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SciCrunch: Registry

SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, materials, and more - visit SciCrunch to register your resource.

(last updated: Jan 13, 2018)

Physical Resource or Software Tool Software

15,558 Results - per page

Resource NameResource TypeDescriptionKeywordsResource IDProper CitationParent OrganizationRelated ConditionFunding AgencyRelationReferenceWebsite StatusAlternate IDsAlternate URLsOld URLs
University of Salamanca; Salamanca; SpainResource, university, institutionSCR_007833University of Salamanca; Salamanca; Spain, RRID:SCR_007833Last checked upnlx_149149
Butler University; Indiana; USAResource, university, institutionSCR_011127Butler University; Indiana; USA, RRID:SCR_011127Last checked upnlx_14629
Ramapo College; New Jersey; USAResource, university, institutionSCR_011490Ramapo College; New Jersey; USA, RRID:SCR_011490Last checked upnlx_97742
WaveCNVResource, software resourceCancer specific CNV caller for Next Generation sequence.cancerSCR_012244WaveCNV, RRID:SCR_012244listed by: OMICtoolsPMID:24192544Last checked upOMICS_00353
Epilepsy FoundationResource, topical portal, portal, data or information resourceThe Epilepsy Foundation of America is the national voluntary agency dedicated solely to the welfare of the almost 3 million people with epilepsy in the U.S. and their families. The organization works to ensure that people with seizures are able to participate in all life experiences; to improve how people with epilepsy are perceived, accepted and valued in society; and to promote research for a cure. :Typical of the Foundations national programs are its Jeanne A. Carpenter Epilepsy Legal Defense Fund, the H.O.P.E. (Helping Other People with Epilepsy) Mentoring Program, a Public Policy Institute, Seniors and Womens Health Initiatives, the Kids Speak Up advocacy program, a school personnel training program, outreach to youth and to the Hispanic community, employment programs and a research grants program. Services commonly provided in local communities are information and referral, counseling, patient and family advocacy, school and community education, support groups and camps for children. Its Web site offers the most comprehensive, medically approved consumer information about epilepsy and seizures on the Internet and is the trusted source for millions of people who seek reliable information about epilepsy. : Each year the Foundation also invites research investigators to apply for grants and fellowships to test new ideas and follow new research leads. The applications, more than a hundred in an average year, are ranked according to merit by a blue ribbon panel of research scientists, and funded according to available resources. Additionally, the Epilepsy Foundation offers a series of training fellowships in basic, clinical and behavioral science to scientists at the start of their careers. These fellowships, awarded to young people at the nation's leading research institutes, have in many cases been the first steps on a lifetime commitment to solving the medical and scientific puzzle of why epilepsy develops and how it can be treated or prevented. Specifically, the Gowers Fellowship is awarded annually to a physician/scientist who is embarking on a career in academic clinical medicine and who wishes to undertake a specific project in epilepsy research. Sponsors: The Epilepsy Foundation is funded primarily through individual donations from the general public and receives restricted grant support from the federal government, foundations and private industry.education, epilepsy, fellowship, funding, cure, health, mentoring, patient, research, seizure, service, support, treatment, welfareSCR_000026Epilepsy Foundation, RRID:SCR_000026Last checked upnif-0000-10220
AptagenResource, service resource, commercial organization, core facility, access service resourceSupplier of aptamers, RNA or DNA that binds with high affinity and specificity to targets such as small organics, peptides, proteins, cells, and tissues. Unlike antibodies, some aptamers exhibit stereoselectivity. In addition, aptamers have been generated that exhibit greater than 10,000-fold binding affinity for theophylline over caffeine, which differ from one another in structure by only a single methyl group.SCR_012607Aptagen, RRID:SCR_012607listed by: Science ExchangeLast checked downSciEx_534
AutoDockResource, software resourceSoftware designed to predict how small molecules, such as substrates or drug candidates, bind to a receptor of known 3D structure.SCR_012746AutoDock, RRID:SCR_012746listed by: OMICtoolsLast checked upOMICS_01594
StataResource, software resource, commercial organizationA Software resource for statistical analysis and presentation of graphics.SCR_012763Stata, RRID:SCR_012763Last checked upnlx_156918
Southern Illinois University; Illinois; USAResource, university, institutionSCR_012873Southern Illinois University; Illinois; USA, RRID:SCR_012873Last checked upnlx_144047
University of Ioannina; Ioannina; GreeceResource, university, institutionSCR_005010University of Ioannina; Ioannina; Greece, RRID:SCR_005010related to: GetRealLast checked upnlx_158516
Augustus: Gene PredictionResource, software resource, software application, data analysis software, data processing softwareAUGUSTUS is a program that predicts genes in eukaryotic genomic sequences. It can be run on this web server or be downloaded and run locally. It is open source so you can compile it for your computing platform. You can now run AUGUSTUS on the German MediGRID. This enables you to submit larger sequence files and allows to use protein homology information in the prediction. The MediGRID requires an instant easy registration by email for first-time users. Features: :- The download version of AUGUSTUS can incorporate data from RNA-Seq (short cDNA reads, single or paired-end, e.g. from Illumina or SOLiD) as documented here (November 1, 2009). :- We now have a fully automatic annotation pipeline for download with the distribution. For a new genome you can feed the pipeline only with your sequences, a genome and EST or 454 reads, and then you get your genome-wide predictions out. Training is done automatically. (June 26th, 2009) :- The results can be displayed automatically in the genome browser Gbrowse. You can browse the gene predictions together with the input sequence, the constraints and the cDNA alignments. Gbrowse also enables you to simultaneously display your own annotation and to export the image in scalable vector graphics format. :- You can upload cDNA sequences together with the genomic DNA. Your ESTs or mRNA will be used to improve the gene prediction. :- AUGUSTUS ususally belongs to the most accurate programs for the species it is trained for. Often it is the most accurate ab initio program. For example, at the independent gene finder assessment (EGASP) on the human ENCODE regions AUGUSTUS was the most accurate gene finder among the tested ab initio programs. At the more recent nGASP (worm), it was among the best in the ab initio and transcript-based categories. :- AUGUSTUS is retrainable. It comes with a training program that estimates the parameters given a training set of known genes. It also comes with an optimization script that tries to find values for the meta parameters, like splice window sizes, that optimize the prediction accuracy. :- AUGUSTUS can be used ab initio and has a flexible mechanism for incorporating extrinsic information, e.g. from EST alignments and protein alignments. :- AUGUSTUS can predict alternative splicing and alternative transcripts. :- AUGUSTUS can predict the 5''UTR and 3''UTR including introns. This is in particular helpful when using EST alignments as the majority of ESTs aligns in the untranslated regions. This feature is currently only trained for human, the red algae Galdieria sulphuraria, Caenorhabditis elegans, Toxoplasma gondii, Chlamydomonas reinhardtii, pea aphid and Culex pipens (3''UTR only). :- AUGUSTUS can report a large number of alternative genes, including probabilities for the transcripts and each exon and intron. You can make AUGUSTUS predict suboptimal gene structures and you can adjust command line paramters to regulate the number of reported alternatives. AUGUSTUS has currently been trained on species specific training sets to predict genes in various species. Note that for closely related species usually only one version is necessary. For example, the human version is good for all mammals. Sponsors: Augustus is supported by UCSC. Keywords: Software, Eukaryotic, Genomic, Sequence, Computation, Homology, Genome, cDNA, Alignment, Vector, mRNA, Compilation, Specie, Mammal, Human,SCR_008417Augustus: Gene Prediction, RRID:SCR_008417Last checked upnif-0000-30133
Murdoch University; Perth; AustraliaResource, university, institutionSCR_011037Murdoch University; Perth; Australia, RRID:SCR_011037Last checked upnlx_11001
Hong Kong Baptist University; Hong Kong; ChinaResource, university, institutionSCR_011288Hong Kong Baptist University; Hong Kong; China, RRID:SCR_011288Last checked upnlx_157680
GENEWEAVERResource, software resource, software applicationSoftware application for charting family medical/health history (entry from Genetic Analysis Software)gene, genetic, genomic, ms-windows, (95/98/2000/nt/xp)SCR_009202GENEWEAVER, RRID:SCR_009202listed by: Genetic Analysis SoftwareLast checked downnlx_154343
SignalwayResource, commercial organization, reagent supplier, material resource, antibody supplierAn Antibody supplierSCR_003659Signalway, RRID:SCR_003659Last checked upnlx_152462
LSID Web ResolverResource, data or information resource, databaseA web based life sciences identifier (LSID) resolution service allows you to view the data and metadata of an LSID with a web browser. This service will display the metadata, formatted as a standard webpage, for any LSID.SCR_009737LSID Web Resolver, RRID:SCR_009737Last checked downnlx_156874
NURDResource, software resourceAn algorithm to inference isoform expression.SCR_010988NURD, RRID:SCR_010988listed by: OMICtoolsLast checked upOMICS_01283
Health CanadaResource, government granting agencySCR_011274Health Canada, RRID:SCR_011274Last checked upnlx_152114
scikit-learnResource, software resource, software applicationscikit-learn: machine learning in Pythonalgorithm, discriminant analysis, independent component analysis, linear, macos, microsoft, modeling, magnetic resonance, nonlinear, posix/unix-like, principal component analysis, python, regression, statistical operation, windows, data mining, data analysis, classification, clustering, dimensionality reduction, model selection, preprocessing, machine learningSCR_002577scikit-learn, RRID:SCR_002577listed by: NITRCLast checked upnlx_155979http://www.nitrc.org/projects/scikit-learn
EtherpadResource, software resource, collaboration tool, software application, authoring tool, web applicationWeb application for real-time collaborative editing. It provides customizable options, a documented API and the ability to convert to various data exchange formats.online word processor, collaborative application, writing toolSCR_002611Etherpad, RRID:SCR_002611listed by: FORCE11Last checked upnlx_156044
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