Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
http://www.nitrc.org/projects/webmill/
Web game that provides an innovative infrastructure for labeling to enable an alternative to expert raters for medical image labeling through statistical analysis of the collaborative efforts of many, minimally-trained raters. Statistical atlases of regional brain anatomy have proven to be extremely useful in characterizing the relationship between the structure and function of the human nervous system. Typically, an expert human rater manually examines each slice of a three-dimensional volume. This approach can be exceptionally time and resource intensive, so cost severely limits the clinical studies where subject-specific labeling is feasible. Methods for improved efficiency and reliability of manual labeling would be of immense benefit for clinical investigation into morphological correlates of brain function.
Proper citation: Web Game for Collaborative Labeling (RRID:SCR_006685) Copy
https://code.google.com/p/softsearch/
A sensitive structural variant (SV) detection software tool for Illumina paired-end next-generation sequencing data. It simultaneously utilizes soft-clipping and read-pair strategies for detecting SVs to increase sensitivity. Soft clips are proxies for split-reads that indicate part of the read maps to the reference genome, but the other part is not localized at the same place (e.g. breakpoint spanning reads). Discordant read-pairs refer to a read and its mate, where the insert size is greater (or less than) the expected distribution of the dataset ? or ? where the mapping orientation of the reads is unexpected (e.g. both on the same strand). SoftSearch looks for areas with soft-clipping in the genome that have discordant read pairs supporting the anomaly. Once areas with both these conditions are identified, the read and mate information is extracted directly from the BAM file containing the discordant reads, obviating the need for time-consuming and error-prone complex alignment strategies. Only a small number of soft-masked bases discordant read-pairs are necessary to identify an SV, which on their own would not be sufficient to make an SV call, thus highlighting SoftSearch?s improved sensitivity. SoftSearch is well suited to be ?plugged in? to most sequence analysis workflows, since it requires standard file inputs, such as a BAM file using almost any aligner and a reference genome FASTA file. Because SoftSearch requires soft-masked bases, the only requirement is that the aligner must have this functionality, which is usually turned on by default by many standard aligners (e.g. BWA, Novoalign, etc).
Proper citation: SoftSearch (RRID:SCR_006683) Copy
A semantically annotated corpus of 240 MEDLINE abstracts (167 on the subject of E. coli species and 73 on the subject of the Human species) intended for training information extraction (IE) systems and/or resources which are used to extract events from biomedical literature. The corpus has been manually annotated with events relating to gene regulation by biologists. Each event is centered on either a verb (e.g. transcribe) or nominalized verb (e.g. transcription) and annotation consists of identifying, as exhaustively as possible, the structurally-related arguments of the verb or nominalized verb within the same sentence. Each event argument is then assigned the following information: * A semantic role from a fixed set of 13 roles which are tailored to the biomedical domain. * A biomedical concept type (where appropriate). The corpus in available for download in 2 formats: * A standoff format, based on the BioNLP'09 Shared Task format * An XML format, based on the GENIA event annotation format
Proper citation: GREC Corpus (RRID:SCR_006719) Copy
http://www.nei.nih.gov/funding/
The National Eye Institute Research funding resource provides notifications of funding opportunities in eye and vision research. National Eye Institute supports the 28 grant mechanisms listed on the site and lists extramural funding data. The National Eye Institute (NEI) was established by Congress in 1968 to protect and prolong the vision of the American people. NEI research leads to sight-saving treatments reduces visual impairment and blindness and improves the quality of life for people of all ages. NEI-supported research has advanced our knowledge of how the visual system functions in health and disease. Vision research is supported by the NEI through approximately 1600 research grants and training awards made to scientists at more than 250 medical centers hospitals universities and other institutions across the country and around the world. The NEI also conducts laboratory and patient-oriented research at its own facilities located on the NIH campus in Bethesda Maryland.
Proper citation: NEI Research Funding (RRID:SCR_007417) Copy
CORE MISSION: The core mission of the IRSF is to fund research for treatments and a cure for Rett syndrome while enhancing the overall quality of life for those living with Rett syndrome by providing information, programs, and services. ELEMENTS OF MISSION RESEARCH: The IRSF will coordinate, cultivate, accelerate, and fund research that will produce a cure for Rett syndrome and reveal and develop treatments that will make the lives of people living with Rett syndrome richer and free of pain and discomfort. FAMILY SUPPORT: The IRSF will assist families of individuals living with Rett syndrome by providing them with connections to critical and useful information, programs, services, and support from diagnosis to day-to-day life. ADVOCACY AND AWARENESS: The IRSF will advocate for and raise awareness about individuals with Rett syndrome so the scientific and medical community, policy makers, educators, care givers, and the general public can more thoroughly know, understand, and be motivated to help the research efforts and individuals dealing with Rett syndrome on a daily basis. ACCOMPLISHING THE MISSION FUND DEVELOPMENT: To accomplish this core mission, the core priority of the IRSFs leadership will be effective, assertive, comprehensive, and strategic fundraising. FISCAL RESPONSIBILITY: The IRSF will operate in accordance with those generally accepted principles necessary to maintain a Four Star Charity Navigator rating. Keywords: grants, funding, research, advocacy, awareness, family support, education, fundraising,
Proper citation: International Rett Syndrome Foundation (RRID:SCR_007409) Copy
https://cihr-irsc.gc.ca/e/8671.html
IA (CHIR, Canada) supports research that promotes healthy aging and addresses causes, prevention, screening, diagnosis, treatment, support systems, and palliation for a wide range of conditions associated with aging. :funding resource, grants :
Proper citation: Institute of Aging - CIHR (RRID:SCR_007405) Copy
http://bmserver.sce.ntu.edu.sg/INVERTER/
Software for a de novo exact match tandem repeat finder which main advantage is without the need to specify either the pattern or a particular pattern size, integrated with a data visualization tool and has a built-in user-friendly Graphical User Interface.
Proper citation: INVERTER (RRID:SCR_007956) Copy
http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/
Allow the high-performance display of next-generation sequencing experiment results in the UCSC Genome Browser.
Proper citation: BigWig and BigBed (RRID:SCR_007708) Copy
https://code.google.com/p/highssr/
Software that predicts microsatellites with Tandem Repeats Finder (TRF).
Proper citation: HighSSR (RRID:SCR_007949) Copy
http://genotan.sourceforge.net/
A free software tool to identify length variation of microsatellites from short sequence reads.
Proper citation: GenoTan (RRID:SCR_007935) Copy
http://smithlab.usc.edu/histone/rseg/
Software package aimed to analyze ChIP-Seq data, especially for identifying genomic regions and their boundaries marked by diffusive histone modification markers, such as H3K36me3 and H3K27me3.
Proper citation: RSEG (RRID:SCR_007695) Copy
A professional organization focused on advancing neurosurgery by providing members with the educational and career development opportunities. They have an annual meeting and offer CME opportunities. The Congress of Neurological Surgeons seeks to improve the quality of healthcare through: * The development of educational programs that convey knowledge, enhance self-directed learning and improve patient outcomes. * Advancing the science of medical education. * Promoting original inquiry and the exchange of clinical and scientific evidence. * Public advocacy for the enhancement of quality, safety and access to neurosurgical care. The Congress of Neurological Surgeons seeks to advance the profession of neurosurgery through: * Refining neurosurgical practice based on evidence. * Promoting volunteerism and leadership development within our specialty. * Development of programs to promote safety, quality and efficiency in practice for domestic and international members.
Proper citation: Congress of Neurological Surgeons (RRID:SCR_007993) Copy
http://www.ebi.ac.uk/huber-srv/hilbert/
Software tool that allows to display very long data vectors in a space-efficient manner, allowing the user to visually judge the large scale structure and distribution of features simultaneously with the rough shape and intensity of individual features.
Proper citation: HilbertVis (RRID:SCR_007862) Copy
The University of Rennes 1 is one of the two main universities in the city of Rennes, France. It is under the Academy of Rennes. It specializes in science, technology, law, economy, management and philosophy.
Proper citation: University of Rennes 1; Rennes; France (RRID:SCR_007649) Copy
A cross-platform (Windows/Mac/Unix) application that can display circular comparisons between a large number of genomes, with a focus on handling genome assembly data.
Proper citation: BRIG (RRID:SCR_007802) Copy
http://medgene.med.harvard.edu/MEDGENE/
An algorithm that generates lists of genes associated with a gene or one or more disorders. The algorithm can be used in high-throughput screening experiments, can create disease-specific micro-arrays, and can sort the results of gene profiling data. Based on the co-citations of all Medline records, MedGene can retrieve the following relationships: 1. A list of human genes associated with a particular human disease in ranking order 2. A list of human genes associated with multiple human diseases in ranking order 3. A list of human diseases associated with a particular human gene in ranking order 4. A list of human genes associated with a particular human gene in ranking order 5. The sorted gene list from other disease related high-throughput experiments, such as micro-array 6. The sorted gene list from other gene related high-throughput experiments, such as micro-array
Proper citation: MedGene (RRID:SCR_008122) Copy
American private research university in Los Angeles, California. Founded in 1880, it is the oldest private research university in California. USC has historically educated a large number of the nation's business leaders and professionals.
Proper citation: University of Southern California; Los Angeles; USA (RRID:SCR_008093) Copy
http://biq-analyzer-ht.bioinf.mpi-inf.mpg.de/
Software that currently allows to process an amount of bisulfite sequencing reads obtained in one or several bisulfite sequencing experiments.
Proper citation: BiQAnalyzer HT (RRID:SCR_008045) Copy
http://erlichlab.wi.mit.edu/lobSTR/
A software tool for profiling Short Tandem Repeats (STRs) from high throughput sequencing data., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.
Proper citation: lobSTR (RRID:SCR_008030) Copy
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the RRID Resources search. From here you can search through a compilation of resources used by RRID and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that RRID has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on RRID then you can log in from here to get additional features in RRID such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
You can save any searches you perform for quick access to later from here.
We recognized your search term and included synonyms and inferred terms along side your term to help get the data you are looking for.
If you are logged into RRID you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the sources that were queried against in your search that you can investigate further.
Here are the categories present within RRID that you can filter your data on
Here are the subcategories present within this category that you can filter your data on
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
