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http://www.okbtf.org/

The Oklahoma Brain Tumor Foundation (OKBTF) is a nonprofit organization that provides education, advocacy and support for Oklahomans with brain tumors and their families to improve their quality of life and help find a cure. Founded by Nancy Thomason after the death of her son Cade Thomason to a brain stem PNET tumor on February 17, 2000, she vowed to fight the disease in honor and memory of her son Cade. OKBTF is dedicated to meeting the needs of Oklahoma families, caregivers and patients affected by primary brain or central nervous system tumors. We work to provide for needs through education, advocacy, research and service. Whatever your needs, whether financial, physical, mental or spiritual, we will work with you to fight the battle. Here you will find many of the services we offer in support of families just like yours, who are confused, hurting and just wanting straight answers. Feel free to browse around, get to know us, see what we are doing to help and send us your comments or questions... We are here for you.

Proper citation: Oklahoma Brain Tumor Foundation (RRID:SCR_004748) Copy   

•   Source: SciCrunch Registry

http://www.genedb.org/Homepage/Tbruceibrucei927

Database of the most recent sequence updates and annotations for the T. brucei genome. New annotations are constantly being added to keep up with published manuscripts and feedback from the Trypanosomatid research community. You may search by Protein Length, Molecular Mass, Gene Type, Date, Location, Protein Targeting, Transmembrane Helices, Product, GO, EC, Pfam ID, Curation and Comments, and Dbxrefs. BLAST and other tools are available. T. brucei possesses a two-unit genome, a nuclear genome and a mitochondrial (kinetoplast) genome with a total estimated size of 35Mb/haploid genome. The nuclear genome is split into three classes of chromosomes according to their size on pulsed-field gel electrophoresis, 11 pairs of megabase chromosomes (0.9-5.7 Mb), intermediate (300-900 kb) and minichromosomes (50-100 kb). The T. brucei genome contains a ~0.5Mb segmental duplication affecting chromosomes 4 and 8, which is responsible for some 75 gene duplicates unique to this species. A comparative chromosome map of the duplicons can be accessed here (PubmedID 18036214). Protozoan parasites within the species Trypanosoma brucei are the etiological agent of human sleeping sickness and Nagana in animals. Infections are limited to patches of sub-Saharan Africa where insects vectors of the Glossina genus are endemic. The most recent estimates indicate between 50,000 - 70,000 human cases currently exist, with 17 000 new cases each year (WHO Factsheet, 2006). In collaboration with GeneDB, the EuPathDB genomic sequence data and annotations are regularly deposited on TriTrypDB where they can be integrated with other datasets and queried using customized queries.

Proper citation: GeneDB Tbrucei (RRID:SCR_004786) Copy   

•   Source: SciCrunch Registry

http://thefig.info/

Fonstein, Kogan, Osterman, Overbeek and Vonstein found the non-profit Fellowship for Interpretation of Genomes (FIG) to follow their vision of seeking advances in understanding through comparative analysis of the growing body of genomic data. The team at FIG began a new open source comparative genomics environment, the SEED. The Project to Annotate 1000 Genomes is a central goal of FIG. FIG is a nonprofit organization devoted to providing support for those analyzing genomes. It focuses on organizing the data needed to support interpretation of genomes, providing the infrastructure needed by the world community in its efforts to achieve understanding. FIG offers the key services required to architect and implement a comparative framework for interpreting genomes. In addition, we pick specific, critical problems and attempt to actively participate in the unraveling of the secrets within these amazing entities. It is only by merging the work of building infrastructure with the applications that use it that we will more deeply understand what is needed at each step.

Proper citation: Fellowship for Interpretation of Genomes (RRID:SCR_004821) Copy   

•   Source: SciCrunch Registry

http://www.uab.edu/medicine/tbi/

This website offers educational materials and information on services of the UAB Traumatic Brain Injury Model System (UAB-TBIMS) along with links to national organizations, government agencies, and educational resources related to traumatic brain injury. The UAB-TBIMS is one of 16 national TBI Model Systems Centers working to maintain and improve a cost-effective, comprehensive service delivery system for people who incur a traumatic brain injury. A Model System must demonstrate outstanding care to individuals with traumatic brain injury, from the emergency medical services, to acute care in the hospital, to rehabilitation. The UAB TBIMS * conducts research, * distributes their research findings to both clinical and consumer audiences * collaborates with other clinical research programs and * participates in the Model Systems Database. This Center, operates within the UAB Department of Physical Medicine and Rehabilitation, which is located at Spain Rehabilitation Center in the UAB Hospital complex. Here it establishes and maintains links with emergency medical service agencies throughout the state, with state vocational rehabilitation and long-term follow-up programs.

Proper citation: UAB Traumatic Brain Injury Model System (RRID:SCR_004783) Copy   

•   Source: SciCrunch Registry

http://causal.uma.es

At the Website of the Causal Cognition Group (CCG) of the University of M��laga, you may read information about our group, its members, our research, main activities, and more. Our main interests are cognitive psychology and learning, and more recently cognitive neuroscience, physiological correlates of learning and cognitive control. This site is in constant evolution... though there are things that hardly change: Cognitio rei per causas.

Proper citation: Causal Cognition Group (RRID:SCR_004780) Copy   

•   Source: SciCrunch Registry

http://www.ncbi.nlm.nih.gov/probe

Public registry of nucleic acid reagents designed for use in a wide variety of biomedical research applications including genotyping, gene expression studies, SNP discovery, genome mapping, and gene silencing. Probe records contain information on reagent distributors, probe effectiveness, and computed sequence similarities. The database is constantly updated, with over 11,000,000 probes available. Users may deposit their data into NCBI Probe Database.

Proper citation: NCBI Probe (RRID:SCR_004816) Copy   

•   Source: SciCrunch Registry

http://brainbank.ucla.edu/

A biomaterial supply resource which collects, stores, and distributes donated tissue to research scientists around the world. Collection occurs through the an anatomical donor program which accepts tissue donation from people with neurological/ psychiatric disorders. The Center also provides a continuous boost to biomedical research by providing high quality and quantity of pre- and post-mortem brains, spinal cords, cerebrospinal fluid (CSF), serum, blood cells and urine to use in investigations of neurological and psychiatric diseases. Scientists without a clinical site may use the Center''s readily available, high quality banked specimens.

Proper citation: Human Brain and Spinal Fluid Resource Center (RRID:SCR_004811) Copy   

•   Source: SciCrunch Registry

http://seqanswers.com/wiki/

Wiki forum providing an extensive catalogue of manually categorized analysis tools, technologies and information about service providers, maintained by the members of the SEQanswers community. * Minimum Information about a high-throughput Sequencing Experiment * Software Hub: The place to add to, edit or browse the software database on SEQwiki. * Service Providers: Browse or edit the list of NGS service facilities. * How-to Hub: Mini reviews for the most used tools broken down by common tasks. * Developers Hub: The place to discuss the development of the SEQwiki site and its associated data. See also publishing SEQ*. * Publications: Publication about SEQwiki and selected citations.

Proper citation: SEQanswers Wiki (RRID:SCR_004810) Copy   

•   Source: SciCrunch Registry

https://www.med.unc.edu/pgc/

Consortium conducting meta-analyses of genome-wide genetic data for psychiatric disease. Focused on autism, attention-deficit hyperactivity disorder, bipolar disorder, major depressive disorder, schizophrenia, anorexia nervosa (AN), Tourette syndrome (TS), and obsessive-compulsive disorder (OCD). Used to investigate common single nucleotide polymorphisms (SNPs) genotyped on commercial arrays, structural variation (copy number variation) and uncommon or rare genetic variation. To participate you are asked to upload data from your study to central computer used by this consortium. Genetic Cluster Computer serves as data warehouse and analytical platform for this study . When data from your study have been incorporated, account will be provided on central server and access to all GWAS genotypes, phenotypes, and meta-analytic results relevant to deposited data and participation aims. NHGRI GWAS Catalog contains updated information about all GWAS in biomedicine, and is usually excellent starting point to find comprehensive list of studies. Files can be obtained by any PGC member for any disease to which they contributed data. These files can also be obtained by application to NIMH Genetics Repository. Individual-level genotype and phenotype data requires application, material transfer agreement, and informed consent consideration. Some datasets are also in controlled-access dbGaP and Wellcome Trust Case-Control Consortium repositories. PGC members can also receive back cleaned and imputed data and results for samples they contributed to PGC analyses.

Proper citation: Psychiatric Genomics Consortium (RRID:SCR_004495) Copy   

•   Source: SciCrunch Registry

http://www.youtube.com/watch?v=0OnwOKiMVb8

GENEticS is arap video about genetics. So let''s talk about genes, and I don''t mean trousers, go the lyrics to this catchy rap video created for The GAMY (Genetics and Merthyr Youth) Project. It is one of the many videos, games, and digital media used by researchers at the University of Glamorgan in the United Kingdom use to engage local teenagers in a conversation about genetics. Video produced by Jon Chase (aka Oort Kuiper).

Proper citation: GENEtics Video (RRID:SCR_004770) Copy   

•   Source: SciCrunch Registry

http://snrp.utsa.edu/POD_html/Podcast/Podcast.html

The University of Texas at San Antonio''s (UTSA) Neurobiology Podcast, showcasing the current research of internationally renowned guest Neuroscientists. Each episode features a moderated discussion with a cross section of UTSA Neurobiology faculty, highlighting the featured guest''s research, and the state of the art in the field at hand.

Proper citation: Neuroscientists Talk Shop (RRID:SCR_004806) Copy   

•   Source: SciCrunch Registry

http://openflydata.org/

A cross-database search service for Drosophila gene expression data, including microarray data from FlyAtlas and in situ images from BDGP and Fly-TED. The applications provide different ways to search for and compare gene expression data for the fruit fly Drosophila melanogaster. You may Search Gene Expression Data by Gene, Gene Batch, and by Tissue Expression Profile. A number of Web services (SPARQL endpoints) are provided from this site which may be queried programmatically for data.

Proper citation: OpenFlyData.org (RRID:SCR_004807) Copy   

•   Source: SciCrunch Registry

http://pathinformatics.wikispaces.com/

The Pathology Informatics Curriculum Wiki is a public wiki based on community-based, continually updated online resources. It is about computers and information technology as tools within the field of pathology. Its content includes information management and communication (e.g. meetings on quality, electronic medical records, electronic order entry, reporting critical values, etc.) The goals of the Pathology Informatics Curriculum Wiki are four-fold: 1. To increase interest among pathology residents in pathology informatics; 2. To become a shared educational resource for pathology training programs to supplement or develop their own local curriculum in pathology informatics; 3. To increase research activities in the field; and 4. To connect pathology residents to experts in pathology informatics. We encourage contributors to (1) use the the wiki format to improve and extend this curriculum; (2) help edit and maintain the pathology informatics related pages in Wikipedia that are linked to this curriculum, and (3) create new pathology informatics pages in Wikipedia and link them to this website. In each of the lessons of the curriculum, we highlight areas where we feel that there is need for new or updated articles in Wikipedia relating to that topic.

Proper citation: Pathology Informatics Curriculum Wiki (RRID:SCR_004525) Copy   

•   Source: SciCrunch Registry

http://en.wikibooks.org/wiki/Immunology

Immunology is a wikibook with the following contents: * Introduction * Organs of the Immune System * Cells of the Immune System * Antigens * Antibodies * Immune System Genetics * Antibody/Antigen Interactions * Major Histocompatibility Complex * Antigen Processing and Presentation * T Cells * B Cells * Cell-Mediated Immune Response * Cytokines * The Complement System * Inflammation * Hypersensitivity * Infectious Disease * Immunodeficiency * Autoimmunity * Transplants * Cancer * Vaccines * Experimental Methods in Immunology You may download as a PDF or print it.

Proper citation: Immunology (RRID:SCR_004527) Copy   

•   Source: SciCrunch Registry

https://github.com/gui11aume/starcode

Software for DNA sequence clustering. General purpose DNA sequence clustering tool with strong focus on error correction.

Proper citation: Starcode (RRID:SCR_025483) Copy   

•   Source: SciCrunch Registry

https://biodiversityinformatics.amnh.org/open_source/dotdotgoose/

Software tool to assist with manually counting objects in images. Used for many conservation applications.

Proper citation: DotDotGoose (RRID:SCR_025485) Copy   

•   Source: SciCrunch Registry

https://github.com/dib-lab/TheGreatGenotyper

Software workflow begins by preprocessing short-read samples of raw data to create counting colored De Bruijn graph. Graph based method for population genotyping of small and structural variants. Population genotyping workflow.

Proper citation: The Great Genoytper (RRID:SCR_025487) Copy   

•   Source: SciCrunch Registry

https://shop.sartorius.com/ca/p/incucyte-ai-cell-health-analysis-software-module/BA-04871#

Software for analysis to determine live versus dead cells – no fluorescent dyes needed.

Proper citation: Incucyte Cell-By-Cell Analysis Software Module (RRID:SCR_025367) Copy   

•   Source: SciCrunch Registry

https://dokumate.com/knowledgebase/docid/

DokuMate helps standardize and reuse documents, simplifies and speeds-up editing, and automates many tedious tasks. A docId” is one of the “magic” Content Control tag names. A docId is an alphanumerical ID (e.g., “R01-01-C00”, “R01-11-100”, “R01-11-410”, “R01-30-100”) that uniquely identifies and sorts documents (e.g., Schedule C, Exhibit 1, Attachment 4.1, Appendix 1) within a larger set of documents, e.g., all documents belonging to (a) a specific RFP or (b) the set of contracts between a first party and a second party.

Proper citation: DokuMate (RRID:SCR_025402) Copy   

•   Source: SciCrunch Registry

Ratings or validation data are available for this resource

https://github.com/zhangjunpeng411/SCOM

Software application to Pan-cancer characterization of ncRNA synergistic competition. Used to predict ncRNA synergistic competition network from gene expression data and predicted ncRNA-related ceRNA networks.

Proper citation: SCOM (RRID:SCR_023738) Copy   

•   Source: SciCrunch Registry