the Federal Government, including data, tools and resources to conduct research, develop web and mobile applications, design data visualizations, etc. Data.gov provides descriptions of the Federal datasets (metadata), information about how to access the datasets, and tools that leverage government datasets. The data catalogs will continue to grow as datasets are added. Federal, Executive Branch data are included in the first version of Data.gov.

Proper citation: Data.gov (RRID:SCR_004712) Copy   

•   Source: SciCrunch Registry
  

http://www.rhea-db.org/

Manually annotated reaction database where all reaction participants (reactants and products) are linked to the ChEBI database (Chemical Entities of Biological Interest) which provides detailed information about structure, formula and charge. Rhea provides built-in validations that ensure both elemental and charge balance of the reactions. The database has been populated with the reactions found in the Enzyme Commission (EC) list (and in the IntEnz and ENZYME databases), extending it with additional known reactions of biological interest. While the main focus of Rhea is enzyme-catalyzed reactions, other biochemical reactions are also included. Rhea is a manually annotated resource and it provides: stable reaction identifiers for each of its reactions; directionality information if the physiological direction of the reaction is known; the possibility to link several reactions together to form overall reactions; extensive cross-references to other resources including enzyme-catalyzed and other metabolic reactions, such as the EC list (in IntEnz), KEGG, MetaCyc and UniPathway; and chemical substructure and similarity searches on compounds in Rhea.

Proper citation: RHEA (RRID:SCR_004713) Copy   

•   Source: SciCrunch Registry
  

http://metagenomics.atc.tcs.com/binning/ProViDE/

A similarity based binning algorithm that uses a customized set of alignment parameter thresholds / ranges, specifically suited for the accurate taxonomic labelling of viral metagenomic sequences., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: ProViDE (RRID:SCR_004709) Copy   

•   Source: SciCrunch Registry
  

http://www.healthplusplus.com/wiki/Main_Page

Health++ (HealthPlusPlus) is a wiki about health, also a medical knowledge base, an online medical encyclopedia. We are making this wiki unique with adding relevant videos, links, resources and communities. Please join us in this effort to make this wiki the most useful and comprehensive medical wiki resource site. Some of the initial content on this page may be incorporated in part from copyleft sources in the public domain including wikis such as Wikipedia and AskDrWiki. Drug information for patients came from the The National Library of Medicine. Infectious disease information may have come from the Centers for Disease Control (CDC). * Health care in the United States * List of common health issues * List of RSS feeds on health * List of encyclopedias on medicine * MedlinePlus Health News * List of medical websites * List of medical wikis * List of online medical encyclopedia * List of online medical dictionaries * List of hospitals

Proper citation: Health++ (RRID:SCR_004828) Copy   

•   Source: SciCrunch Registry
  

http://caintegrator-info.nci.nih.gov/rembrandt

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 28,2023. REMBRANDT is a data repository containing diverse types of molecular research and clinical trials data related to brain cancers, including gliomas, along with a wide variety of web-based analysis tools that readily facilitate the understanding of critical correlations among the different data types. REMBRANDT aims to be the access portal for a national molecular, genetic, and clinical database of several thousand primary brain tumors that is fully open and accessible to all investigators (including intramural and extramural researchers), as well as the public at-large. The main focus is to molecularly characterize a large number of adult and pediatric primary brain tumors and to correlate those data with extensive retrospective and prospective clinical data. Specific data types hosted here are gene expression profiles, real time PCR assays, CGH and SNP array information, sequencing data, tissue array results and images, proteomic profiles, and patients'''' response to various treatments. Clinical trials'''' information and protocols are also accessible. The data can be downloaded as raw files containing all the information gathered through the primary experiments or can be mined using the informatics support provided. This comprehensive brain tumor data portal will allow for easy ad hoc querying across multiple domains, thus allowing physician-scientists to make the right decisions during patient treatments., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: Repository of molecular brain neoplasia data (RRID:SCR_004704) Copy   

•   Source: SciCrunch Registry
  

http://www.autismspeaks.org/

Autism Speaks has grown into the nation''s largest autism science and advocacy organization, dedicated to funding research into the causes, prevention, treatments and a cure for autism; increasing awareness of autism spectrum disorders; and advocating for the needs of individuals with autism and their families. We are proud of what we''ve been able to accomplish and look forward to continued successes in the years ahead. In addition to putting money into new and cutting edge research, we also fund resources and programs such as the Autism Speaks Autism Treatment Network, Autism Speaks������?? Autism Genetic Resource Exchange and several other scientific and clinical programs. Autism Speaks was founded in February 2005 by Bob and Suzanne Wright, grandparents of a child with autism. Their longtime friend Bernie Marcus donated $25 million to help financially launch the organization. At Autism Speaks, our goal is to change the future for all who struggle with autism spectrum disorders. We are dedicated to funding global biomedical research into the causes, prevention, treatments, and cure for autism; to raising public awareness about autism and its effects on individuals, families, and society; and to bringing hope to all who deal with the hardships of this disorder. We are committed to raising the funds necessary to support these goals. Autism Speaks aims to bring the autism community together as one strong voice to urge the government and private sector to listen to our concerns and take action to address this urgent global health crisis. It is our firm belief that, working together, we will find the missing pieces of the puzzle.

Proper citation: Autism Speaks (RRID:SCR_004741) Copy   

•   Source: SciCrunch Registry
  

http://metagenomics.atc.tcs.com/binning/DiScRIBinATE/

Software for accurate taxonomic classification of metagenomic sequences using a similarity based binning method. User needs to perform a similarity search of the input metagenomic sequences (reads) against the nr protein database using BLASTx search. The generated blastx output is then taken as the input by the DiScRIBinATE program.

Proper citation: DiScRIBinATE (RRID:SCR_004862) Copy   

•   Source: SciCrunch Registry