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https://www.universite-lyon.fr/
University of Lyon, located in Lyon and Saint-Étienne, France, is a center for higher education and research comprising 11 members and 24 associated institutions.
Proper citation: University of Lyon; France (RRID:SCR_010178) Copy
http://purl.bioontology.org/ontology/AAO
A structured controlled vocabulary of the anatomy of Amphibians. Note that AAO is currently being integrated into Uberon.
Proper citation: Amphibian Gross Anatomy Ontology (RRID:SCR_010291) Copy
http://purl.bioontology.org/ontology/HRDO
A core ontology consistent with a metamodel (disorders and groups of disorders, genes, clinical signs and their relations) and an instantiation of this metamodel with Orphanet Data (available on http://orphadata.org). Research experiments demonstrated (i) efficient classifications generation based on SPARQL Construct, (ii) perspectives in semantic audit of a knowledge base, (iii) semantic comparison with OMIM (www.omim.org) using proximity measurements and (iv) opened perspectives in knowledge sharing (LORD, http://lord.bndmr.fr). Current production services of Orphanet developed ORDO, released in 2014, an ontology synchronized with their production database.
Proper citation: Disease core ontology applied to Rare Diseases (RRID:SCR_010308) Copy
Public research university in San Diego, California. Founded in 1897 as San Diego Normal School, it is the third-oldest university in the 23-member California State University system.
Proper citation: San Diego State University; California; USA (RRID:SCR_009874) Copy
http://dna.engr.uconn.edu/?page_id=105
Software package that can be used to infer isoform and gene expression levels from high-throughput transcriptome sequencing (RNA-Seq) data.
Proper citation: IsoEM (RRID:SCR_009993) Copy
A research department of the University of York provides research-based information about the effects of health and social care interventions via their databases. The institute undertakes systematic reviews evaluating research evidence on health and public health questions of national and international importance.
Proper citation: Centre for Reviews and Dissemination (RRID:SCR_010267) Copy
http://purl.bioontology.org/ontology/CPTH
Metathesaurus of current procedural terminalogy (CPT).
Proper citation: Current Procedural Terminalogy Hierarchy (RRID:SCR_010300) Copy
http://purl.bioontology.org/ontology/IDODEN
An ontology for dengue fever.
Proper citation: Dengue Fever Ontology (RRID:SCR_010304) Copy
http://purl.bioontology.org/ontology/DERMLEX
A standardized terminology of dermatologic diagnoses, therapies, procedures, and laboratory tests.
Proper citation: Dermatology Lexicon (RRID:SCR_010305) Copy
http://purl.bioontology.org/ontology/DOCCC
Diagnosis ontology of clinical care classification.
Proper citation: Diagnosis Ontology of Clinical Care Classification (RRID:SCR_010306) Copy
http://www.sbg.bio.ic.ac.uk/phyre2
A structure prediction system to reliably detect remote homologies.
Proper citation: Phyre (RRID:SCR_010270) Copy
http://www.biobase-international.com
THIS RESOURCE IS OUT OF SERVICE, documented on February 1st,2022. BIOBASE offers academic and non-profit organizations free access to TRANSFAC?? non-professional version with much reduced functionality and content compared to our professional database.
Proper citation: BIOBASE Corporation (RRID:SCR_010271) Copy
http://purl.bioontology.org/ontology/BNO
Ontology that relates concepts and terminologies used for human nutrition in a clinical and biomedical setting.
Proper citation: Bionutrition Ontology (RRID:SCR_010272) Copy
http://toolkit.tuebingen.mpg.de/hhpred
The primary aim in developing HHpred was to provide biologists with a method for sequence database searching and structure prediction that is as easy to use as BLAST or PSI-BLAST and that is at the same time much more sensitive in finding remote homologs. In fact, HHpred''s sensitivity is competitive with the most powerful servers for structure prediction currently available. HHpred is the first server that is based on the pairwise comparison of profile hidden Markov models (HMMs). Whereas most conventional sequence search methods search sequence databases such as UniProt or the NR, HHpred searches alignment databases, like Pfam or SMART. This greatly simplifies the list of hits to a number of sequence families instead of a clutter of single sequences. All major publicly available profile and alignment databases are available through HHpred.
Proper citation: HHpred (RRID:SCR_010276) Copy
http://code.google.com/p/bitseq/
A software application for inferring expression levels of individual transcripts from sequencing (RNA-Seq) data and estimating differential expression (DE) between conditions.
Proper citation: BitSeq (RRID:SCR_009904) Copy
Fosters, promotes, and develops the welfare of the wage earners, job seekers, and retirees of the United States; improves working conditions; advances opportunities for profitable employment; and assures work-related benefits and rights.
Proper citation: U.S. Department of Labor (RRID:SCR_010157) Copy
http://purl.bioontology.org/ontology/BT
A top-domain ontology that provides definitions for the foundational entities of biomedicine as a basic vocabulary to unambiguously describe facts in this domain. It can furthermore serve as top-level model for creating new ontologies for more specific domains or as aid for aligning or improving existing ones.
Proper citation: BioTop Ontology (RRID:SCR_010039) Copy
http://purl.bioontology.org/ontology/ELIG
A set of 1,437 eligibility features that were organized into a feature hierarchy using 80 breast cancer trials.
Proper citation: Eligibility Feature Hierarchy (RRID:SCR_010314) Copy
http://purl.bioontology.org/ontology/EMO
Ontology to describe the active components of the enzyme''s reactions (cofactors, amino acid residues and cognate ligands) and their roles in the reaction. EMO builds upon this by formalizing key concepts, and the relationships between them, necessary to define enzymes and their functions. This describes not only the general features of an enzyme, including the EC number (catalytic activity), 3D structure and cellular locations, but also allows for the detailed annotation of the mechanism. This mechanistic detail can be either at a gross level (overall reaction only), or the more detailed granularity of the steps and components required to effect the overall chemical transformation.
Proper citation: Enzyme Mechanism Ontology (RRID:SCR_010315) Copy
http://purl.bioontology.org/ontology/PIERO
An enzyme ontology that deals with partial reactions (transformations)
Proper citation: Enzyme Reaction Ontology for partial chemical perspectives (RRID:SCR_010316) Copy
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