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http://purl.bioontology.org/ontology/EPILONT

Ontology about the epilepsy domain and epileptic seizures. Based on the diagnosis proposed by the International League Against Epilepsy (ILAE).

Proper citation: Epilepsy Ontology (RRID:SCR_010317) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/LHN

An ontology for Loggerhead sea turtle (Caretta caretta) nesting behavior, based on the published ethogram of Hailman and Elowson. A demonstration of ontology construction as a general technique for coding ethograms and other descriptions of behavior into machine understandable forms.

Proper citation: Loggerhead Nesting Ontology (RRID:SCR_010318) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/FIRE

Ontology to represent the set of concepts about the fire occurring in natural vegetation, its characteristics, causes and effects, with focus on Cerrado vegetation domain. The fire plays a determinant role on the structure and composition of Cerrado physiognomies.

Proper citation: Fire Ontology (RRID:SCR_010320) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/FLOPO

Ontology generated from the Flora Malesiana, Flora Gabon, Flora of Central Africa, and a collection of Kew''s African Floras. Every class in the ontology has at least one taxon annotation. This is the pre-classified version of the ontology; the original OWL file is at http://jagannath.pdn.cam.ac.uk/plant/flopo-unclassified.owl

Proper citation: Flora Phenotype Ontology (RRID:SCR_010321) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/BIOMODELS

OWL Representation of the models in the BioModels repository.

Proper citation: BioModels Ontology (RRID:SCR_010125) Copy   

•   Source: SciCrunch Registry

http://www.jhu.edu/

Johns Hopkins University is private research university in Baltimore, Maryland. Founded in 1876, university was named for its first benefactor, American entrepreneur, abolitionist, and philanthropist Johns Hopkins.

Proper citation: Johns Hopkins University; Maryland; USA (RRID:SCR_010247) Copy   

•   Source: SciCrunch Registry

http://bioportal.bioontology.org/ontologies/ASDPTO

Ontology that encapsulates the Autism Spectrum Disorder behavioral phenotype, informed by the standard ASD assessment instruments and the currently known characteristics of this disorder.

Proper citation: Autism Spectrum Disorder Phenotype Ontology (RRID:SCR_010006) Copy   

•   Source: SciCrunch Registry

http://bioinf.cs.ucl.ac.uk

Group headed by Professor David Jones, and was originally founded as the Joint Research Council funded Bioinformatics Unit within the Department of Computer Science at University College London. Supports the following tools: Protein Structure Prediction Threading (THREADER) Ab initio folding simulations Secondary structure prediction (PSIPRED) Protein disorder prediction (DISOPRED) Protein domain prediction (DomPred) Database of protein disorder (DisoDB) Protein Sequence Analysis Protein function prediction (ffpred) Metsite: Metal binding residue prediction HSPred : Protein-protein interaction characterisation Amino acid substitution matrices Hidden Markov Models (collaboration with N. Goldman, Cambridge, & J. Thorne, NCSU) Genome Analysis Genomic fold recognition (GenTHREADER) Genome annotation using software agents Protein Structure Classification CATH (collaboration with J. Thornton & C. Orengo, UCL Biochemistry) Transmembrane Protein Modelling MEMSAT & MEMSATSVM Folding In Lipid Membranes (FILM) MEMPACK Biological Applications of Data-mining and Machine Learning Techniques Information extraction for biological research (BioRat) Microarray Analysis Data integration for microarray analysis Data visualization Systems Biology Systems biology applied to stem cells Legacy Services (to be retired shortly) Comparison of structure classifications (CATH/SCOP/FSSP) Genomic Threading Database (GTD)

Proper citation: UCL Bioinformatics Group (RRID:SCR_010248) Copy   

•   Source: SciCrunch Registry

http://utep.eagle-i.net/i/00000134-a952-c738-bfc0-fe9780000000

THIS RESOURCE IS NO LONGER IN SERVCE, documented January 23, 2019. Core facility that provides the following services: Zeiss LD-5 Pascal Scanning Confocal Microscope/Assisted access, Zeiss Axioskop Epifluorescence Microscope/Assisted access, Zeiss EM-10 Transmission Electron Microscope/Assisted access, Microscopy sample preparation, Observation and photography service. The Analytical Cytology Core Facility provides assistance in the designing of protocols and the use of sophisticated, well maintained and supervised equipment. Each microscope is equipped with software for image analysis, image processing and printing of digital images. Service contracts are maintained on each of the microscopes. Computers and software are regularly upgraded. Confocal workshops are held regularly to familiarize users with new techniques and new protocols. The specific aims of the Analytical Cytology Core Facility (ACCF) are: 1. to train users in the design of protocols, the fixations, sectioning, cryofixations, immunolocalizations, the use of the Zeiss EM-10, the Zeiss Axioskop epifluorescence microscope and the Zeiss Pascal scanning confocal microscope with image analysis and image processing, 2. to support new faculty in realizing their research objectives that utilize microscopy, 3. to support the productivity of the Infectious Diseases and Immunology unit, the Toxicology unit, the Neuroscience/Metabolic Disorders unit, the Statistical Consulting Laboratory and the Bioinformatics unit by assisting faculty, undergraduate, masters, doctoral and postdoctoral students in advancing biomedical research, 4. to maintain and upgrade equipment and expertise and; 5. to provide core services anticipating self-sustaining maintenance of the core facility.

Proper citation: University of Texas El Paso Analytical Cytology Core Facility (RRID:SCR_010137) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/ICPC

Ontology of the international classification of primary care (ICPC). Denmark: World Organisation of Family Doctors, 1993.

Proper citation: International Classification of Primary Care (RRID:SCR_010262) Copy   

•   Source: SciCrunch Registry

http://vassarstats.net/

Tools for performing statistical computation including: Clinical Research Calculators Probabilities Distributions Frequency Data Proportions Ordinal Data Correlation & Regression t-Tests & Procedures ANOVA ANCOVA

Proper citation: VassarStats (RRID:SCR_010263) Copy   

•   Source: SciCrunch Registry

http://bioen-compbio.bioen.illinois.edu/TrueSight/

Self-training Algorithm for Splice Junction Detection using RNA-seq.

Proper citation: TrueSight (RRID:SCR_009835) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/ICD9CM

Ontology of the international standard diagnostic classification for all general epidemiological, many health management purposes and clinical use.

Proper citation: International Classification of Diseases Version 9 - Clinical Modification (RRID:SCR_010104) Copy   

•   Source: SciCrunch Registry

http://www.eplantsenescence.org/

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 26, 2019. Database of leaf senescence to collect SAGs, mutants, phenotypes and literature references. Leaf senescence has been recognized as the last phase of plant development, a highly ordered process regulated by genes called SAGs. By integrating the data from mutant studies and transgenic analysis, they collected many SAGs related to regulation of the leaf senescence in various species. Additionally, they have categorized SAGs according to their functions in regulation of leaf senescence and used standard criteria to describe senescence associated phenotypes for mutants. Users are welcome to submit the new SAGs.

Proper citation: Leaf Senescence Database (RRID:SCR_010227) Copy   

•   Source: SciCrunch Registry

http://beast.bio.ed.ac.uk/

A cross-platform software program for Bayesian MCMC analysis of molecular sequences. It is entirely orientated towards rooted, time-measured phylogenies inferred using strict or relaxed molecular clock models. It can be used as a method of reconstructing phylogenies but is also a framework for testing evolutionary hypotheses without conditioning on a single tree topology. BEAST uses MCMC to average over tree space, so that each tree is weighted proportional to its posterior probability. We include a simple to use user-interface program for setting up standard analyses and a suit of programs for analysing the results.

Proper citation: BEAST (RRID:SCR_010228) Copy   

•   Source: SciCrunch Registry

http://www.rcsi.ie/

Private university responsible for the medical speciality of surgery throughout Ireland.

Proper citation: Royal College of Surgeons in Ireland; Dublin; Ireland (RRID:SCR_009786) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/FBbi

A structured controlled vocabulary of sample preparation, visualization and imaging methods used in biomedical research.

Proper citation: Biological Imaging Methods Ontology (RRID:SCR_010235) Copy   

•   Source: SciCrunch Registry

http://weblogo.berkeley.edu

Web application to generate sequence logos, graphical representations of patterns within multiple sequence alignment. Designed to make generation of sequence logos easy. Sequence logo generator.

Proper citation: WEBLOGO (RRID:SCR_010236) Copy   

•   Source: SciCrunch Registry

http://purl.org/

Web addresses that act as permanent identifiers in the face of a dynamic and changing Web infrastructure. Instead of resolving directly to Web resources, PURLs provide a level of indirection that allows the underlying Web addresses of resources to change over time without negatively affecting systems that depend on them. This capability provides continuity of references to network resources that may migrate from machine to machine for business, social or technical reasons.

Proper citation: Purl (RRID:SCR_010238) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/ICF

A classification of health and health-related domains. These domains are classified from body, individual and societal perspectives by means of two lists: a list of body functions and structure, and a list of domains of activity and participation. Since an individual''s functioning and disability occurs in a context, the ICF also includes a list of environmental factors.

Proper citation: International Classification of Functioning Disability and Health (RRID:SCR_010239) Copy   

•   Source: SciCrunch Registry