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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.

(last updated: Sep 14, 2019)

Physical Resource or Software Tool Software

281 Results - per page

Resource NameResource TypeDescriptionKeywordsResource IDProper CitationParent OrganizationRelated ConditionFunding AgencyRelationReferenceWebsite StatusAlternate IDsAlternate URLsOld URLs
Eutectic NTSResource, software resource, resourceTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. A hardware and software package with which a scientist could trace the structure of neurons and other neuroscientific features directly from tissue sections or from a stack of their images into a computer. Then it also could edit, merge, filter, display in 3D, and make realistic plots of the structures. The NTS also includes a substantial statistical package that provided many, now standardized, mathematical and statistical summaries that described each neuron and compared one population to another. Additionally, NTS also provided an embryonic electrotonic modeler that simulates and displayes the electrical functioning of a cell. The NTS uses a special purpose graphics display processor called the VDP3 whose output is presented on a very high resolution CRT. During tracing, the VDP3 presents a variable-diameter cursor and other information directly in the microscope and enables tracing at a high spatial resolution and with measurement of process diameters limited only by the microscope''s optics. Control of tracing is done with a 3D joystick that allows easy control of five input variables: X,Y,Z position, cursor diameter, and a numeric tag. Finally, superb 3D interactive displays of completed cells are provided on the VDP3.embryonic electronic modeler, cell, hardware, microscope, neuron, optics, software, neuronal tree structure, dendritic tree, segmentation, instrument, equipmentSCR_008062(Eutectic NTS, RRID:SCR_008062)NIDALast checked downnif-0000-10453
International Database of Tetrahydrobiopterin DeficienciesResource, data or information resource, databaseTHIS RESOURCE IS NO LONGER IN SERVICE, documented on August 26, 2016. The BIODEF database have tabulated the most common clinical and laboratory data related to hyperphenylalaninaemia and tetrahydrobiopterin deficiencies. Additionally, there are data regarding treatment, outcome, and DNA analysis. Approximately 2% of newborns with hyperphenylalaninaemia are deficient in tetrahydrobiopterin. Selective screening must be performed in all instances where hyperphenylalaninaemia is detected by neonatal screening. In the last 20 years, 308 patients with tetrahydrobiopterin deficiencies have been recognized as a result of screening carried out, worldwide, in Departments of Paediatrics. Of these 308 patients, 181 suffered from 6-pyruvoyltetrahydropterin synthase deficiency, 92 from dihydropteridine reductase deficiency, 13 from pterin-4a-carbinolamine dehydratase deficiency, 12 from GTP cyclohydrolase I deficiency, and 10 are still unclassified. The BIODEF database have tabulated the most common clinical and laboratory data related to hyperphenylalaninaemia and tetrahydrobiopterin deficiencies. Additionally, there are data regarding treatment, outcome, and DNA analysis. Preliminary evaluation reveals that the degree of hyperphenylalaninaemia can vary from normal to 2500 mumol/L. Analyses of pterins in urine and measurement of dihydropteridine reductase activity from Guthrie cards are absolutely essential tests for accurate diagnosis. There is a regional (demographic) variation in the frequency of tetrahydrobiopterin deficiencies indicating the highest incidence in Saudi Arabia, probably a consequence of the high consanguinity rate.ethnic, frequency, 6-pyruvoyltetrahydropterin synthase deficiency, analysis, bh4, clinical, deficiency, demographic, diagnosis, dihydropteridine reductase deficiency, dna, gtp cyclohydrolase i deficiency, hyperphenylalaninaemia, measurement, neonatal, origin, outcome, pterin, pterin-4a-carbinolamine dehydratase deficiency, sex, tetrahydrobiopterin, treatment, urineSCR_008171(International Database of Tetrahydrobiopterin Deficiencies, RRID:SCR_008171)Last checked downnif-0000-21052
TB Consortium Bias Removal ServerResource, software resourceTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. Map improvement server that returns a bias minimized, 6-fold averaged map generated from a model and diffraction data (with optional preceding Molecular Replacement). It does not build or repair the model for you (yet). For automated model building, you need to install a local copy of CCP4 and ARP/wARP (aka wARP&Trace), RESOLVE, MAID, or TEXTAL.map, server, diffraction, data, electron, density, model, softwareSCR_008425(TB Consortium Bias Removal Server, RRID:SCR_008425)Texas A and M University; Texas; USA Last checked downnif-0000-30172
PROTOTYPE - Suspected Overlap Among OBO Foundry Candidate OntologiesResource, analysis service resource, data analysis service, service resource, production service resourceTHIS RESOURCE IS NO LONGER IN SERVCE, documented September 2, 2016. Service that determines the Suspected Overlap Among OBO Foundry Candidate Ontologies.SCR_008834(PROTOTYPE - Suspected Overlap Among OBO Foundry Candidate Ontologies, RRID:SCR_008834)National Center for Biomedical Ontology Last checked downnlx_144632
KI Biobank - EXTResource, disease-related portal, topical portal, research forum portal, biomaterial supply resource, portal, material resource, data or information resourceTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 29, 2016. The aim of EXT (extinction) is to investigate the relation between specific genetic variations and cognitive control process in fear. Blood samples will be collected from about 300 healthy, young individuals (age 18-35).genetic variation, cognitive control, fear, healthy, early adult, geneSCR_008875(KI Biobank - EXT, RRID:SCR_008875)Karolisnka Biobank Healthy, Aginglisted by: One Mind Biospecimen Bank ListingLast checked downnlx_149601
PAMGOResource, ontology, data or information resource, controlled vocabularyTHIS RESOURCE IS NO LONGER IN SERVICE, documented on June 10, 2016. A consortium that created universal descriptors to describe functionally similar gene products and their attributes across all organisms. In 2004, the PAMGO interest group joined the GO consortium to extend the GO to include terms describing various processes related to microbe-host interactions. The organization uses a controlled vocabulary to set a process in place to describe plant associated microbes and their interactions with their plant-hosts. These higher order terms can describe gene products of all types of symbionts (e.g. parasites, commensals, and mutualists), including prokaryotes and eukaryotes that associate with plant or animal hosts. This initiative is a multi-institutional collaborative effort to pool information and research in: the bacteria Dickeya dadantii, Pseudomonas syringae pv tomato and Agrobacterium tumefaciens, the fungus Magnaporthe grisea, the oomycetes Phytophthora sojae and Phytophthora ramorum, and the nematode Meloidogyne hapla.ontology, plant ontology, microbe-host, controlled vocabulary, symbiosis, parasite, mutualist, commensalSCR_000022(PAMGO, RRID:SCR_000022)Virginia Polytechnic Institute and State University; Virginia; USA NSFaffiliated with: Cornell University, New York, USA, North Carolina State University, North Carolina, USA, University of Wisconsin-Madison, Wisconsin, USA, Virginia Bioinformatics InstituteLast checked downnlx_92278
GOALIEResource, software resourceTHIS RESOURCE IS NO LONGER IN SERVCE, documented September 2, 2016. Generalized Ontological Algorithmic Logical Invariants Extractor (GOALIE) is a tool for the construction of time-course dependent enrichments. Requires an ODBC connection to an instance of the GO database. Platform: Windows compatible, Mac OS X compatible, Linux compatiblegene ontology, statistical analysis, time-courseSCR_000088(GOALIE, RRID:SCR_000088)NYU Bioinformatics Group listed by: Gene Ontology ToolsLast checked downnlx_149255
Symptom Score for Benign Prostatic HyperplasiaResource, material resource, assessment test providerTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016. Adapted from the American Urology Association Symptom Score for Benign Prostatic Hyperplasia, this chart will assist physicians, researchers, and patients in assessing the severity of the problem.severity, symptom, prostateSCR_000127(Symptom Score for Benign Prostatic Hyperplasia, RRID:SCR_000127)NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases Benign Prostatic Hyperplasialisted by: NIDDK Information Network, submitted by: NIDDK Information NetworkLast checked downnlx_152737https://www.niddk.nih.gov/health-information/health-topics/urologic-disease/benign-prostatic-hyperplasia-bph/pages/facts.aspx
CoGenT++Resource, data or information resource, databaseTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 26, 2016. A data environment for computational research in comparative and functional genomics, designed to address issues of consistency, reproducibility, scalability and accessibility.computation, genomics, data environment, functional genomicsSCR_000249(CoGenT++, RRID:SCR_000249)European Bioinformatics Institute PMID:16216832Last checked downnif-0000-02674http://cgg.ebi.ac.uk/cgg/cpp_sitemap.html
Malaysian Tissue BankResource, biomaterial supply resource, material resource, tissue bankTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016.SCR_000331(Malaysian Tissue Bank, RRID:SCR_000331)Last checked downnlx_67604
Protein-Protein Interactions Table for Human herpesvirus 1Resource, data or information resource, databaseTHIS RESOURCE IS NO LONGER IN SERVICE, documented on August 26, 2016. The scope of the project includes molecular information pertaining to oral pathogens, bacterial and viral. The website contains a table of protein-protein interactions for human herpesvirus 1. It is operated for the U.S. Department of Energy's National Nuclear Security Administration.bacterial, herpesvirus 1, pathogen, protein, viralSCR_000397(Protein-Protein Interactions Table for Human herpesvirus 1, RRID:SCR_000397)Last checked downnif-0000-20905http://semiglobe.lanl.gov/microbe.php?class=virus
FluWikie.comResource, topical portal, portal, data or information resourceTHIS RESOURCE IS NO LONGER IN SERVCE, documented September 6, 2016. Flu Wikie is a topical portal on the flu. Major categories include health, Flu Symptoms, Avian Influenza, Swine Flu, Cold, Vaccination, Pandemic, Vitamin D, and Immune System. Many articles on topic are included.virusSCR_000506(FluWikie.com, RRID:SCR_000506)Last checked downnlx_22823
TFFACTORResource, data set, data or information resourceTHIS RESOURCE IS NO LONGER IN SERVICE, documented on July 13, 2016.\\n\\nA dataset about transcriptional regulation in eukaryotic cells, including data such as transcription factors and their binding sites and profiles. Resource is in Chinese.data, transcription, regulation, eukaryotic, binding, siteSCR_000519(TFFACTOR, RRID:SCR_000519)Computational Biology Research Center related to: TFSEARCH: Searching Transcription Factor Binding SitesPMID:9399875Last checked downnlx_39049
KI Biobank - PAINResource, disease-related portal, topical portal, research forum portal, biomaterial supply resource, portal, material resource, data or information resourceTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 29, 2016. Aims to investigate the relation between specific genetic variations, personality factors and pain experience in healthy subjects.genetic variation, personality factor, pain, gene, personalitySCR_000610(KI Biobank - PAIN, RRID:SCR_000610)Karolisnka Biobank Healthylisted by: One Mind Biospecimen Bank ListingLast checked downnlx_149607
PRACSIS - Prognosis and Risk in Acute Coronary Syndromes In SwedenResource, disease-related portal, topical portal, research forum portal, biomaterial supply resource, portal, material resource, data or information resourceTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. PRACSIS (Prognosis and Risk in Acute Coronary Syndromes In Sweden) aims to study prognosis and its predictors in a consecutive series of patients with acute coronary syndrome (ACS). The study is comprised of patients between 18 and 80 years diagnosed at the coronary care unit at the Sahlgrenska University Hospital with unstable angina, non-ST-elevation MI or ST-elevation MI. Extensive information on medical history and blood samples for analyses of biochemical markers and genetic factors have been collected.cardiac disease, predictor, prognosis, medical history, biochemical marker, genetic factor, biomarker, gene, genetics, adultSCR_000615(PRACSIS - Prognosis and Risk in Acute Coronary Syndromes In Sweden, RRID:SCR_000615)Karolisnka Biobank Acute coronary syndromelisted by: One Mind Biospecimen Bank ListingLast checked downnlx_151442
MRI WatcherResource, data visualization software, software application, data processing software, software resourceTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. A visualization tool for MRI images which handles several formats (.gipl,.mha,.hdr). It uses integrated coupled cursors to show the differences between images. It can load an overlay image and make screenshots.magnetic resonance imaging, 3d spatial image, correlated imagingSCR_000710(MRI Watcher, RRID:SCR_000710)University of North Carolina at Chapel Hill; North Carolina; USA Last checked downnif-0000-00332
Retinoblastoma GeneticsResource, data or information resource, databaseTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016. A website that provides access to a database, nomenclature, fac sheets, downloadable slides, and other information regarding RB1 gene mutations.SCR_000742(Retinoblastoma Genetics, RRID:SCR_000742)Last checked downnif-0000-03389http://www.verandi.de/joomla/
FUGOID: a Database for Functional Genomics of Organelle IntronsResource, data or information resource, databaseTHIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. FUGOID is a database for functional genomics of organelle introns. The taxonomically broad organelle intron database contains comprehensive functional and structural information on organellar (mitochondria and chloroplast) introns. FUGOID collects and integrates various structural and functional data on organellar (mitochondrial and chloroplast) introns, particularly functional information about intron splicing and mobility. It is implemented in a relational database management system and can be searched either by intron information or by a major reference. Data entry and revision systems have also been developed.functional genomics, cholorplast intron, intron mobility, intron splicing, mitochnodrial intron, organelle intronsSCR_000734(FUGOID: a Database for Functional Genomics of Organelle Introns, RRID:SCR_000734)University of Texas at Austin; Texas; USA Last checked downnif-0000-02855http://fugoid.webhost.utexas.edu/introndata/main.htm
GOLD.db - Genomics Of Lipid-associated DisordersResource, data or information resource, databaseTHIS RESOURCE IS NO LONGER IN SERVICE, documented July 22, 2016. A database that integrates information on the function and properties of genes and their protein products relevant to lipid-associated disorders. GOLD.db provides information such as the biology, diagnosis management, treatment and prevention of such disorders like non-insulin dependent diabetes, various hyperlipedemias, high blood pressure and atherosclerosis. Resources include the biological pathways, data sets, microarray protocols and other experimental standards, analytical tools, and reagents.lipid, disorder, diabetes, insulin, hyperlipedemia, blood pressure, athersclerosis, microarray, reagent, biologySCR_000736(GOLD.db - Genomics Of Lipid-associated Disorders, RRID:SCR_000736)PMID:15588328Last checked downnif-0000-02919http://gold.tugraz.at
Infectious Disease Biomarker DatabaseResource, data or information resource, databaseTHIS RESOURCE IS NO LONGER IN SERVICE, documented July 22, 2016. A database of biomarkers for diagnosis, detection, protection and characterization of infectious diseases. It provides information on pathogens and biomarkers, such as nucleic acids, proteins, carbohydrates, and immune epitopes. The site links to global news and life science journal search engines as well as provides links to tool functions for gene sequence and protein structure analyses.biomarker, diagnosis, detection, protection, characterization, infectious disease, modeling, simulationSCR_000737(Infectious Disease Biomarker Database, RRID:SCR_000737)Korea University; Seoul; South Korea PMID:17982173Last checked downnif-0000-03007http://biomarker.korea.ac.kr http://biomarker.korea.ac.kr/index_en.jsp
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